SMED30028033

Overview
NameSMED30028033
Smed IDSMED30028033
Length (bp)734
Neoblast Clusters

Zeng et. al., 2018




▻ Overview

▻ Neoblast Population

 



 

Overview

 

Single cell RNA-seq of pluripotent neoblasts and its early progenies


We isolated X1 neoblasts cells enriched in high piwi-1 expression (Neoblast Population), and profiled ∼7,614 individual cells via scRNA-seq. Unsupervised analyses uncovered 12 distinct classes from 7,088 high-quality cells. We designated these classes Nb1 to Nb12 and ordered them based on high (Nb1) to low (Nb12) piwi-1 expression levels. We further defined groups of genes that best classified the cells parsed into 12 distinct cell clusters to generate a scaled expression heat map of discriminative gene sets for each cluster. Expression of each cluster’s gene signatures was validated using multiplex fluorescence in situ hybridization (FISH) co-stained with piwi-1 and largely confirmed the cell clusters revealed by scRNA-seq.

We also tested sub-lethal irradiation exposure. To profile rare pluripotent stem cells (PSCs) and avoid interference from immediate progenitor cells, we determined a time point after sub-lethal irradiation (7 DPI) with minimal piwi-1+ cells, followed by isolation and single-cell RNA-seq of 1,200 individual cells derived from X1 (Piwi-1 high) and X2 (Piwi-1 low) cell populations (Sub-lethal Irradiated Surviving X1 and X2 Cell Population)




Explore this single cell expression dataset with our NB Cluster Shiny App




 

Neoblast Population

 

t-SNE plot shows two-dimensional representation of global gene expression relationships among all neoblasts (n = 7,088 after filter). Cluster identity was assigned based on the top 10 marker genes of each cluster (Table S2), followed by inspection of RNA in situ hybridization patterns. Neoblast groups, Nb.


Expression of SMED30028033 (SMED30028033) t-SNE clustered cells

Violin plots show distribution of expression levels for SMED30028033 (SMED30028033) in cells (dots) of each of the 12 neoblast clusters.

 

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Embryonic Expression

Davies et. al., 2017




Hover the mouse over a column in the graph to view average RPKM values per sample.
Sort Descending | Sort Ascending | Only Non-Zero Values | Tile/Chart | Reset

Embryonic Stages: Y: yolk. S2-S8: Stages 2-8. C4: asexual adult. SX: virgin, sexually mature adult.
For further information about sample preparation and analysis for the single animal RNA-Seq experiment, please refer to the Materials and Methods

 

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Anatomical Expression

PAGE et. al., 2020




SMED30028033

has been reported as being expressed in these anatomical structures and/or regions. Read more about PAGE



PAGE Curations: 117

  
Expressed InReference TranscriptGene ModelsPublished TranscriptTranscriptomePublicationSpecimenLifecycleEvidence
parenchymal cellSMED30028033h1SMcG0005839 dd_Smed_v4_9156_0_1dd_Smed_v4PMID:29674431
Fincher et al., 2018
FACS sorted cell population asexual adult single-cell RNA-sequencing evidence
nervous systemSMED30028033h1SMcG0005839 dd_Smed_v4_9473_0_1dd_Smed_v4PMID:29674431
Fincher et al., 2018
FACS sorted cell population asexual adult single-cell RNA-sequencing evidence
parenchymaSMED30028033h1SMcG0005839 dd_Smed_v4_9473_0_1dd_Smed_v4PMID:29674431
Fincher et al., 2018
FACS sorted cell population asexual adult single-cell RNA-sequencing evidence
parenchymal cellSMED30028033h1SMcG0005839 dd_Smed_v4_9473_0_1dd_Smed_v4PMID:29674431
Fincher et al., 2018
FACS sorted cell population asexual adult single-cell RNA-sequencing evidence
nervous systemSMED30028033h1SMcG0005842 dd_Smed_v4_2238_1_1dd_Smed_v4PMID:29674431
Fincher et al., 2018
FACS sorted cell population asexual adult single-cell RNA-sequencing evidence
epidermisSMED30028033h1SMcG0005842 dd_Smed_v4_2238_1_1dd_Smed_v4PMID:29674431
Fincher et al., 2018
FACS sorted cell population asexual adult single-cell RNA-sequencing evidence
cephalic gangliaSMED30028033h1SMcG0005838 dd_Smed_v4_21787_0_1dd_Smed_v4PMID:29674431
Fincher et al., 2018
FACS sorted cell population asexual adult single-cell RNA-sequencing evidence
parenchymal cellSMED30028033h1SMcG0005838 dd_Smed_v4_21787_0_1dd_Smed_v4PMID:29674431
Fincher et al., 2018
FACS sorted cell population asexual adult single-cell RNA-sequencing evidence
epidermisSMED30028033h1SMcG0005817 dd_Smed_v4_5097_0_1dd_Smed_v4PMID:28292427
Wurtzel et al., 2017
whole organism asexual adult single-cell RNA-sequencing evidence
epidermisSMED30028033h1SMcG0005823 dd_Smed_v4_5097_0_1dd_Smed_v4PMID:28292427
Wurtzel et al., 2017
whole organism asexual adult single-cell RNA-sequencing evidence
epidermisSMED30028033h1SMcG0005839 dd_Smed_v4_2238_1_1dd_Smed_v4PMID:28292427
Wurtzel et al., 2017
whole organism asexual adult single-cell RNA-sequencing evidence
epidermisSMED30028033h1SMcG0005841 dd_Smed_v4_2238_1_1dd_Smed_v4PMID:28292427
Wurtzel et al., 2017
whole organism asexual adult single-cell RNA-sequencing evidence
epidermisSMED30028033h1SMcG0005839 dd_Smed_v4_9473_0_1dd_Smed_v4PMID:28292427
Wurtzel et al., 2017
whole organism asexual adult single-cell RNA-sequencing evidence
epidermisSMED30028033h1SMcG0005842 dd_Smed_v4_2238_1_1dd_Smed_v4PMID:28292427
Wurtzel et al., 2017
whole organism asexual adult single-cell RNA-sequencing evidence
epidermisSMED30028033h1SMcG0005838 dd_Smed_v4_16984_0_1dd_Smed_v4PMID:28292427
Wurtzel et al., 2017
whole organism asexual adult single-cell RNA-sequencing evidence
epidermisSMED30028033h1SMcG0005817 dd_Smed_v4_5097_0_1dd_Smed_v4PMID:28292427
Wurtzel et al., 2017
whole organism asexual adult single-cell RNA-sequencing evidence
epidermisSMED30028033h1SMcG0005823 dd_Smed_v4_5097_0_1dd_Smed_v4PMID:28292427
Wurtzel et al., 2017
whole organism asexual adult single-cell RNA-sequencing evidence
epidermisSMED30028033h1SMcG0005839 dd_Smed_v4_2238_1_1dd_Smed_v4PMID:28292427
Wurtzel et al., 2017
whole organism asexual adult single-cell RNA-sequencing evidence
epidermisSMED30028033h1SMcG0005841 dd_Smed_v4_2238_1_1dd_Smed_v4PMID:28292427
Wurtzel et al., 2017
whole organism asexual adult single-cell RNA-sequencing evidence
epidermisSMED30028033h1SMcG0005839 dd_Smed_v4_9473_0_1dd_Smed_v4PMID:28292427
Wurtzel et al., 2017
whole organism asexual adult single-cell RNA-sequencing evidence
epidermisSMED30028033h1SMcG0005842 dd_Smed_v4_2238_1_1dd_Smed_v4PMID:28292427
Wurtzel et al., 2017
whole organism asexual adult single-cell RNA-sequencing evidence
epidermisSMED30028033h1SMcG0005838 dd_Smed_v4_16984_0_1dd_Smed_v4PMID:28292427
Wurtzel et al., 2017
whole organism asexual adult single-cell RNA-sequencing evidence
epidermisSMED30028033h1SMcG0005817 dd_Smed_v4_5097_0_1dd_Smed_v4PMID:28292427
Wurtzel et al., 2017
whole organism asexual adult single-cell RNA-sequencing evidence
epidermisSMED30028033h1SMcG0005823 dd_Smed_v4_5097_0_1dd_Smed_v4PMID:28292427
Wurtzel et al., 2017
whole organism asexual adult single-cell RNA-sequencing evidence
epidermisSMED30028033h1SMcG0005839 dd_Smed_v4_2238_1_1dd_Smed_v4PMID:28292427
Wurtzel et al., 2017
whole organism asexual adult single-cell RNA-sequencing evidence
epidermisSMED30028033h1SMcG0005841 dd_Smed_v4_2238_1_1dd_Smed_v4PMID:28292427
Wurtzel et al., 2017
whole organism asexual adult single-cell RNA-sequencing evidence
epidermisSMED30028033h1SMcG0005839 dd_Smed_v4_9473_0_1dd_Smed_v4PMID:28292427
Wurtzel et al., 2017
whole organism asexual adult single-cell RNA-sequencing evidence
epidermisSMED30028033h1SMcG0005842 dd_Smed_v4_2238_1_1dd_Smed_v4PMID:28292427
Wurtzel et al., 2017
whole organism asexual adult single-cell RNA-sequencing evidence
epidermisSMED30028033h1SMcG0005838 dd_Smed_v4_16984_0_1dd_Smed_v4PMID:28292427
Wurtzel et al., 2017
whole organism asexual adult single-cell RNA-sequencing evidence
intestinal phagocyteSMED30028033h1SMcG0005839 Contig92newmark_estsPMID:23079596
Forsthoefel et al., 2012
FACS sorted cell population asexual adult cDNA to DNA expression microarray evidence
intestinal phagocyteSMED30028033h1SMcG0005839 Contig92uc_Smed_v2PMID:23079596
Forsthoefel et al., 2012
FACS sorted cell population asexual adult cDNA to DNA expression microarray evidence
intestinal phagocyteSMED30028033h1SMcG0005834 Contig92newmark_estsPMID:23079596
Forsthoefel et al., 2012
FACS sorted cell population asexual adult cDNA to DNA expression microarray evidence
intestinal phagocyteSMED30028033h1SMcG0005834 Contig92uc_Smed_v2PMID:23079596
Forsthoefel et al., 2012
FACS sorted cell population asexual adult cDNA to DNA expression microarray evidence
intestinal phagocyteSMED30028033h1SMcG0005911 Contig92newmark_estsPMID:23079596
Forsthoefel et al., 2012
FACS sorted cell population asexual adult cDNA to DNA expression microarray evidence
intestinal phagocyteSMED30028033h1SMcG0005911 Contig92uc_Smed_v2PMID:23079596
Forsthoefel et al., 2012
FACS sorted cell population asexual adult cDNA to DNA expression microarray evidence
intestinal phagocyteSMED30028033h1SMcG0005839 Contig92newmark_estsPMID:23079596
Forsthoefel et al., 2012
FACS sorted cell population asexual adult cDNA to DNA expression microarray evidence
intestinal phagocyteSMED30028033h1SMcG0005839 Contig92uc_Smed_v2PMID:23079596
Forsthoefel et al., 2012
FACS sorted cell population asexual adult cDNA to DNA expression microarray evidence
intestinal phagocyteSMED30028033h1SMcG0005834 Contig92newmark_estsPMID:23079596
Forsthoefel et al., 2012
FACS sorted cell population asexual adult cDNA to DNA expression microarray evidence
intestinal phagocyteSMED30028033h1SMcG0005834 Contig92uc_Smed_v2PMID:23079596
Forsthoefel et al., 2012
FACS sorted cell population asexual adult cDNA to DNA expression microarray evidence
intestinal phagocyteSMED30028033h1SMcG0005911 Contig92newmark_estsPMID:23079596
Forsthoefel et al., 2012
FACS sorted cell population asexual adult cDNA to DNA expression microarray evidence
intestinal phagocyteSMED30028033h1SMcG0005911 Contig92uc_Smed_v2PMID:23079596
Forsthoefel et al., 2012
FACS sorted cell population asexual adult cDNA to DNA expression microarray evidence
intestinal phagocyteSMED30028033h1SMcG0005839 Contig92newmark_estsPMID:23079596
Forsthoefel et al., 2012
FACS sorted cell population asexual adult cDNA to DNA expression microarray evidence
intestinal phagocyteSMED30028033h1SMcG0005839 Contig92uc_Smed_v2PMID:23079596
Forsthoefel et al., 2012
FACS sorted cell population asexual adult cDNA to DNA expression microarray evidence
intestinal phagocyteSMED30028033h1SMcG0005834 Contig92newmark_estsPMID:23079596
Forsthoefel et al., 2012
FACS sorted cell population asexual adult cDNA to DNA expression microarray evidence
intestinal phagocyteSMED30028033h1SMcG0005834 Contig92uc_Smed_v2PMID:23079596
Forsthoefel et al., 2012
FACS sorted cell population asexual adult cDNA to DNA expression microarray evidence
intestinal phagocyteSMED30028033h1SMcG0005911 Contig92newmark_estsPMID:23079596
Forsthoefel et al., 2012
FACS sorted cell population asexual adult cDNA to DNA expression microarray evidence
intestinal phagocyteSMED30028033h1SMcG0005911 Contig92uc_Smed_v2PMID:23079596
Forsthoefel et al., 2012
FACS sorted cell population asexual adult cDNA to DNA expression microarray evidence
pharynxSMED30028033h1SMcG0005817 dd_Smed_v4_5097_0_1dd_Smed_v4PMID:29674431
Fincher et al., 2018
FACS sorted cell population asexual adult single-cell RNA-sequencing evidence
nervous systemSMED30028033h1SMcG0005817 dd_Smed_v4_5097_0_1dd_Smed_v4PMID:29674431
Fincher et al., 2018
FACS sorted cell population asexual adult single-cell RNA-sequencing evidence
epidermisSMED30028033h1SMcG0005817 dd_Smed_v4_5097_0_1dd_Smed_v4PMID:29674431
Fincher et al., 2018
FACS sorted cell population asexual adult single-cell RNA-sequencing evidence
cephalic gangliaSMED30028033h1SMcG0005817 dd_Smed_v4_5097_0_1dd_Smed_v4PMID:29674431
Fincher et al., 2018
FACS sorted cell population asexual adult single-cell RNA-sequencing evidence
neuronSMED30028033h1SMcG0005817 dd_Smed_v4_5097_0_1dd_Smed_v4PMID:29674431
Fincher et al., 2018
whole organism asexual adult colorimetric in situ hybridization evidence
parenchymal cellSMED30028033h1SMcG0005817 dd_Smed_v4_5097_0_1dd_Smed_v4PMID:29674431
Fincher et al., 2018
FACS sorted cell population asexual adult single-cell RNA-sequencing evidence
pharynxSMED30028033h1SMcG0005823 dd_Smed_v4_5097_0_1dd_Smed_v4PMID:29674431
Fincher et al., 2018
FACS sorted cell population asexual adult single-cell RNA-sequencing evidence
nervous systemSMED30028033h1SMcG0005823 dd_Smed_v4_5097_0_1dd_Smed_v4PMID:29674431
Fincher et al., 2018
FACS sorted cell population asexual adult single-cell RNA-sequencing evidence
epidermisSMED30028033h1SMcG0005823 dd_Smed_v4_5097_0_1dd_Smed_v4PMID:29674431
Fincher et al., 2018
FACS sorted cell population asexual adult single-cell RNA-sequencing evidence
cephalic gangliaSMED30028033h1SMcG0005823 dd_Smed_v4_5097_0_1dd_Smed_v4PMID:29674431
Fincher et al., 2018
FACS sorted cell population asexual adult single-cell RNA-sequencing evidence
neuronSMED30028033h1SMcG0005823 dd_Smed_v4_5097_0_1dd_Smed_v4PMID:29674431
Fincher et al., 2018
whole organism asexual adult colorimetric in situ hybridization evidence
parenchymal cellSMED30028033h1SMcG0005823 dd_Smed_v4_5097_0_1dd_Smed_v4PMID:29674431
Fincher et al., 2018
FACS sorted cell population asexual adult single-cell RNA-sequencing evidence
nervous systemSMED30028033h1SMcG0005839 dd_Smed_v4_2238_1_1dd_Smed_v4PMID:29674431
Fincher et al., 2018
FACS sorted cell population asexual adult single-cell RNA-sequencing evidence
epidermisSMED30028033h1SMcG0005839 dd_Smed_v4_2238_1_1dd_Smed_v4PMID:29674431
Fincher et al., 2018
FACS sorted cell population asexual adult single-cell RNA-sequencing evidence
nervous systemSMED30028033h1SMcG0005841 dd_Smed_v4_2238_1_1dd_Smed_v4PMID:29674431
Fincher et al., 2018
FACS sorted cell population asexual adult single-cell RNA-sequencing evidence
epidermisSMED30028033h1SMcG0005841 dd_Smed_v4_2238_1_1dd_Smed_v4PMID:29674431
Fincher et al., 2018
FACS sorted cell population asexual adult single-cell RNA-sequencing evidence
nervous systemSMED30028033h1SMcG0005839 dd_Smed_v4_9156_0_1dd_Smed_v4PMID:29674431
Fincher et al., 2018
FACS sorted cell population asexual adult single-cell RNA-sequencing evidence
parenchymaSMED30028033h1SMcG0005839 dd_Smed_v4_9156_0_1dd_Smed_v4PMID:29674431
Fincher et al., 2018
FACS sorted cell population asexual adult single-cell RNA-sequencing evidence
parenchymal cellSMED30028033h1SMcG0005839 dd_Smed_v4_9156_0_1dd_Smed_v4PMID:29674431
Fincher et al., 2018
FACS sorted cell population asexual adult single-cell RNA-sequencing evidence
nervous systemSMED30028033h1SMcG0005839 dd_Smed_v4_9473_0_1dd_Smed_v4PMID:29674431
Fincher et al., 2018
FACS sorted cell population asexual adult single-cell RNA-sequencing evidence
parenchymaSMED30028033h1SMcG0005839 dd_Smed_v4_9473_0_1dd_Smed_v4PMID:29674431
Fincher et al., 2018
FACS sorted cell population asexual adult single-cell RNA-sequencing evidence
parenchymal cellSMED30028033h1SMcG0005839 dd_Smed_v4_9473_0_1dd_Smed_v4PMID:29674431
Fincher et al., 2018
FACS sorted cell population asexual adult single-cell RNA-sequencing evidence
nervous systemSMED30028033h1SMcG0005842 dd_Smed_v4_2238_1_1dd_Smed_v4PMID:29674431
Fincher et al., 2018
FACS sorted cell population asexual adult single-cell RNA-sequencing evidence
epidermisSMED30028033h1SMcG0005842 dd_Smed_v4_2238_1_1dd_Smed_v4PMID:29674431
Fincher et al., 2018
FACS sorted cell population asexual adult single-cell RNA-sequencing evidence
cephalic gangliaSMED30028033h1SMcG0005838 dd_Smed_v4_21787_0_1dd_Smed_v4PMID:29674431
Fincher et al., 2018
FACS sorted cell population asexual adult single-cell RNA-sequencing evidence
parenchymal cellSMED30028033h1SMcG0005838 dd_Smed_v4_21787_0_1dd_Smed_v4PMID:29674431
Fincher et al., 2018
FACS sorted cell population asexual adult single-cell RNA-sequencing evidence
pharynxSMED30028033h1SMcG0005817 dd_Smed_v4_5097_0_1dd_Smed_v4PMID:29674431
Fincher et al., 2018
FACS sorted cell population asexual adult single-cell RNA-sequencing evidence
nervous systemSMED30028033h1SMcG0005817 dd_Smed_v4_5097_0_1dd_Smed_v4PMID:29674431
Fincher et al., 2018
FACS sorted cell population asexual adult single-cell RNA-sequencing evidence
epidermisSMED30028033h1SMcG0005817 dd_Smed_v4_5097_0_1dd_Smed_v4PMID:29674431
Fincher et al., 2018
FACS sorted cell population asexual adult single-cell RNA-sequencing evidence
cephalic gangliaSMED30028033h1SMcG0005817 dd_Smed_v4_5097_0_1dd_Smed_v4PMID:29674431
Fincher et al., 2018
FACS sorted cell population asexual adult single-cell RNA-sequencing evidence
neuronSMED30028033h1SMcG0005817 dd_Smed_v4_5097_0_1dd_Smed_v4PMID:29674431
Fincher et al., 2018
whole organism asexual adult colorimetric in situ hybridization evidence
parenchymal cellSMED30028033h1SMcG0005817 dd_Smed_v4_5097_0_1dd_Smed_v4PMID:29674431
Fincher et al., 2018
FACS sorted cell population asexual adult single-cell RNA-sequencing evidence
pharynxSMED30028033h1SMcG0005823 dd_Smed_v4_5097_0_1dd_Smed_v4PMID:29674431
Fincher et al., 2018
FACS sorted cell population asexual adult single-cell RNA-sequencing evidence
nervous systemSMED30028033h1SMcG0005823 dd_Smed_v4_5097_0_1dd_Smed_v4PMID:29674431
Fincher et al., 2018
FACS sorted cell population asexual adult single-cell RNA-sequencing evidence
epidermisSMED30028033h1SMcG0005823 dd_Smed_v4_5097_0_1dd_Smed_v4PMID:29674431
Fincher et al., 2018
FACS sorted cell population asexual adult single-cell RNA-sequencing evidence
cephalic gangliaSMED30028033h1SMcG0005823 dd_Smed_v4_5097_0_1dd_Smed_v4PMID:29674431
Fincher et al., 2018
FACS sorted cell population asexual adult single-cell RNA-sequencing evidence
neuronSMED30028033h1SMcG0005823 dd_Smed_v4_5097_0_1dd_Smed_v4PMID:29674431
Fincher et al., 2018
whole organism asexual adult colorimetric in situ hybridization evidence
parenchymal cellSMED30028033h1SMcG0005823 dd_Smed_v4_5097_0_1dd_Smed_v4PMID:29674431
Fincher et al., 2018
FACS sorted cell population asexual adult single-cell RNA-sequencing evidence
nervous systemSMED30028033h1SMcG0005839 dd_Smed_v4_2238_1_1dd_Smed_v4PMID:29674431
Fincher et al., 2018
FACS sorted cell population asexual adult single-cell RNA-sequencing evidence
epidermisSMED30028033h1SMcG0005839 dd_Smed_v4_2238_1_1dd_Smed_v4PMID:29674431
Fincher et al., 2018
FACS sorted cell population asexual adult single-cell RNA-sequencing evidence
nervous systemSMED30028033h1SMcG0005841 dd_Smed_v4_2238_1_1dd_Smed_v4PMID:29674431
Fincher et al., 2018
FACS sorted cell population asexual adult single-cell RNA-sequencing evidence
epidermisSMED30028033h1SMcG0005841 dd_Smed_v4_2238_1_1dd_Smed_v4PMID:29674431
Fincher et al., 2018
FACS sorted cell population asexual adult single-cell RNA-sequencing evidence
nervous systemSMED30028033h1SMcG0005839 dd_Smed_v4_9156_0_1dd_Smed_v4PMID:29674431
Fincher et al., 2018
FACS sorted cell population asexual adult single-cell RNA-sequencing evidence
parenchymaSMED30028033h1SMcG0005839 dd_Smed_v4_9156_0_1dd_Smed_v4PMID:29674431
Fincher et al., 2018
FACS sorted cell population asexual adult single-cell RNA-sequencing evidence
parenchymal cellSMED30028033h1SMcG0005839 dd_Smed_v4_9156_0_1dd_Smed_v4PMID:29674431
Fincher et al., 2018
FACS sorted cell population asexual adult single-cell RNA-sequencing evidence
nervous systemSMED30028033h1SMcG0005839 dd_Smed_v4_9473_0_1dd_Smed_v4PMID:29674431
Fincher et al., 2018
FACS sorted cell population asexual adult single-cell RNA-sequencing evidence
parenchymaSMED30028033h1SMcG0005839 dd_Smed_v4_9473_0_1dd_Smed_v4PMID:29674431
Fincher et al., 2018
FACS sorted cell population asexual adult single-cell RNA-sequencing evidence
parenchymal cellSMED30028033h1SMcG0005839 dd_Smed_v4_9473_0_1dd_Smed_v4PMID:29674431
Fincher et al., 2018
FACS sorted cell population asexual adult single-cell RNA-sequencing evidence
nervous systemSMED30028033h1SMcG0005842 dd_Smed_v4_2238_1_1dd_Smed_v4PMID:29674431
Fincher et al., 2018
FACS sorted cell population asexual adult single-cell RNA-sequencing evidence
epidermisSMED30028033h1SMcG0005842 dd_Smed_v4_2238_1_1dd_Smed_v4PMID:29674431
Fincher et al., 2018
FACS sorted cell population asexual adult single-cell RNA-sequencing evidence
cephalic gangliaSMED30028033h1SMcG0005838 dd_Smed_v4_21787_0_1dd_Smed_v4PMID:29674431
Fincher et al., 2018
FACS sorted cell population asexual adult single-cell RNA-sequencing evidence
parenchymal cellSMED30028033h1SMcG0005838 dd_Smed_v4_21787_0_1dd_Smed_v4PMID:29674431
Fincher et al., 2018
FACS sorted cell population asexual adult single-cell RNA-sequencing evidence
pharynxSMED30028033h1SMcG0005817 dd_Smed_v4_5097_0_1dd_Smed_v4PMID:29674431
Fincher et al., 2018
FACS sorted cell population asexual adult single-cell RNA-sequencing evidence
nervous systemSMED30028033h1SMcG0005817 dd_Smed_v4_5097_0_1dd_Smed_v4PMID:29674431
Fincher et al., 2018
FACS sorted cell population asexual adult single-cell RNA-sequencing evidence
epidermisSMED30028033h1SMcG0005817 dd_Smed_v4_5097_0_1dd_Smed_v4PMID:29674431
Fincher et al., 2018
FACS sorted cell population asexual adult single-cell RNA-sequencing evidence
cephalic gangliaSMED30028033h1SMcG0005817 dd_Smed_v4_5097_0_1dd_Smed_v4PMID:29674431
Fincher et al., 2018
FACS sorted cell population asexual adult single-cell RNA-sequencing evidence
neuronSMED30028033h1SMcG0005817 dd_Smed_v4_5097_0_1dd_Smed_v4PMID:29674431
Fincher et al., 2018
whole organism asexual adult colorimetric in situ hybridization evidence
parenchymal cellSMED30028033h1SMcG0005817 dd_Smed_v4_5097_0_1dd_Smed_v4PMID:29674431
Fincher et al., 2018
FACS sorted cell population asexual adult single-cell RNA-sequencing evidence
pharynxSMED30028033h1SMcG0005823 dd_Smed_v4_5097_0_1dd_Smed_v4PMID:29674431
Fincher et al., 2018
FACS sorted cell population asexual adult single-cell RNA-sequencing evidence
nervous systemSMED30028033h1SMcG0005823 dd_Smed_v4_5097_0_1dd_Smed_v4PMID:29674431
Fincher et al., 2018
FACS sorted cell population asexual adult single-cell RNA-sequencing evidence
epidermisSMED30028033h1SMcG0005823 dd_Smed_v4_5097_0_1dd_Smed_v4PMID:29674431
Fincher et al., 2018
FACS sorted cell population asexual adult single-cell RNA-sequencing evidence
cephalic gangliaSMED30028033h1SMcG0005823 dd_Smed_v4_5097_0_1dd_Smed_v4PMID:29674431
Fincher et al., 2018
FACS sorted cell population asexual adult single-cell RNA-sequencing evidence
neuronSMED30028033h1SMcG0005823 dd_Smed_v4_5097_0_1dd_Smed_v4PMID:29674431
Fincher et al., 2018
whole organism asexual adult colorimetric in situ hybridization evidence
parenchymal cellSMED30028033h1SMcG0005823 dd_Smed_v4_5097_0_1dd_Smed_v4PMID:29674431
Fincher et al., 2018
FACS sorted cell population asexual adult single-cell RNA-sequencing evidence
nervous systemSMED30028033h1SMcG0005839 dd_Smed_v4_2238_1_1dd_Smed_v4PMID:29674431
Fincher et al., 2018
FACS sorted cell population asexual adult single-cell RNA-sequencing evidence
epidermisSMED30028033h1SMcG0005839 dd_Smed_v4_2238_1_1dd_Smed_v4PMID:29674431
Fincher et al., 2018
FACS sorted cell population asexual adult single-cell RNA-sequencing evidence
nervous systemSMED30028033h1SMcG0005841 dd_Smed_v4_2238_1_1dd_Smed_v4PMID:29674431
Fincher et al., 2018
FACS sorted cell population asexual adult single-cell RNA-sequencing evidence
epidermisSMED30028033h1SMcG0005841 dd_Smed_v4_2238_1_1dd_Smed_v4PMID:29674431
Fincher et al., 2018
FACS sorted cell population asexual adult single-cell RNA-sequencing evidence
nervous systemSMED30028033h1SMcG0005839 dd_Smed_v4_9156_0_1dd_Smed_v4PMID:29674431
Fincher et al., 2018
FACS sorted cell population asexual adult single-cell RNA-sequencing evidence
parenchymaSMED30028033h1SMcG0005839 dd_Smed_v4_9156_0_1dd_Smed_v4PMID:29674431
Fincher et al., 2018
FACS sorted cell population asexual adult single-cell RNA-sequencing evidence
Note: Hover over icons to view figure legend
Alignments
SMED30028033 aligns in the following genomic locations:
Alignment LocationAlignment Score
v31.002750:39226..42654 +2988
v31.007694:7739..11446 -2979
Homology
BLAST of SMED30028033 vs. Planmine SMEST
Match: SMESG000036045.1 (SMESG000036045.1)

HSP 1 Score: 234.958 bits (598), Expect = 9.556e-79
Identity = 114/120 (95.00%), Postives = 116/120 (96.67%), Query Frame = 1
Query:  244 MRGEPLFPSVNIEIVMNIIFAFITTLYLFLRDDVYKCFMNILSRVSKVIKTNIERSNDSFSLPATSTEKAKQNFEKFKNRNPGFVFDNFYGQLTFQMTCDICAEICNESFQVIKSLTLAV 603
            MRGEPLFPSVNIEIVMNIIFAFITTLYLFLRDDVYKCFMNILSRVSKVIKTNIER NDSFSLPATSTEKAKQNFEKFKNRNPGFVFDNFYGQLTFQMTCDIC  ICNESFQV+KS+ LAV
Sbjct:    1 MRGEPLFPSVNIEIVMNIIFAFITTLYLFLRDDVYKCFMNILSRVSKVIKTNIERPNDSFSLPATSTEKAKQNFEKFKNRNPGFVFDNFYGQLTFQMTCDICDNICNESFQVMKSMPLAV 120          
BLAST of SMED30028033 vs. Planmine SMEST
Match: SMESG000036117.1 (SMESG000036117.1)

HSP 1 Score: 176.792 bits (447), Expect = 4.061e-54
Identity = 92/129 (71.32%), Postives = 102/129 (79.07%), Query Frame = 1
Query:  274 NIEIVMNIIFAFITTLYLFLRDDVYKCFMNILSRVSKVIKTNIERSNDSFSLPATSTEKAKQNFEKFKNRNPGFVFDNFYGQLTFQMTCDICAEICNESFQVIKSLTLAV-----PVRLFVQVFLYFSN 645
            N++  +  +  +IT       DDVYKCFMNILSRVSKVIKTNIERSNDSFSLPATSTEKAKQNFEKFKNRNPGFVFDNFYGQLTFQMTCDIC  ICNESFQV+KS+ LAV     P+ L   V  +FS+
Sbjct:  121 NLDKSLETVQQYITESSF--GDDVYKCFMNILSRVSKVIKTNIERSNDSFSLPATSTEKAKQNFEKFKNRNPGFVFDNFYGQLTFQMTCDICDNICNESFQVMKSMPLAVANSKFPIPLENCVKAFFSD 247          
BLAST of SMED30028033 vs. Planmine SMEST
Match: SMESG000036117.1 (SMESG000036117.1)

HSP 1 Score: 176.792 bits (447), Expect = 2.596e-53
Identity = 89/108 (82.41%), Postives = 94/108 (87.04%), Query Frame = 1
Query:  337 DDVYKCFMNILSRVSKVIKTNIERSNDSFSLPATSTEKAKQNFEKFKNRNPGFVFDNFYGQLTFQMTCDICAEICNESFQVIKSLTLAV-----PVRLFVQVFLYFSN 645
            DDVYKCFMNILSRVSKVIKTNIERSNDSFSLPATSTEKAKQNFEKFKNRNPGFVFDNFYGQLTFQMTCDIC  ICNESFQV+KS+ LAV     P+ L   V  +FS+
Sbjct:  140 DDVYKCFMNILSRVSKVIKTNIERSNDSFSLPATSTEKAKQNFEKFKNRNPGFVFDNFYGQLTFQMTCDICDNICNESFQVMKSMPLAVANSKFPIPLENCVKAFFSD 247          
BLAST of SMED30028033 vs. Planmine SMEST
Match: SMESG000036117.1 (SMESG000036117.1)

HSP 1 Score: 176.792 bits (447), Expect = 2.620e-53
Identity = 89/108 (82.41%), Postives = 94/108 (87.04%), Query Frame = 1
Query:  337 DDVYKCFMNILSRVSKVIKTNIERSNDSFSLPATSTEKAKQNFEKFKNRNPGFVFDNFYGQLTFQMTCDICAEICNESFQVIKSLTLAV-----PVRLFVQVFLYFSN 645
            DDVYKCFMNILSRVSKVIKTNIERSNDSFSLPATSTEKAKQNFEKFKNRNPGFVFDNFYGQLTFQMTCDIC  ICNESFQV+KS+ LAV     P+ L   V  +FS+
Sbjct:  144 DDVYKCFMNILSRVSKVIKTNIERSNDSFSLPATSTEKAKQNFEKFKNRNPGFVFDNFYGQLTFQMTCDICDNICNESFQVMKSMPLAVANSKFPIPLENCVKAFFSD 251          
BLAST of SMED30028033 vs. Planmine SMEST
Match: SMESG000036069.1 (SMESG000036069.1)

HSP 1 Score: 167.933 bits (424), Expect = 2.521e-51
Identity = 80/96 (83.33%), Postives = 86/96 (89.58%), Query Frame = 1
Query:  319 LYLFLRDDVYKCFMNILSRVSKVIKTNIERSNDSFSLPATSTEKAKQNFEKFKNRNPGFVFDNFYGQLTFQMTCDICAEICNESFQVIKSLTLAVP 606
            ++ FL DDVYKCFMNILSRVSKVIKTNI+R N   SLP T  EKA++NFEKFKN+NPG VFDNFYGQLTFQMTCDICAEICNESFQVIKSLTLAVP
Sbjct:    1 MFSFLSDDVYKCFMNILSRVSKVIKTNIQRPNAYSSLPVTVMEKAQKNFEKFKNKNPGLVFDNFYGQLTFQMTCDICAEICNESFQVIKSLTLAVP 96          
The following BLAST results are available for this feature:
BLAST of SMED30028033 vs. Ensembl Human
Analysis Date: 2016-08-08 (Schmidtea mediterranea smed_20140614 BLASTX Human e!99)
Total hits: 0
Match NameE-valueIdentityDescription
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BLAST of SMED30028033 vs. Ensembl Celegans
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Celegan e!99)
Total hits: 0
Match NameE-valueIdentityDescription
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BLAST of SMED30028033 vs. Ensembl Fly
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Drosophila e!99)
Total hits: 0
Match NameE-valueIdentityDescription
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BLAST of SMED30028033 vs. Ensembl Zebrafish
Analysis Date: 2016-08-08 (Schmidtea mediterranea smed_20140614 BLASTX Zebrafish e!99)
Total hits: 0
Match NameE-valueIdentityDescription
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BLAST of SMED30028033 vs. Ensembl Xenopus
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Xenopus e!99)
Total hits: 0
Match NameE-valueIdentityDescription
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BLAST of SMED30028033 vs. Ensembl Mouse
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Mouse e!99)
Total hits: 0
Match NameE-valueIdentityDescription
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BLAST of SMED30028033 vs. UniProt/SwissProt
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI UniProt)
Total hits: 0
Match NameE-valueIdentityDescription
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BLAST of SMED30028033 vs. TrEMBL
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI TrEMBL)
Total hits: 0
Match NameE-valueIdentityDescription
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BLAST of SMED30028033 vs. Ensembl Cavefish
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Cavefish e!99)
Total hits: 0
Match NameE-valueIdentityDescription
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BLAST of SMED30028033 vs. Ensembl Sea Lamprey
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Sea Lamprey e!99)
Total hits: 0
Match NameE-valueIdentityDescription
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BLAST of SMED30028033 vs. Ensembl Yeast
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Yeast e!Fungi46)
Total hits: 0
Match NameE-valueIdentityDescription
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BLAST of SMED30028033 vs. Ensembl Nematostella
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Nematostella e!Metazoa46)
Total hits: 0
Match NameE-valueIdentityDescription
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BLAST of SMED30028033 vs. Ensembl Medaka
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Medaka e!99)
Total hits: 0
Match NameE-valueIdentityDescription
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BLAST of SMED30028033 vs. Planmine SMEST
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Planmine SMEST)
Total hits: 5
Match NameE-valueIdentityDescription
SMESG000036045.19.556e-7995.00SMESG000036045.1[more]
SMESG000036117.14.061e-5471.32SMESG000036117.1[more]
SMESG000036117.12.596e-5382.41SMESG000036117.1[more]
SMESG000036117.12.620e-5382.41SMESG000036117.1[more]
SMESG000036069.12.521e-5183.33SMESG000036069.1[more]
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Sequences
The following sequences are available for this feature:

transcript sequence

>SMED30028033 ID=SMED30028033|Name=SMED30028033|organism=Schmidtea mediterranea sexual|type=transcript|length=734bp
ATTCTTTGATTAGAATCAGACATTAGTGAATATTAAATACAAGTCCTTAG
ATATGGAATAATCTTTTGTAGTGGTTGAGGTTGTTCCTTTCAGTTTGACT
CCACATTTTAAAAACATAATTTCAAAACCTCAACCATAATTTTCATTGCG
ATTTCAGTTATTTGCTTGGAAAATCGCGGATTTGCGTTTCGTATGGATTT
CTTTGGAAAACTCTAAATGTTAATTAGACATGTTTTTTACAAAATGAGAG
GTGAGCCTCTATTTCCCAGCGTAAATATTGAAATTGTAATGAATATTATA
TTTGCATTTATTACAACATTGTATTTATTTCTCAGAGATGACGTATACAA
GTGCTTCATGAATATATTGAGTCGGGTAAGTAAAGTGATCAAGACGAACA
TTGAAAGGTCAAATGATTCCTTCAGCCTTCCGGCAACTTCTACTGAAAAG
GCTAAGCAAAATTTCGAAAAATTTAAAAATAGAAATCCTGGATTCGTTTT
CGATAATTTTTATGGCCAGTTGACATTCCAAATGACTTGTGATATTTGCG
CTGAAATTTGCAATGAGTCCTTCCAAGTGATTAAATCGTTGACGTTGGCA
GTTCCTGTAAGATTATTTGTACAAGTTTTCCTATATTTCAGCAATATATA
AATGAACAAAATTTTTGAATAACGGTCGTAGTTTTTCTGTAAATATTTAC
AATATTTGACATATTAAAGTAAATTTCTTTAAGA
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protein sequence of SMED30028033-orf-1

>SMED30028033-orf-1 ID=SMED30028033-orf-1|Name=SMED30028033-orf-1|organism=Schmidtea mediterranea sexual|type=polypeptide|length=145bp
MLIRHVFYKMRGEPLFPSVNIEIVMNIIFAFITTLYLFLRDDVYKCFMNI
LSRVSKVIKTNIERSNDSFSLPATSTEKAKQNFEKFKNRNPGFVFDNFYG
QLTFQMTCDICAEICNESFQVIKSLTLAVPVRLFVQVFLYFSNI*
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Annotated Terms
The following terms have been associated with this transcript:
Vocabulary: Planarian Anatomy
TermDefinition
PLANA:0000034epidermis
PLANA:0000099neuron
PLANA:0002032epidermal cell
Vocabulary: INTERPRO
TermDefinition
IPR038765Papain-like_cys_pep_sf
InterPro
Analysis Name: Schmidtea mediteranean smed_20140614 Interproscan
Date Performed: 2020-05-01
IPR TermIPR DescriptionSourceSource TermSource DescriptionAlignment
IPR038765Papain-like cysteine peptidase superfamilySUPERFAMILYSSF54001Cysteine proteinasescoord: 4..131
NoneNo IPR availableTMHMMTMhelixcoord: 20..39