Neuropeptide Y prohormone-11

Overview
NameNeuropeptide Y prohormone-11
Smed IDSMED30002182
Length (bp)457
Neoblast Clusters

Zeng et. al., 2018



 

 

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



Embryonic Expression

Davies et. al., 2017

Hover the mouse over a column in the graph to view average RPKM values per sample.
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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



SMED30002182

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



PAGE Curations: 7

  
Expressed InReference TranscriptGene ModelsPublished TranscriptTranscriptomePublicationSpecimenLifecycleEvidence
parapharyngeal regionSMED30002182SMESG000064810.1 SmedASXL_006256SmedAsxl_ww_GCZZ01PMID:27034770
Currie et al., 2016		whole organism asexual adult RNA-sequencing evidence
nervous systemSMED30002182SMESG000064810.1 dd_Smed_v4_16946_0_1dd_Smed_v4PMID:29674431
Fincher et al., 2018		FACS sorted cell population asexual adult single-cell RNA-sequencing evidence
neuronSMED30002182SMESG000064810.1 dd_Smed_v4_16946_0_1dd_Smed_v4PMID:29674431
Fincher et al., 2018		whole organism asexual adult fluorescence in situ hybridization evidence
non-ciliated neuronSMED30002182SMESG000064810.1 dd_Smed_v4_16946_0_1dd_Smed_v4PMID:29674431
Fincher et al., 2018		FACS sorted cell population asexual adult single-cell RNA-sequencing evidence
pharynxSMED30002182SMESG000064810.1 BK007021smed_ncbi_20200123PMID:20967238
Collins JJ et al., 2010		whole organism asexual adult colorimetric in situ hybridization evidence
reproductive organSMED30002182SMESG000064810.1 Contig10629newmark_estsPMID:28434803
Rouhana et al., 2017		whole organism adult hermaphrodite RNA-sequencing evidence
reproductive organSMED30002182SMESG000064810.1 Contig10629uc_Smed_v2PMID:28434803
Rouhana et al., 2017		whole organism adult hermaphrodite RNA-sequencing evidence
Note: Hover over icons to view figure legend
Homology
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BLAST of Neuropeptide Y prohormone-11 vs. TrEMBL
Match: E3CTJ6 (Neuropeptide Y prohormone-11 OS=Schmidtea mediterranea OX=79327 PE=2 SV=1)

HSP 1 Score: 164.466 bits (415), Expect = 4.503e-50
Identity = 79/80 (98.75%), Postives = 79/80 (98.75%), Query Frame = 3 
Query:  156 MLIPFLLGALIFAIQDSHCYFIMPSNSMDPNKPPIPLNSHATSDEIKDYLHHLNLYFQIVSRPRLGKRQKYDFHDILNQF 395
            MLIP LLGALIFAIQDSHCYFIMPSNSMDPNKPPIPLNSHATSDEIKDYLHHLNLYFQIVSRPRLGKRQKYDFHDILNQF
Sbjct:    1 MLIPCLLGALIFAIQDSHCYFIMPSNSMDPNKPPIPLNSHATSDEIKDYLHHLNLYFQIVSRPRLGKRQKYDFHDILNQF 80
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BLAST of Neuropeptide Y prohormone-11 vs. Planmine SMEST
Match: SMESG000064810.1 (SMESG000064810.1)

HSP 1 Score: 164.466 bits (415), Expect = 1.252e-53
Identity = 79/80 (98.75%), Postives = 79/80 (98.75%), Query Frame = 3 
Query:  156 MLIPFLLGALIFAIQDSHCYFIMPSNSMDPNKPPIPLNSHATSDEIKDYLHHLNLYFQIVSRPRLGKRQKYDFHDILNQF 395
            MLIP LLGALIFAIQDSHCYFIMPSNSMDPNKPPIPLNSHATSDEIKDYLHHLNLYFQIVSRPRLGKRQKYDFHDILNQF
Sbjct:    1 MLIPCLLGALIFAIQDSHCYFIMPSNSMDPNKPPIPLNSHATSDEIKDYLHHLNLYFQIVSRPRLGKRQKYDFHDILNQF 80
The following BLAST results are available for this feature:
BLAST of Neuropeptide Y prohormone-11 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 Neuropeptide Y prohormone-11 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 Neuropeptide Y prohormone-11 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 Neuropeptide Y prohormone-11 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 Neuropeptide Y prohormone-11 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 Neuropeptide Y prohormone-11 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 Neuropeptide Y prohormone-11 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 Neuropeptide Y prohormone-11 vs. TrEMBL
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI TrEMBL)
Total hits: 1
Match NameE-valueIdentityDescription
E3CTJ64.503e-5098.75Neuropeptide Y prohormone-11 OS=Schmidtea mediterr... [more]
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BLAST of Neuropeptide Y prohormone-11 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 Neuropeptide Y prohormone-11 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 Neuropeptide Y prohormone-11 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 Neuropeptide Y prohormone-11 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 Neuropeptide Y prohormone-11 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 Neuropeptide Y prohormone-11 vs. Planmine SMEST
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Planmine SMEST)
Total hits: 1
Match NameE-valueIdentityDescription
SMESG000064810.11.252e-5398.75SMESG000064810.1[more]
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Sequences
The following sequences are available for this feature:

transcript sequence

>SMED30002182 ID=SMED30002182|Name=Neuropeptide Y prohormone-11|organism=Schmidtea mediterranea sexual|type=transcript|length=457bp
CAAAAAGACTCTTGAATAGAATTTGTGTAAACATTAAACCCAAATCATTG
TTGGTGGGTAAATATGAAAAAAGAGAAACGGAAATGTCGTTCAGTGAAAG
ATGTTTAGAGTTATCGATATATTATTGCTGTATGATGACTTTCTACTTTA
GTGAAATGTTGATTCCATTCTTATTAGGTGCATTAATATTTGCAATTCAA
GACTCTCACTGTTATTTTATTATGCCTTCAAATTCGATGGATCCAAATAA
ACCACCAATTCCTCTGAATTCTCACGCAACCTCGGATGAAATTAAAGATT
ACCTTCATCATCTAAATTTATATTTTCAAATCGTTAGTAGACCAAGACTT
GGAAAACGACAAAAATACGACTTCCATGATATTCTAAATCAGTTTTGATT
TCGTGTTACTTGTTTCAATTAATATTTAGCATAACATCATAATGAAACAA
TTTTTCT
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protein sequence of SMED30002182-orf-1

>SMED30002182-orf-1 ID=SMED30002182-orf-1|Name=SMED30002182-orf-1|organism=Schmidtea mediterranea sexual|type=polypeptide|length=132bp
KRLLNRICVNIKPKSLLVGKYEKRETEMSFSERCLELSIYYCCMMTFYFS
EMLIPFLLGALIFAIQDSHCYFIMPSNSMDPNKPPIPLNSHATSDEIKDY
LHHLNLYFQIVSRPRLGKRQKYDFHDILNQF*
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Annotated Terms
The following terms have been associated with this transcript:
Vocabulary: Planarian Anatomy
TermDefinition
PLANA:0000016pharynx
PLANA:0000099neuron
PLANA:0000420parapharyngeal region
PLANA:0002089reproductive organ
Vocabulary: INTERPRO
TermDefinition
IPR001955Pancreatic_hormone-like
Vocabulary: cellular component
TermDefinition
GO:0005576extracellular region
Vocabulary: molecular function
TermDefinition
GO:0005179hormone activity
Vocabulary: biological process
TermDefinition
GO:0007218neuropeptide signaling pathway
InterPro
Analysis Name: Schmidtea mediteranean smed_20140614 Interproscan
Date Performed: 2020-05-01
IPR TermIPR DescriptionSourceSource TermSource DescriptionAlignment
IPR001955Pancreatic hormone-likePROSITEPS50276PANCREATIC_HORMONE_2coord: 84..116
score: 9.795
NoneNo IPR availableTMHMMTMhelixcoord: 47..66