U38-Eretoxin-Ek1a_1

Overview
NameU38-Eretoxin-Ek1a_1
Smed IDSMED30021092
Length (bp)931
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



SMED30021092

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



PAGE Curations: 9

  
Expressed InReference TranscriptGene ModelsPublished TranscriptTranscriptomePublicationSpecimenLifecycleEvidence
tail regionSMED30021092h1SMcG0016738 SmedASXL_005583SmedAsxl_ww_GCZZ01PMID:27034770
Currie et al., 2016		whole organism asexual adult RNA-sequencing evidence
cephalic gangliaSMED30021092h1SMcG0016738 dd_Smed_v4_6337_0_1dd_Smed_v4PMID:29674431
Fincher et al., 2018		FACS sorted cell population asexual adult single-cell RNA-sequencing evidence
parenchymal cellSMED30021092h1SMcG0016738 dd_Smed_v4_6337_0_1dd_Smed_v4PMID:29674431
Fincher et al., 2018		FACS sorted cell population asexual adult single-cell RNA-sequencing evidence
oocyteSMED30021092h1SMcG0016738 Contig54344newmark_estsPMID:28434803
Rouhana et al., 2017		whole organism adult hermaphrodite RNA-sequencing evidence
oocyteSMED30021092h1SMcG0016738 Contig54344uc_Smed_v2PMID:28434803
Rouhana et al., 2017		whole organism adult hermaphrodite RNA-sequencing evidence
vitelline glandSMED30021092h1SMcG0016738 Contig54344newmark_estsPMID:28434803
Rouhana et al., 2017		whole organism adult hermaphrodite RNA-sequencing evidence
vitelline glandSMED30021092h1SMcG0016738 Contig54344uc_Smed_v2PMID:28434803
Rouhana et al., 2017		whole organism adult hermaphrodite RNA-sequencing evidence
reproductive organSMED30021092h1SMcG0016738 Contig54344newmark_estsPMID:28434803
Rouhana et al., 2017		whole organism adult hermaphrodite RNA-sequencing evidence
reproductive organSMED30021092h1SMcG0016738 Contig54344uc_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 U38-Eretoxin-Ek1a_1 vs. TrEMBL
Match: A0A4Y2GLB8 (Uncharacterized protein OS=Araneus ventricosus OX=182803 GN=AVEN_575_1 PE=4 SV=1)

HSP 1 Score: 58.5362 bits (140), Expect = 2.386e-7
Identity = 31/70 (44.29%), Postives = 45/70 (64.29%), Query Frame = 3 
Query:  393 CPINYCSKLTCTDITSLCRNHPNHELVVKGGLCGCCDLCVKIIKENESCVQPFPFLDVI---RCAKGLEC 593
            CP N+C K+ C D++S CR+   +++  +GG C CCD+CVK++ ENE C  P   L +I    CA+GL C
Sbjct:   20 CPKNFCDKVECEDLSS-CRSENGYKVRERGGWCRCCDICVKVLGENERC-SPHVGLGIIYRSECAEGLHC 87
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BLAST of U38-Eretoxin-Ek1a_1 vs. TrEMBL
Match: A0A4Y2TKI3 (Uncharacterized protein OS=Araneus ventricosus OX=182803 GN=AVEN_230401_1 PE=4 SV=1)

HSP 1 Score: 58.5362 bits (140), Expect = 2.688e-7
Identity = 31/70 (44.29%), Postives = 45/70 (64.29%), Query Frame = 3 
Query:  393 CPINYCSKLTCTDITSLCRNHPNHELVVKGGLCGCCDLCVKIIKENESCVQPFPFLDVI---RCAKGLEC 593
            CP NYC K+ C D+++ CR    +++  +GG C CCD+CVK++ ENE C +P   L +I    CA+GL C
Sbjct:   20 CPKNYCDKVECEDLSN-CRAENGYKVRERGGWCRCCDICVKVLGENERC-RPHIGLGIIYKSECAEGLHC 87
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BLAST of U38-Eretoxin-Ek1a_1 vs. TrEMBL
Match: A0A0K1D8Y0 (Putative neurotoxin LTDF S-04 OS=Dolomedes fimbriatus OX=1432569 PE=2 SV=1)

HSP 1 Score: 55.8398 bits (133), Expect = 2.221e-6
Identity = 32/75 (42.67%), Postives = 39/75 (52.00%), Query Frame = 3 
Query:  378 PNLGACPINYCSKLTCTDITSLCRNHPNHELVVKGGLCGCCDLCVKIIKENESCVQPFPFLDVI---RCAKGLEC 593
             N   CP NYC K+ C ++T  CR      +  KG  C CCD+CVK++ E E C     FL VI    CAK L C
Sbjct:   15 SNAIVCPSNYCDKVDCEELTE-CRESNGLRIREKGSFCQCCDICVKVLGEGERCQPEGEFLGVIITSECAKDLVC 88
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BLAST of U38-Eretoxin-Ek1a_1 vs. Planmine SMEST
Match: SMESG000077799.1 (SMESG000077799.1)

HSP 1 Score: 217.238 bits (552), Expect = 1.094e-71
Identity = 108/108 (100.00%), Postives = 108/108 (100.00%), Query Frame = 3 
Query:  297 MLAKFLHLCFLSVIALISILNFSEMVHPNLGACPINYCSKLTCTDITSLCRNHPNHELVVKGGLCGCCDLCVKIIKENESCVQPFPFLDVIRCAKGLECINDNCKNST 620
            MLAKFLHLCFLSVIALISILNFSEMVHPNLGACPINYCSKLTCTDITSLCRNHPNHELVVKGGLCGCCDLCVKIIKENESCVQPFPFLDVIRCAKGLECINDNCKNST
Sbjct:    1 MLAKFLHLCFLSVIALISILNFSEMVHPNLGACPINYCSKLTCTDITSLCRNHPNHELVVKGGLCGCCDLCVKIIKENESCVQPFPFLDVIRCAKGLECINDNCKNST 108
The following BLAST results are available for this feature:
BLAST of U38-Eretoxin-Ek1a_1 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 U38-Eretoxin-Ek1a_1 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 U38-Eretoxin-Ek1a_1 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 U38-Eretoxin-Ek1a_1 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 U38-Eretoxin-Ek1a_1 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 U38-Eretoxin-Ek1a_1 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 U38-Eretoxin-Ek1a_1 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 U38-Eretoxin-Ek1a_1 vs. TrEMBL
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI TrEMBL)
Total hits: 3
Match NameE-valueIdentityDescription
A0A4Y2GLB82.386e-744.29Uncharacterized protein OS=Araneus ventricosus OX=... [more]
A0A4Y2TKI32.688e-744.29Uncharacterized protein OS=Araneus ventricosus OX=... [more]
A0A0K1D8Y02.221e-642.67Putative neurotoxin LTDF S-04 OS=Dolomedes fimbria... [more]
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BLAST of U38-Eretoxin-Ek1a_1 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 U38-Eretoxin-Ek1a_1 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 U38-Eretoxin-Ek1a_1 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 U38-Eretoxin-Ek1a_1 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 U38-Eretoxin-Ek1a_1 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 U38-Eretoxin-Ek1a_1 vs. Planmine SMEST
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Planmine SMEST)
Total hits: 1
Match NameE-valueIdentityDescription
SMESG000077799.11.094e-71100.00SMESG000077799.1[more]
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Sequences
The following sequences are available for this feature:

transcript sequence

>SMED30021092 ID=SMED30021092|Name=U38-Eretoxin-Ek1a_1|organism=Schmidtea mediterranea sexual|type=transcript|length=931bp
CGTTGTCTGACAACTCCATACAAAATATTGTTTCTTACCGTTCGGCACCC
TTTACTAGGCATCGTTGGTAATGGTTTCGAGTGGGTTGTTTTTCGATTTA
TAAAATTTATTAAAATTTTTTAATTAAAAACATTAGTTTTAATAACAATA
GATGTAAAAAGCCGTTTCTTAAAAATGCTGTCAAAATATTGAAAATATTT
TAGACATAAATTTATTAAATAAATATTTATTTTATACAATAAACATTTAT
ATGTTTATCAATAAAACATATTTCAATCGAATTCCAAGAAAAATCTATGC
TAGCAAAATTTTTACACCTGTGTTTCCTATCAGTCATTGCTTTGATCTCT
ATTTTGAATTTCAGTGAAATGGTTCACCCAAATTTGGGAGCTTGTCCAAT
AAACTATTGCAGTAAGTTGACCTGTACAGACATTACTTCTTTGTGTCGAA
ACCATCCAAACCATGAGTTGGTCGTCAAAGGAGGATTATGCGGATGTTGT
GATTTATGCGTAAAAATCATAAAAGAAAACGAAAGCTGCGTCCAGCCGTT
TCCGTTTCTAGACGTGATCCGATGTGCCAAAGGCCTTGAATGCATTAATG
ATAACTGCAAAAATTCAACTAAATAAATCATCAAAAAAATTTATTTTTTT
TAATGGAAACCTTTCAGTTTTTTGTAGGATCTGTGATTATATTGAAATAA
ACAATTAATCAGGGAGCGTTTTTGTTTTTATCAGAGTCTAAGATTAATAA
AAATTATTGTTGAAATTATGGCCAGATTTAATGCTTTAAATGTAGGAAGT
TCAATTAGAAGGTCAGTAGTAAACATAAACATGTTAGAAGCCATGTTTAT
TCGACTCTATTAAATGTTGTCGAAGGCCAACTTGCGGAAGTTTATGTGAA
GTATTGAGATTACCGAATCATTTATTTCAAG
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protein sequence of SMED30021092-orf-1

>SMED30021092-orf-1 ID=SMED30021092-orf-1|Name=SMED30021092-orf-1|organism=Schmidtea mediterranea sexual|type=polypeptide|length=110bp
MLAKFLHLCFLSVIALISILNFSEMVHPNLGACPINYCSKLTCTDITSLC
RNHPNHELVVKGGLCGCCDLCVKIIKENESCVQPFPFLDVIRCAKGLECI
NDNCKNSTK*
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InterPro
Analysis Name: Schmidtea mediteranean smed_20140614 Interproscan
Date Performed: 2020-05-01
IPR TermIPR DescriptionSourceSource TermSource DescriptionAlignment
NoneNo IPR availableGENE3DG3DSA:2.10.80.20coord: 31..109
e-value: 4.9E-5
score: 25.5
NoneNo IPR availableSIGNALP_EUKSignalP-noTMSignalP-noTMcoord: 1..25
score: 0.717