SMED30025240

Overview
NameSMED30025240
Smed IDSMED30025240
Length (bp)1478
Neoblast Clusters

Zeng et. al., 2018



▻ Overview

▻ Neoblast Population

▻ Sub-lethal Irradiated Surviving X1 and X2 Cell 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 SMED30025240 (SMED30025240) t-SNE clustered cells

Violin plots show distribution of expression levels for SMED30025240 (SMED30025240) in cells (dots) of each of the 12 neoblast clusters.

 

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Sub-lethal Irradiated Surviving X1 and X2 Cell Population

 

t-SNE plot of surviving X1 and X2 cells (n = 1,039 after QC filter) after sub-lethal irradiation. Colors indicate unbiased cell classification via graph-based clustering. SL, sub-lethal irradiated cell groups.

Expression of SMED30025240 (SMED30025240) in the t-SNE clustered sub-lethally irradiated X1 and X2 cells.

Violin plots show distribution of expression levels for SMED30025240 (SMED30025240) in cells (dots) of each of the 10 clusters of sub-leathally irradiated X1 and X2 cells.

 

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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



SMED30025240

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



PAGE Curations: 13

  
Expressed InReference TranscriptGene ModelsPublished TranscriptTranscriptomePublicationSpecimenLifecycleEvidence
Smed sexual biotypeSMED30025240h1SMcG0019878 Contig45488uc_Smed_v2PMID:29674431
Fincher et al., 2018		FACS sorted cell population adult hermaphrodite single-cell RNA-sequencing evidence
Smed sexual biotypeSMED30025240h1SMcG0019878 Contig45488newmark_estsPMID:29674431
Fincher et al., 2018		FACS sorted cell population adult hermaphrodite single-cell RNA-sequencing evidence
epidermisSMED30025240h1SMcG0019878 dd_Smed_v4_792_0_1dd_Smed_v4PMID:29674431
Fincher et al., 2018		FACS sorted cell population asexual adult single-cell RNA-sequencing evidence
cephalic gangliaSMED30025240h1SMcG0019878 dd_Smed_v4_792_0_1dd_Smed_v4PMID:29674431
Fincher et al., 2018		FACS sorted cell population asexual adult single-cell RNA-sequencing evidence
epidermisSMED30025240h1SMcG0019878 dd_Smed_v4_1200_0_1dd_Smed_v4PMID:29674431
Fincher et al., 2018		FACS sorted cell population asexual adult single-cell RNA-sequencing evidence
cephalic gangliaSMED30025240h1SMcG0019878 dd_Smed_v4_1200_0_1dd_Smed_v4PMID:29674431
Fincher et al., 2018		FACS sorted cell population asexual adult single-cell RNA-sequencing evidence
parenchymal cellSMED30025240h1SMcG0019878 dd_Smed_v4_1200_0_1dd_Smed_v4PMID:29674431
Fincher et al., 2018		FACS sorted cell population asexual adult single-cell RNA-sequencing evidence
epidermisSMED30025240h1SMcG0019878 dd_Smed_v4_792_0_1dd_Smed_v4PMID:28292427
Wurtzel et al., 2017		whole organism asexual adult single-cell RNA-sequencing evidence
dorsal region of the epidermisSMED30025240h1SMcG0019878 dd_Smed_v4_792_0_1dd_Smed_v4PMID:28292427
Wurtzel et al., 2017		whole organism asexual adult single-cell RNA-sequencing evidence
ciliated epithelial cellSMED30025240h1SMcG0019878 dd_Smed_v4_792_0_1dd_Smed_v4PMID:28292427
Wurtzel et al., 2017		whole organism asexual adult single-cell RNA-sequencing evidence
epidermisSMED30025240h1SMcG0019878 dd_Smed_v4_1200_0_1dd_Smed_v4PMID:28292427
Wurtzel et al., 2017		whole organism asexual adult single-cell RNA-sequencing evidence
dorsal region of the epidermisSMED30025240h1SMcG0019878 dd_Smed_v4_1200_0_1dd_Smed_v4PMID:28292427
Wurtzel et al., 2017		whole organism asexual adult single-cell RNA-sequencing evidence
ciliated epithelial cellSMED30025240h1SMcG0019878 dd_Smed_v4_1200_0_1dd_Smed_v4PMID:28292427
Wurtzel et al., 2017		whole organism asexual adult single-cell RNA-sequencing evidence
Note: Hover over icons to view figure legend
Alignments
SMED30025240 aligns in the following genomic locations:
Alignment LocationAlignment Score
v31.004609:28555..30224 +7082
v31.004609:4393..6155 +6853
Homology
[Close]
BLAST of SMED30025240 vs. TrEMBL
Match: S5WMZ9 (Sh3bp2 OS=Schmidtea mediterranea OX=79327 PE=2 SV=1)

HSP 1 Score: 71.633 bits (174), Expect = 7.171e-10
Identity = 35/100 (35.00%), Postives = 57/100 (57.00%), Query Frame = 3 
Query: 1137 EFDMKDVLFYGNKYDATKTLFRLSRVGVFLVRHQQGKQILTVQVEDVIMKYVLKTDLNNGKIRINGENIQFENLEHLLSHYLDNNLPRQNTKLTVPYNAV 1436
            E  M+D +F G + +A   L ++ ++G +L+R Q  +Q+L+VQ E  I+KY L  +    ++ I G   +F NL  L+ HY  NN+P    +L  PY +V
Sbjct:  217 EICMRDFIFNGTREEAAAVLSKVQQIGGYLIRVQGDRQVLSVQTERGIVKYKLYKNPLTERVSIQGFGNEFYNLTDLVKHYYTNNIPNYTCRLKCPYGSV 316
[Close]
BLAST of SMED30025240 vs. Planmine SMEST
Match: SMESG000072364.1 (SMESG000072364.1)

HSP 1 Score: 770.77 bits (1989), Expect = 0.000e+0
Identity = 427/473 (90.27%), Postives = 428/473 (90.49%), Query Frame = 3 
Query:   84 MSSENAFMKQDEFKDQDSTFAGYLQHXXXXXXXXXXYFVEIGNGKVLLYPQKKLKNTISDVSLGSYLLEIIPIRNKPPFWTFVLRPKQSDKTLKVLKFGVSSVEEMEKCIKVLTENINVAQFQRSRHNTLNDGFSFSEGNMINQEYLSENQHNSFEGYSENGKEVGGQNSYNIENVEQRLSKSLEDQSLYANQNFDQTSSKSPENQSFYVDQRLEQNSSQSPEDQSIYAGTNLXXXXXXXXXXXXIYA-------------------NQYSEQSLLLPPEDQSIYADQSLEQISRKSPKDQSTYATINKHEQISLPIPLNTHLPNTNQXXXXXXXXXXXXXXESLDYTDGGDHQRRQPAFRVENQNHCPIEFDMKDVLFYGNKYDATKTLFRLSRVGVFLVRHQQGKQILTVQVEDVIMKYVLKTDLNNGKIRINGENIQFENLEHLLSHYLDNNLPRQNTKLTVPYNAVDQI 1445
            MSSENAFMKQDEFKDQDSTFAGYLQHKTKKTKKWKKYFVEIGNGKVLLYPQKKLKNTISDVSLGSYLLEIIPIRNKPPFWTFVLRPKQSDKTLKVLKFGVSSVEEMEKCIKVLTENINVAQFQRSRHNTLNDGFSFSEG                  YSENGKEVGGQNSYNIENVEQRLSKSLEDQSLYANQNFDQTSSKSPENQSFYVDQRLEQNSSQSPEDQSIYAG NLEQSSS+ SEDQSIYA                    Q  EQS   PPEDQSIYADQSLEQISRKSPKDQSTYATINKHEQISLPIPLNTHLPNTNQKIHLHKNMKLNNKNESLDYTDGGDHQRRQPAFRVENQNHCPIEFDMKDVLFYGNKYDATKTLFRLSRVGVFLVRHQQGKQILTVQVEDVIMKYVLKTDLNNGKIRINGENIQFENLEHLLSHYLDNNLPRQNTKLTVPYNAVDQI
Sbjct:    1 MSSENAFMKQDEFKDQDSTFAGYLQHKTKKTKKWKKYFVEIGNGKVLLYPQKKLKNTISDVSLGSYLLEIIPIRNKPPFWTFVLRPKQSDKTLKVLKFGVSSVEEMEKCIKVLTENINVAQFQRSRHNTLNDGFSFSEG------------------YSENGKEVGGQNSYNIENVEQRLSKSLEDQSLYANQNFDQTSSKSPENQSFYVDQRLEQNSSQSPEDQSIYAGQNLEQSSSQPSEDQSIYAVQNLEQSSSQPSEDQSIYAGQNLEQSSSQPPEDQSIYADQSLEQISRKSPKDQSTYATINKHEQISLPIPLNTHLPNTNQKIHLHKNMKLNNKNESLDYTDGGDHQRRQPAFRVENQNHCPIEFDMKDVLFYGNKYDATKTLFRLSRVGVFLVRHQQGKQILTVQVEDVIMKYVLKTDLNNGKIRINGENIQFENLEHLLSHYLDNNLPRQNTKLTVPYNAVDQI 455
[Close]
BLAST of SMED30025240 vs. Planmine SMEST
Match: SMESG000072364.1 (SMESG000072364.1)

HSP 1 Score: 764.222 bits (1972), Expect = 0.000e+0
Identity = 427/492 (86.79%), Postives = 428/492 (86.99%), Query Frame = 3 
Query:   84 MSSENAFMKQDEFKDQDSTFAGYLQHXXXXXXXXXXYFVEIGNGKVLLYPQKKLKNTISDVSLGSYLLEIIPIRNKPPFWTFVLRPKQSDKTLKVLKFGVSSVEEMEKCIKVLTENINVAQFQRSRHNTLNDGFSFSEGNMINQEYLSENQHNSFEGYSENGKEVGGQNSYNIENVEQRLSKSLEDQSLYANQNFDQTSSKSPENQSFYVDQRLEQNSSQSPEDQSIYAGTNLXXXXXXXXXXXXIYA--------------------------------------NQYSEQSLLLPPEDQSIYADQSLEQISRKSPKDQSTYATINKHEQISLPIPLNTHLPNTNQXXXXXXXXXXXXXXESLDYTDGGDHQRRQPAFRVENQNHCPIEFDMKDVLFYGNKYDATKTLFRLSRVGVFLVRHQQGKQILTVQVEDVIMKYVLKTDLNNGKIRINGENIQFENLEHLLSHYLDNNLPRQNTKLTVPYNAVDQI 1445
            MSSENAFMKQDEFKDQDSTFAGYLQHKTKKTKKWKKYFVEIGNGKVLLYPQKKLKNTISDVSLGSYLLEIIPIRNKPPFWTFVLRPKQSDKTLKVLKFGVSSVEEMEKCIKVLTENINVAQFQRSRHNTLNDGFSFSEG                  YSENGKEVGGQNSYNIENVEQRLSKSLEDQSLYANQNFDQTSSKSPENQSFYVDQRLEQNSSQSPEDQSIYAG NLEQSSS+ SEDQSIYA                                       Q  EQS   PPEDQSIYADQSLEQISRKSPKDQSTYATINKHEQISLPIPLNTHLPNTNQKIHLHKNMKLNNKNESLDYTDGGDHQRRQPAFRVENQNHCPIEFDMKDVLFYGNKYDATKTLFRLSRVGVFLVRHQQGKQILTVQVEDVIMKYVLKTDLNNGKIRINGENIQFENLEHLLSHYLDNNLPRQNTKLTVPYNAVDQI
Sbjct:    1 MSSENAFMKQDEFKDQDSTFAGYLQHKTKKTKKWKKYFVEIGNGKVLLYPQKKLKNTISDVSLGSYLLEIIPIRNKPPFWTFVLRPKQSDKTLKVLKFGVSSVEEMEKCIKVLTENINVAQFQRSRHNTLNDGFSFSEG------------------YSENGKEVGGQNSYNIENVEQRLSKSLEDQSLYANQNFDQTSSKSPENQSFYVDQRLEQNSSQSPEDQSIYAGQNLEQSSSQPSEDQSIYAVQNLEQSSSQPSEDQSIYAGQNLEQSSSQPPEDQSIYAGQNLEQSSSQPPEDQSIYADQSLEQISRKSPKDQSTYATINKHEQISLPIPLNTHLPNTNQKIHLHKNMKLNNKNESLDYTDGGDHQRRQPAFRVENQNHCPIEFDMKDVLFYGNKYDATKTLFRLSRVGVFLVRHQQGKQILTVQVEDVIMKYVLKTDLNNGKIRINGENIQFENLEHLLSHYLDNNLPRQNTKLTVPYNAVDQI 474
[Close]
BLAST of SMED30025240 vs. Planmine SMEST
Match: SMESG000072370.1 (SMESG000072370.1)

HSP 1 Score: 500.36 bits (1287), Expect = 1.051e-173
Identity = 274/295 (92.88%), Postives = 281/295 (95.25%), Query Frame = 3 
Query:   84 MSSENAFMKQDEFKDQDSTFAGYLQHXXXXXXXXXXYFVEIGNGKVLLYPQKKLKNTISDVSLGSYLLEIIPIRNKPPFWTFVLRPKQSDKTLKVLKFGVSSVEEMEKCIKVLTENINVAQFQRSRHNTLNDGFSFSEGNMINQEYLSENQHNSFEGYSENGKEVGGQNSYNIENVEQRLSKSLEDQSLYANQNFDQTSSKSPENQSFYVDQRLEQNSSQSPEDQSIYAGTNLXXXXXXXXXXXXIYANQYSEQSLLLPPEDQSIYADQSLEQISRKSPKDQSTYATINKHEQIS 968
            MSSENAFMKQDEFKDQDSTFAGYLQHKTKKTKKWKKYFVEIGNGK+LLYP+KKLKNTISDVSLGSYLLEIIPIRNKPPFWTFVLRPKQSDKTLKVLKFGVSSVEEMEKCIKVLTENINVAQFQRSRHNTLNDGFS SEGNMINQE LSENQHNSFEGYSENGKEVGGQNSYNIENVEQRLSKSLEDQSLYANQNFDQTSSKSPENQSFYV QRLEQNSSQSPEDQSIYAGTNLEQSSSKSSEDQSIYANQYSEQSLLLPPEDQSIYADQ+L+Q S +   DQS YA  N  + +S
Sbjct:    1 MSSENAFMKQDEFKDQDSTFAGYLQHKTKKTKKWKKYFVEIGNGKLLLYPEKKLKNTISDVSLGSYLLEIIPIRNKPPFWTFVLRPKQSDKTLKVLKFGVSSVEEMEKCIKVLTENINVAQFQRSRHNTLNDGFSISEGNMINQECLSENQHNSFEGYSENGKEVGGQNSYNIENVEQRLSKSLEDQSLYANQNFDQTSSKSPENQSFYVGQRLEQNSSQSPEDQSIYAGTNLEQSSSKSSEDQSIYANQYSEQSLLLPPEDQSIYADQNLKQNSSEISVDQSIYACQNSEQSLS 295

HSP 2 Score: 361.303 bits (926), Expect = 2.761e-119
Identity = 209/287 (72.82%), Postives = 237/287 (82.58%), Query Frame = 3 
Query:  585 QNSYNIENVEQRLSKSLEDQSLYANQNFDQTSSKSPENQSFYVDQRLEQNSSQSPEDQSIYAGTNLXXXXXXXXXXXXIYANQYSEQSLLLPPEDQSIYADQSLEQISRKSPKDQSTYATINKHEQISLPIPLNTHLPNTNQXXXXXXXXXXXXXXESLDYTDGGDHQRRQPAFRVENQNHCPIEFDMKDVLFYGNKYDATKTLFRLSRVGVFLVRHQQGKQILTVQVEDVIMKYVLKTDLNNGKIRINGENIQFENLEHLLSHYLDNNLPRQNTKLTVPYNAVDQI 1445
            Q+ Y  +N++Q  S+   DQS+YA QN +Q+ SK  E+QS Y DQ L+QNSS+  EDQSIYA  NL+ +SS+ S DQSIYA Q SEQSL    EDQSIYA Q+LEQ   KS KDQSTYATIN+ EQISLPIPLNT LPNTNQKIHL +NMKLNN+NESL Y++ G+ QR+Q A  +EN+NH PI FDMKDVLFYGNKYDATKTL  LSRVGVFLVRH   +QILTVQ+EDVIMK+VL+TDLNNGKIRINGENIQFENLEHLLSHYLDNNLPRQNTKLTVPYNAVDQI
Sbjct:  263 QSIYADQNLKQNSSEISVDQSIYACQNSEQSLSKHHEDQSIYADQNLKQNSSEPSEDQSIYADQNLKPNSSELSVDQSIYACQNSEQSLSKHHEDQSIYAGQNLEQKPSKSLKDQSTYATINQREQISLPIPLNTPLPNTNQKIHLQENMKLNNENESLTYSNSGERQRKQQALHIENKNHNPIAFDMKDVLFYGNKYDATKTLCSLSRVGVFLVRHHHDRQILTVQLEDVIMKFVLQTDLNNGKIRINGENIQFENLEHLLSHYLDNNLPRQNTKLTVPYNAVDQI 549
[Close]
BLAST of SMED30025240 vs. Planmine SMEST
Match: SMESG000072365.1 (SMESG000072365.1)

HSP 1 Score: 250.751 bits (639), Expect = 7.258e-82
Identity = 119/122 (97.54%), Postives = 121/122 (99.18%), Query Frame = 3 
Query:  192 YFVEIGNGKVLLYPQKKLKNTISDVSLGSYLLEIIPIRNKPPFWTFVLRPKQSDKTLKVLKFGVSSVEEMEKCIKVLTENINVAQFQRSRHNTLNDGFSFSEGNMINQEYLSENQHNSFEGY 557
            YFVEIGNGK+LLYP+KKLKNTISDVSLGSYLLEIIPIRNKPPFWTFVLRPKQSDKTLKVLKFGVSSVEEMEKCIKVLTENINVAQFQRSRHNTLNDGFS SEGNMINQEYLSENQHNSFEGY
Sbjct:   25 YFVEIGNGKLLLYPEKKLKNTISDVSLGSYLLEIIPIRNKPPFWTFVLRPKQSDKTLKVLKFGVSSVEEMEKCIKVLTENINVAQFQRSRHNTLNDGFSISEGNMINQEYLSENQHNSFEGY 146
[Close]
BLAST of SMED30025240 vs. Planmine SMEST
Match: SMESG000072376.1 (SMESG000072376.1)

HSP 1 Score: 90.5077 bits (223), Expect = 5.891e-20
Identity = 41/100 (41.00%), Postives = 67/100 (67.00%), Query Frame = 3 
Query: 1128 CPIEFDMKDVLFYGNKYDATKTLFRLSRVGVFLVRHQQGKQILTVQVEDVIMKYVLKTDLNNGKIRINGENIQFENLEHLLSHYLDNNLPRQNTKLTVPY 1427
            C  + ++++++F G   +A+K LFR   +G FL+R ++  +ILTVQ  + I+KYVL+ D  + ++ I GE++ F+N+  LL++Y    LPRQN KLT PY
Sbjct:  194 CDPQLNLENIIFKGTSDEASKELFRSFHLGAFLIRLREDVKILTVQCPECIIKYVLEVDPESNRVNIKGESVTFDNIMDLLAYYHKFCLPRQNCKLTTPY 293
The following BLAST results are available for this feature:
BLAST of SMED30025240 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 SMED30025240 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 SMED30025240 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 SMED30025240 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 SMED30025240 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 SMED30025240 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 SMED30025240 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 SMED30025240 vs. TrEMBL
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI TrEMBL)
Total hits: 1
Match NameE-valueIdentityDescription
S5WMZ97.171e-1035.00Sh3bp2 OS=Schmidtea mediterranea OX=79327 PE=2 SV=... [more]
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BLAST of SMED30025240 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 SMED30025240 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 SMED30025240 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 SMED30025240 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 SMED30025240 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 SMED30025240 vs. Planmine SMEST
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Planmine SMEST)
Total hits: 5
Match NameE-valueIdentityDescription
SMESG000072364.10.000e+090.27SMESG000072364.1[more]
SMESG000072364.10.000e+086.79SMESG000072364.1[more]
SMESG000072370.11.051e-17392.88SMESG000072370.1[more]
SMESG000072365.17.258e-8297.54SMESG000072365.1[more]
SMESG000072376.15.891e-2041.00SMESG000072376.1[more]
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Sequences
The following sequences are available for this feature:

transcript sequence

>SMED30025240 ID=SMED30025240|Name=SMED30025240|organism=Schmidtea mediterranea sexual|type=transcript|length=1478bp
TCTTGGTTCCAGATCACTGAATACAGACAAGCAATATCAAAATATAAATG
TGCTCTATTGATTTCTAATAACAGCACTATCAAATGTCTTCTGAAAACGC
GTTTATGAAACAAGATGAATTTAAGGATCAAGATTCTACGTTCGCTGGAT
ATTTACAACACAAGACAAAGAAAACAAAGAAGTGGAAAAAATATTTTGTT
GAAATAGGAAATGGAAAAGTTCTTTTATATCCACAAAAGAAATTGAAAAA
TACAATAAGTGATGTGTCTCTAGGATCTTATTTACTTGAAATCATTCCAA
TTCGAAACAAACCTCCATTCTGGACATTTGTGTTGAGACCAAAACAAAGC
GATAAAACACTGAAAGTATTAAAATTTGGAGTTTCTTCGGTAGAAGAGAT
GGAAAAGTGTATTAAAGTTCTCACAGAAAACATAAATGTAGCGCAATTCC
AAAGAAGTCGACATAATACTTTGAATGATGGTTTCAGCTTTAGCGAAGGT
AATATGATTAATCAGGAATATCTTTCTGAAAATCAGCATAATTCGTTTGA
AGGGTATTCTGAAAATGGTAAAGAAGTTGGCGGTCAAAATAGTTACAATA
TTGAGAATGTAGAACAAAGATTATCAAAATCTCTCGAAGATCAAAGTTTG
TATGCAAATCAGAATTTTGATCAAACTTCATCGAAATCTCCGGAAAATCA
AAGCTTTTATGTAGATCAGAGATTAGAACAAAATTCATCACAATCACCAG
AAGACCAAAGTATTTATGCAGGTACAAACCTAGAACAAAGTTCATCGAAA
TCTTCTGAAGACCAAAGTATTTACGCAAATCAGTACTCAGAACAAAGTTT
ATTGCTACCACCTGAAGACCAAAGTATTTATGCAGATCAAAGCCTAGAAC
AAATATCACGAAAGTCCCCCAAAGATCAAAGTACTTACGCTACAATAAAT
AAACATGAACAAATATCTTTACCTATACCTTTAAATACTCACTTACCGAA
CACAAATCAAAAGATTCATTTACATAAAAACATGAAATTAAACAATAAAA
ATGAAAGTTTGGATTATACCGATGGAGGTGACCACCAAAGGAGACAGCCG
GCGTTTCGCGTTGAAAATCAAAACCATTGCCCCATCGAATTCGATATGAA
AGATGTATTATTTTATGGCAACAAGTACGATGCCACCAAAACCCTTTTCA
GGCTCAGTCGTGTTGGCGTATTTCTCGTTCGACACCAGCAAGGCAAACAA
ATATTAACAGTTCAAGTAGAAGATGTTATTATGAAATATGTTTTAAAAAC
TGATTTAAACAATGGGAAAATTCGAATAAATGGTGAAAATATCCAATTTG
AAAACTTAGAACATTTACTGTCGCATTATTTGGATAATAATTTACCCCGG
CAAAACACGAAATTAACCGTTCCATATAATGCAGTTGATCAAATTTAATA
TTTTTTGAGAAATAATAGTTTAAGCGTC
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protein sequence of SMED30025240-orf-1

>SMED30025240-orf-1 ID=SMED30025240-orf-1|Name=SMED30025240-orf-1|organism=Schmidtea mediterranea sexual|type=polypeptide|length=455bp
MSSENAFMKQDEFKDQDSTFAGYLQHKTKKTKKWKKYFVEIGNGKVLLYP
QKKLKNTISDVSLGSYLLEIIPIRNKPPFWTFVLRPKQSDKTLKVLKFGV
SSVEEMEKCIKVLTENINVAQFQRSRHNTLNDGFSFSEGNMINQEYLSEN
QHNSFEGYSENGKEVGGQNSYNIENVEQRLSKSLEDQSLYANQNFDQTSS
KSPENQSFYVDQRLEQNSSQSPEDQSIYAGTNLEQSSSKSSEDQSIYANQ
YSEQSLLLPPEDQSIYADQSLEQISRKSPKDQSTYATINKHEQISLPIPL
NTHLPNTNQKIHLHKNMKLNNKNESLDYTDGGDHQRRQPAFRVENQNHCP
IEFDMKDVLFYGNKYDATKTLFRLSRVGVFLVRHQQGKQILTVQVEDVIM
KYVLKTDLNNGKIRINGENIQFENLEHLLSHYLDNNLPRQNTKLTVPYNA
VDQI*
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Annotated Terms
The following terms have been associated with this transcript:
Vocabulary: Planarian Anatomy
TermDefinition
PLANA:0000034epidermis
PLANA:0000054dorsal region of the epidermis
PLANA:0000106ciliated epithelial cell
PLANA:0002032epidermal cell
PLANA:0003116parenchymal cell
Vocabulary: INTERPRO
TermDefinition
IPR036860SH2_dom_sf
IPR035848SH3BP2
IPR000980SH2
IPR011993PH-like_dom_sf
Vocabulary: biological process
TermDefinition
GO:0007165signal transduction
Vocabulary: molecular function
TermDefinition
GO:0005070SH3/SH2 adaptor activity
InterPro
Analysis Name: Schmidtea mediteranean smed_20140614 Interproscan
Date Performed: 2020-05-01
IPR TermIPR DescriptionSourceSource TermSource DescriptionAlignment
IPR036860SH2 domain superfamilyGENE3DG3DSA:3.30.505.10coord: 346..453
e-value: 7.3E-9
score: 37.2
IPR036860SH2 domain superfamilySUPERFAMILYSSF55550SH2 domaincoord: 360..450
IPR011993PH-like domain superfamilyGENE3DG3DSA:2.30.29.30coord: 13..127
e-value: 2.6E-8
score: 35.6
IPR035848SH3 domain-binding protein 2PANTHERPTHR15126SH3-BINDINGcoord: 19..449
IPR000980SH2 domainPROSITEPS50001SH2coord: 353..448
score: 9.722
NoneNo IPR availableSUPERFAMILYSSF50729PH domain-likecoord: 16..120