SMED30001622

Overview
NameSMED30001622
Smed IDSMED30001622
Length (bp)1702
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 SMED30001622 (SMED30001622) t-SNE clustered cells

Violin plots show distribution of expression levels for SMED30001622 (SMED30001622) 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 SMED30001622 (SMED30001622) in the t-SNE clustered sub-lethally irradiated X1 and X2 cells.

Violin plots show distribution of expression levels for SMED30001622 (SMED30001622) 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




SMED30001622

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



PAGE Curations: 8

  
Expressed InReference TranscriptGene ModelsPublished TranscriptTranscriptomePublicationSpecimenLifecycleEvidence
intestinal phagocyteSMED30001622SMESG000040908.1 Contig2151GPL15192PMID:23079596
Forsthoefel et al., 2012
FACS sorted cell population asexual adult cDNA to DNA expression microarray evidence
nervous systemSMED30001622SMESG000040908.1 dd_Smed_v4_10356_0_1dd_Smed_v4PMID:29674431
Fincher et al., 2018
FACS sorted cell population asexual adult single-cell RNA-sequencing evidence
cephalic gangliaSMED30001622SMESG000040908.1 dd_Smed_v4_10356_0_1dd_Smed_v4PMID:29674431
Fincher et al., 2018
FACS sorted cell population asexual adult single-cell RNA-sequencing evidence
neuronSMED30001622SMESG000040908.1 dd_Smed_v4_10356_0_1dd_Smed_v4PMID:29674431
Fincher et al., 2018
whole organism asexual adult colorimetric in situ hybridization evidence
neoblastSMED30001622SMESG000040908.1 dd_Smed_v4_10356_0_1dd_Smed_v4PMID:29674431
Fincher et al., 2018
FACS sorted cell population asexual adult single-cell RNA-sequencing evidence
muscle cellSMED30001622SMESG000040908.1 dd_Smed_v4_10356_0_1dd_Smed_v4PMID:29674431
Fincher et al., 2018
FACS sorted cell population asexual adult single-cell RNA-sequencing evidence
Smed sexual biotypeSMED30001622SMESG000040908.1 Contig39287newmark_estsPMID:29674431
Fincher et al., 2018
FACS sorted cell population adult hermaphrodite single-cell RNA-sequencing evidence
Smed sexual biotypeSMED30001622SMESG000040908.1 Contig39287uc_Smed_v2PMID:29674431
Fincher et al., 2018
FACS sorted cell population adult hermaphrodite single-cell RNA-sequencing evidence
Note: Hover over icons to view figure legend
Alignments
SMED30001622 aligns in the following genomic locations:
Alignment LocationAlignment Score
v31.022612:2089..3790 +8510
Homology
BLAST of SMED30001622 vs. Planmine SMEST
Match: SMESG000040908.1 (SMESG000040908.1)

HSP 1 Score: 813.913 bits (2101), Expect = 0.000e+0
Identity = 506/506 (100.00%), Postives = 506/506 (100.00%), Query Frame = 1
Query:   76 METNYKFDILEKILEFSCLIYFVLGCLTSYSWASKELDYKTLNSRILLFWEPIAAIMGIVNVFHIILIGFFIYXXXXXXXXXXXXXXXXILFYILSIPXXXXXXXXXXXXXXRDFHCQETIGKFSIFLCFGELGXXXXXXXXXXXXXXSKLIIPTKQMAQFFRFLKLITIIGMVNYFFFHIVSQQIYNFISVASNTSIYPKINNRNIPALPFDFDSLRNYMQPLVILFCCICVIYLVIIFRLANANNPSISENDEYIQLIESVHNQQNLSQTSKNSNKSFMKNLQLPPXXXXXXXXXXXXXXXXXXXXNSFLNDKLLYKSGQIISATFASFIYLISIVLLILQIFEMKRWRKNEENFNIVDKILTWIGVCGQLMISTAQISLNIYKFEPASAFLLIEYFFLIVQILLQYVTVTLALDRQCIPPKIKTWQEFICPAVXXXXXXXXXXXXXXXDVINANSQKSFNSYETDMFIQIFGAGFQSFGETLSILQRLHSLLIFGKXXXXXNQ 1593
            METNYKFDILEKILEFSCLIYFVLGCLTSYSWASKELDYKTLNSRILLFWEPIAAIMGIVNVFHIILIGFFIYKNSKKKIMKKSHKEINILFYILSIPLLLVSMSYLILLIIRDFHCQETIGKFSIFLCFGELGFFIATIVFITFINISKLIIPTKQMAQFFRFLKLITIIGMVNYFFFHIVSQQIYNFISVASNTSIYPKINNRNIPALPFDFDSLRNYMQPLVILFCCICVIYLVIIFRLANANNPSISENDEYIQLIESVHNQQNLSQTSKNSNKSFMKNLQLPPISLILGILLITSSILIIIIINSFLNDKLLYKSGQIISATFASFIYLISIVLLILQIFEMKRWRKNEENFNIVDKILTWIGVCGQLMISTAQISLNIYKFEPASAFLLIEYFFLIVQILLQYVTVTLALDRQCIPPKIKTWQEFICPAVGILSINLGLLFLSLFDVINANSQKSFNSYETDMFIQIFGAGFQSFGETLSILQRLHSLLIFGKIIIIINQ
Sbjct:    1 METNYKFDILEKILEFSCLIYFVLGCLTSYSWASKELDYKTLNSRILLFWEPIAAIMGIVNVFHIILIGFFIYKNSKKKIMKKSHKEINILFYILSIPLLLVSMSYLILLIIRDFHCQETIGKFSIFLCFGELGFFIATIVFITFINISKLIIPTKQMAQFFRFLKLITIIGMVNYFFFHIVSQQIYNFISVASNTSIYPKINNRNIPALPFDFDSLRNYMQPLVILFCCICVIYLVIIFRLANANNPSISENDEYIQLIESVHNQQNLSQTSKNSNKSFMKNLQLPPISLILGILLITSSILIIIIINSFLNDKLLYKSGQIISATFASFIYLISIVLLILQIFEMKRWRKNEENFNIVDKILTWIGVCGQLMISTAQISLNIYKFEPASAFLLIEYFFLIVQILLQYVTVTLALDRQCIPPKIKTWQEFICPAVGILSINLGLLFLSLFDVINANSQKSFNSYETDMFIQIFGAGFQSFGETLSILQRLHSLLIFGKIIIIINQ 506          
BLAST of SMED30001622 vs. Planmine SMEST
Match: SMESG000040891.1 (SMESG000040891.1)

HSP 1 Score: 265.003 bits (676), Expect = 1.262e-81
Identity = 215/521 (41.27%), Postives = 309/521 (59.31%), Query Frame = 1
Query:   76 METNYKFDILEKILEFSCLIYFVLGCLTSYSWASKELDYKTLNSRILLFWEPIAAIMGIVNVFHIILIGFFIYXXXXXXXXXXXXXXXXILFYILSIPXXXXXXXXXXXXXXRDFHCQETIGKFSIFLCFGELGXXXXXXXXXXXXXXSKLIIPTKQMAQFFRFLKLITIIGMVNYFFFHIVSQQIYNFISVASNTSIYPKI-NNRNIP-ALPFDFDSLRNYMQPLVILFCCICVIYLVIIFRLANANNPSISENDEYIQLIESVHNQQNLSQTSK---------NSNKSFMKNLQLPPXXXXXXXXXXXXXXXXXXXXNSFLNDKLLYKSGQIISATFASFIYLISIVLLILQIFEMKRWRKNEENFNIVDKILTWIGVCGQLMISTAQISLNIYKFEPA-SAFLLIEYFFLIVQILLQYVTVTLALDRQCIPPKIKTWQEFICPAVXXXXX----XXXXXXXXXXDVINANSQKSFNSYETDMFIQIFGAGFQSFGETLSILQRLHSLLIFGKXXXXXN 1590
            M   YK++I EK+L+ + L YFV G  T+Y WA KELD  + + +I  FW PIA + GI+N F+ IL    I    K+++  + + E N+LFY+L  PL L ++ + IL I   F  +      ++ +  GE+  FI T   I  IN    I    +M    RF+ L + IG++NYF FH+  QQI NFIS+AS+   Y K  NN   P   PF F  ++ Y+QPLVILFCC C++YL+  +    ++  ++ +N    +L E   ++ N S+T            SN     + +LPP+SL+LGILLIT S+L + I+NS L    LY +GQ +S  F   I ++S+ LL +QI EM+RW K ++N NIVD  L WIG  GQ+ I+ +Q+ L  +  +P   A     YF LI+Q +LQ +T++L+LDR+ I P+ K+WQE+ICPAVGILSI     +  +F+ + DV+N    K   +  T++F+++FG GF S GETL ILQRLHS LIF KIII  N
Sbjct:    1 MNPEYKYEIFEKLLQLTGLFYFVSGFFTTYCWACKELDKVSPHEQINNFWNPIAVVSGIINCFNFILTIITI-SQGKRQVQTERNIEGNLLFYVLCAPLFLATIVFTILEITV-FSMKLHENDLTMLMSIGEMFLFIGTFFLILNINFKFWIFLGSKMKLLNRFVMLTSFIGIINYFMFHMTDQQITNFISIASDYDAYSKYYNNSTKPREGPFHFSRIKKYVQPLVILFCCTCMVYLIKFYFSRTSSQKNLDDNST--ELSEETLDKINDSETENLIIRENEVVRSNTKNPPSFRLPPLSLVLGILLITVSLLAVAILNSLLKSTSLYFTGQYLSTIFPIPIDILSLFLLYMQIIEMERWPKIKKNENIVDSTLVWIGAIGQITIAFSQLELYTFIRDPGLVAAKDCYYFVLILQTILQTLTISLSLDREWISPERKSWQEYICPAVGILSINISFLIINVFILMGDVLNEQMAK---NNITELFLKMFGNGFSSLGETLGILQRLHSSLIFIKIIIYTN 514          
BLAST of SMED30001622 vs. Planmine SMEST
Match: SMESG000020517.1 (SMESG000020517.1)

HSP 1 Score: 221.861 bits (564), Expect = 2.650e-65
Identity = 190/512 (37.11%), Postives = 289/512 (56.45%), Query Frame = 1
Query:   88 YKFDILEKILEFSCLIYFVLGCLTSYSWASKELDYKTLNSRILLFWEPIAAIMGIVNVFHIILIGFFIYXXXXXXXXXXXXXXXXILFYILSIPXXXXXXXXXXXXXXRDFHCQETIGKFSIFLCFGELGXXXXXXXXXXXXXXSKLIIPTKQMAQFFRFLKLITIIGMVNYFFFHIVSQQIYNFISVASNTSIYPKINNRNIPALPFDFDS----LRNYMQPLVILFCCICVIYLVIIFRLANANNPSISENDEYIQLIESVHNQQNLSQ----TSKNSNKSF----MKNLQLPPXXXXXXXXXXXXXXXXXXXXNSFLNDKLLYKSGQIISATFASFIYLISIVLLILQIFEMKRWRKNEENFNIVDKILTWIGVCGQLMISTAQISLNIYKFEPA-SAFLLIEYFFLIVQILLQYVTVTLALDRQCIPPKIKTWQEFICPAVXXXXXXXXXXXXXXXDVINANSQKSFNSYETD----MFIQIFGAGFQSFGETLSILQRLHSLLIFGK 1572
            +K DI EK+L+F  L+YFV+G L +Y W  KELD K+   RIL F+ PIA    +++   ++ +      +  KK       E NIL Y + IP  L ++ Y  + +I           F +F   GE+  FI+ I+ I F   SK I+   Q   +  F+ L+ I G+VN   +H+  QQI NFI +AS      K  N +I   P D +S    + +++QP VILFC + + YL++ +   N+ +  I E ++   LI+ ++ +   S+     S N   SF     +++ LPP SL L IL IT +  II I N+ +N       GQ+IS+ F   IYL SI LLI+Q+ ++ RW K   +  ++D+++ W+G  GQ++   AQIS+N Y++ P  S +++ EY  L  Q + Q + ++LALDR+   PK+++W E++CP VG+LS+NL  +  SLFD+IN    KS N +  +    +F++IF  GFQSFG  L+ILQRLHS LIFGK
Sbjct:    4 FKLDIFEKVLKFYVLLYFVMGFLVNYLWICKELDMKSDFKRILEFYNPIAMATSLMDFVSLVSVLILFKWSVSKKKTDLEKLESNILLYTIVIPTFLATIVYSSVKVILSAMEFSEKNDFILFSVMGEICLFISVIILIQFFLKSKFIVNYFQRI-YIDFVVLLNIFGIVNLICYHMSVQQINNFIKIASKFPTLSKFYNLSISQ-PTDNESSLIKINSFLQPFVILFCFVILSYLILFY---NSAHYEIQETEKL--LIDEINLRTGASEEDIIASSNPTISFSFKVFQSINLPPFSLGLAILFITVTFFIIAIANNMMNSPKFATEGQLISSIFPIPIYLFSIFLLIIQMNDICRWEKLGTDKYLIDRMILWVGATGQVVEIVAQISMNSYQYYPKLSGWIIAEYAILFFQTMFQTLVISLALDRKWSQPKLESWHEYLCPPVGMLSLNLSFMIFSLFDIINT---KSLNVFSVELNPYLFMRIFTNGFQSFGVALAILQRLHSSLIFGK 505          
BLAST of SMED30001622 vs. Planmine SMEST
Match: SMESG000040928.1 (SMESG000040928.1)

HSP 1 Score: 214.542 bits (545), Expect = 1.328e-62
Identity = 183/505 (36.24%), Postives = 291/505 (57.62%), Query Frame = 1
Query:   88 YKFDILEKILEFSCLIYFVLGCLTSYSWASKELDYKTLNSRILLFWEPIAAIMGIVNVFHIILIGFFIYXXXXXXXXXXXXXXXXILFYILSIPXXXXXXXXXXXXXXRDFHCQETIGKFSIFLCFGELGXXXXXXXXXXXXXXSKLIIPTKQMAQFFRFLKLITIIGMVNYFFFHIVSQQIYNFISVASNTSIYP------KINNRNIPALPFDFDSLRNYMQPLVILFCCICVIYLVIIFRLANANNPSISENDEYIQLI-ESVHNQQNLSQTSKNSNKSFMKNLQLPPXXXXXXXXXXXXXXXXXXXXNSFLNDKLLYKSGQIISATFASFIYLISIVLLILQIFEMKRWRKNEENFNIVDKILTWIGVCGQLM--ISTAQISLNIYKFEPASAFLLIEYFFLIVQILLQYVTVTLALDRQCIPPKIKTWQEFICPAVXXXXXXXXXXXXXXXDVINAN-SQKSFNSYETDMFIQIFGAGFQSFGETLSILQRLHSLLIFGK 1572
            Y FD++   L+   L  F +G  T+Y WA   LD  T  +  L+FWEPIA I G++++  ++LI +FI + S      +      ILF  LSIPL + S  +L+  I+ D     ++G F+ F+   E  FFI T+    ++  ++      ++ ++  F+ LI+ IGM  YF F+IV+ QI +FI VA N S Y        + NRN+ +   D   L  Y+QPL I+FC +   YL I    +     + ++ DE  +L  +S+ ++   S  S NSN S     ++P  S+ILGIL  T ++++++I ++  + +    SG+ I+ ++A  IY++SI++L++Q+FEMKRW K  +  N+VD  L ++G  GQ+   ISTA++ +  Y+ +  S   +I+   LIVQI LQ++ + L+L+R+ IPP +KTWQEFICP+  +   NLG    S+F+++N N  Q+SF      +F++IFG GF S   TL+ILQR HS +IF K
Sbjct:    5 YLFDVIRNWLKLLILFSFTVGIFTNYCWACVLLDQVTPINETLIFWEPIAGINGVMDLSIVLLIVYFI-RVSWNDPTIQVDFYSKILFLFLSIPLFIGSQIHLVWHIVGDVKL-SSVGGFTEFMHVTESVFFIGTMTLNMYMITTRRTFNKTKIKEYKSFILLISAIGMFKYFLFNIVTHQIQSFIKVAENYSFYSYFYNNYSMENRNLDSHSPD---LEIYLQPLTIIFCFVSFSYL-IRSEFSKTLGDTDTQFDECSRLRGDSLSHENRESIESTNSNISNYYYFKIPSFSIILGILFFTMTLILVLIASTLKSSE----SGKTITVSYAFSIYIVSIIILVVQMFEMKRWPKKTKIENVVDPALLYLGTAGQIFVSISTAKLYMYNYQNKEFSILTIIQNLILIVQISLQFLVIRLSLERKWIPPVVKTWQEFICPSFTLFCFNLGYFGFSVFEIMNNNIVQESF-----PLFLKIFGNGFYSISMTLAILQRFHSSIIFYK 494          
BLAST of SMED30001622 vs. Planmine SMEST
Match: SMESG000040922.1 (SMESG000040922.1)

HSP 1 Score: 186.422 bits (472), Expect = 4.092e-52
Identity = 166/506 (32.81%), Postives = 273/506 (53.95%), Query Frame = 1
Query:   76 METNYKFDILEKILEFSCLIYFVLGCLTSYSWASKELDYKTLNSRILLFWEPIAAIMGIVNVFHIILIGFFIYXXXXXXXXXXXXXXXXILFYILSIPXXXXXXXXXXXXXXRDFHCQETIGKFSIFLCFGELGXXXXXXXXXXXXXXSKLIIPTKQ--MAQFFRFLKLITIIGMVNYFFFHIVSQQIYNFISVASNTSIYPKINNRNIPALPFDFDSLRN---YMQPLVILFCCICVIYLVIIFRLANANNPSISENDEYIQLIESVHNQQNLSQTSKNSNKSFMKNLQLPPXXXXXXXXXXXXXXXXXXXXNSFLNDKLLYKSGQIISATFASFIYLISIVLLILQIFEMKRWRKNEENFNIVDKILTWIGVCGQLMISTAQISLN-IYKFEPASAFLLIEYFFLIVQILLQYVTVTLALDRQCIPPKIKTWQEFICPAVXXXXXXXXXXXXXXXDVINAN-SQKSFNSYETDMFIQIFGAGFQSFGETLSILQRLHSLLIFGK 1572
            M  +Y  D+ E+IL F  L YF+LG LT+Y WA   LDY +    I  FW PI A++  ++   I ++          ++   +H E   L Y L +P  L +++++ + II           F++ L F E+   +             ++ P     + +   F+    +IG  N     + +QQI NF+ VASN S Y +   +++     D+ +L N   Y+ P+ ILFCC+CVI L     L N +  +++E+    Q+I    +  NL +     ++  +++L + P+ LIL ++ +  SI + IIINSFLN      +GQ+IS  F    Y ++I+LL +QI E+  W+K   N   VDK++ WIG  GQL+I  A++ +  I + E  SA ++ +Y  L+VQI +Q V + +AL+R+ + PK+K+WQE + P + +LS+N+G LF+S+ +  N N S  +  + +  +F++IFG GFQ  G  L+I  R+HS +IFGK
Sbjct:    1 MNESYWSDLFEQILNFFALSYFILGYLTNYLWACNRLDYTSSYKEIFKFWNPI-AVITGISNIIIGILIIIALNVRINRVSIPNHFEYQTLIYTLLVPSFLGTVTFMAIRIILTIKSYMNFNDFTMVLSFSEM--ILFCCGIGLIRKKISMVNPEVNCYLQKLVEFINKSALIGFCNCLIHFMSAQQIDNFVKVASNFSFYFQFYGKSLTNRTVDYYNLSNINSYLVPIAILFCCLCVICLFFNL-LNNKSQNTLTEDQNDSQVIVQWTSTTNLLENEPIFDR--VRSLNMSPLLLILALIFLAISIFLTIIINSFLNSYQYNITGQLISTVFPIPFYFLAIILLAIQINEIMEWKKISTNEFTVDKMMLWIGAAGQLVICFAKLFMEFIERTENFSALIIAKYGLLLVQIFIQTVALNMALNRKWLRPKLKSWQEKLFPPISLLSLNMGFLFISMLNDFNRNTSHSTVKNIDKRLFLRIFGNGFQLPGLILAIFHRMHSSVIFGK 500          
The following BLAST results are available for this feature:
BLAST of SMED30001622 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 SMED30001622 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 SMED30001622 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 SMED30001622 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 SMED30001622 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 SMED30001622 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 SMED30001622 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 SMED30001622 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 SMED30001622 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 SMED30001622 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 SMED30001622 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 SMED30001622 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 SMED30001622 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 SMED30001622 vs. Planmine SMEST
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Planmine SMEST)
Total hits: 5
Match NameE-valueIdentityDescription
SMESG000040908.10.000e+0100.00SMESG000040908.1[more]
SMESG000040891.11.262e-8141.27SMESG000040891.1[more]
SMESG000020517.12.650e-6537.11SMESG000020517.1[more]
SMESG000040928.11.328e-6236.24SMESG000040928.1[more]
SMESG000040922.14.092e-5232.81SMESG000040922.1[more]
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Sequences
The following sequences are available for this feature:

transcript sequence

>SMED30001622 ID=SMED30001622|Name=SMED30001622|organism=Schmidtea mediterranea sexual|type=transcript|length=1702bp
GATTATTACAGTGAATTTGTAAATAAATTATACTGGGGTCGAAGTTGAAT
TGAATTTATTCATAATTTTCACCTGATGGAAACCAATTACAAATTCGACA
TTTTAGAGAAAATTTTGGAATTTTCCTGTTTAATCTATTTTGTGCTTGGT
TGCTTAACAAGTTACAGTTGGGCGTCCAAGGAACTCGATTACAAAACGCT
GAATTCTCGAATTCTACTATTCTGGGAACCAATAGCGGCAATCATGGGAA
TCGTAAATGTGTTTCATATTATTCTCATTGGATTTTTCATTTATAAAAAT
TCAAAGAAAAAGATTATGAAAAAATCCCACAAAGAAATTAATATTTTATT
TTACATTCTTTCAATTCCTCTGCTGCTAGTGAGTATGAGTTATTTGATTC
TATTAATCATTCGAGATTTCCACTGTCAAGAAACAATTGGTAAGTTTTCC
ATATTTCTGTGTTTTGGAGAACTCGGTTTCTTCATTGCCACAATCGTATT
TATTACTTTCATCAACATCAGTAAATTAATTATCCCAACCAAACAAATGG
CTCAATTTTTCCGATTTCTTAAATTAATAACTATAATAGGAATGGTTAAT
TATTTCTTCTTTCATATAGTTTCACAACAAATTTACAATTTCATCAGTGT
CGCATCAAACACCTCGATTTATCCGAAAATCAATAATAGAAATATACCTG
CGCTGCCATTTGATTTTGATTCGCTGAGAAATTACATGCAACCGCTAGTG
ATTCTATTTTGTTGTATTTGCGTCATTTATCTCGTAATAATTTTTCGATT
GGCCAATGCAAATAATCCAAGTATCAGTGAAAATGATGAATACATTCAGT
TGATTGAATCTGTTCACAACCAGCAGAATCTTAGCCAAACTTCGAAAAAT
TCGAATAAAAGTTTCATGAAGAATTTACAACTGCCTCCAATATCTCTGAT
ATTGGGAATATTATTAATCACTTCTTCCATCTTGATTATTATTATTATAA
ATTCCTTTTTAAATGATAAACTACTTTACAAGAGCGGTCAAATTATTTCC
GCCACTTTTGCAAGCTTTATCTATCTCATTTCGATAGTTCTGTTAATTCT
ACAAATCTTTGAAATGAAGAGATGGAGAAAAAATGAAGAAAATTTCAATA
TTGTCGATAAAATTCTCACATGGATCGGTGTTTGTGGACAGCTAATGATA
TCCACTGCACAAATCTCTTTGAATATTTACAAATTTGAACCGGCATCGGC
ATTTTTGTTGATTGAATATTTTTTTTTGATCGTTCAAATATTGTTGCAAT
ATGTCACCGTGACTCTAGCTCTTGATCGTCAGTGTATTCCACCGAAAATA
AAAACTTGGCAAGAATTCATTTGTCCGGCCGTTGGAATATTGAGCATCAA
TTTGGGATTGCTTTTCCTCAGTTTATTTGATGTTATAAATGCAAATTCTC
AAAAGTCTTTTAATTCATATGAAACCGATATGTTTATACAGATATTCGGC
GCTGGATTTCAATCTTTCGGAGAAACTTTGTCAATTCTTCAACGTTTGCA
TTCGTTATTAATTTTCGGAAAAATAATAATTATAATAAATCAATGAAGAA
AGAAAGATTCACTATAATTTCATTATTATTCACTAAACTGTTTTAATATC
ATTAAATAGGATCACAATGAAACAAAATTTTAATATAAATGTATGAATAT
TA
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protein sequence of SMED30001622-orf-1

>SMED30001622-orf-1 ID=SMED30001622-orf-1|Name=SMED30001622-orf-1|organism=Schmidtea mediterranea sexual|type=polypeptide|length=507bp
METNYKFDILEKILEFSCLIYFVLGCLTSYSWASKELDYKTLNSRILLFW
EPIAAIMGIVNVFHIILIGFFIYKNSKKKIMKKSHKEINILFYILSIPLL
LVSMSYLILLIIRDFHCQETIGKFSIFLCFGELGFFIATIVFITFINISK
LIIPTKQMAQFFRFLKLITIIGMVNYFFFHIVSQQIYNFISVASNTSIYP
KINNRNIPALPFDFDSLRNYMQPLVILFCCICVIYLVIIFRLANANNPSI
SENDEYIQLIESVHNQQNLSQTSKNSNKSFMKNLQLPPISLILGILLITS
SILIIIIINSFLNDKLLYKSGQIISATFASFIYLISIVLLILQIFEMKRW
RKNEENFNIVDKILTWIGVCGQLMISTAQISLNIYKFEPASAFLLIEYFF
LIVQILLQYVTVTLALDRQCIPPKIKTWQEFICPAVGILSINLGLLFLSL
FDVINANSQKSFNSYETDMFIQIFGAGFQSFGETLSILQRLHSLLIFGKI
IIIINQ*
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Annotated Terms
The following terms have been associated with this transcript:
Vocabulary: Planarian Anatomy
TermDefinition
PLANA:0000070intestinal phagocyte
PLANA:0000099neuron
PLANA:0000101muscle cell
Vocabulary: INTERPRO
TermDefinition
IPR004878Otopetrin
InterPro
Analysis Name: Schmidtea mediteranean smed_20140614 Interproscan
Date Performed: 2020-05-01
IPR TermIPR DescriptionSourceSource TermSource DescriptionAlignment
IPR004878OtopetrinPFAMPF03189Otopetrincoord: 215..459
e-value: 2.9E-11
score: 42.9
IPR004878OtopetrinPANTHERPTHR21522OTOPETRINcoord: 219..499
NoneNo IPR availablePROSITEPS51257PROKAR_LIPOPROTEINcoord: 1..26
score: 5.0
NoneNo IPR availableTMHMMTMhelixcoord: 363..385
NoneNo IPR availableTMHMMTMhelixcoord: 13..33
NoneNo IPR availableTMHMMTMhelixcoord: 90..112
NoneNo IPR availableTMHMMTMhelixcoord: 48..70
NoneNo IPR availableTMHMMTMhelixcoord: 390..412
NoneNo IPR availableTMHMMTMhelixcoord: 127..149
NoneNo IPR availableTMHMMTMhelixcoord: 286..308
NoneNo IPR availableTMHMMTMhelixcoord: 220..242
NoneNo IPR availableTMHMMTMhelixcoord: 469..488
NoneNo IPR availableTMHMMTMhelixcoord: 432..454
NoneNo IPR availableTMHMMTMhelixcoord: 161..183
NoneNo IPR availableTMHMMTMhelixcoord: 323..342