SMED30030459

Overview
NameSMED30030459
Smed IDSMED30030459
Length (bp)2902
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 SMED30030459 (SMED30030459) t-SNE clustered cells

Violin plots show distribution of expression levels for SMED30030459 (SMED30030459) in cells (dots) of each of the 12 neoblast clusters.

 

back to top


 

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 SMED30030459 (SMED30030459) in the t-SNE clustered sub-lethally irradiated X1 and X2 cells.

Violin plots show distribution of expression levels for SMED30030459 (SMED30030459) in cells (dots) of each of the 10 clusters of sub-leathally irradiated X1 and X2 cells.

 

back to top


 

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

 

back to top
Anatomical Expression

PAGE et. al., 2020




SMED30030459

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
nervous systemSMED30030459SMESG000041220.1 dd_Smed_v4_14151_0_1dd_Smed_v4PMID:29674431
Fincher et al., 2018
FACS sorted cell population asexual adult single-cell RNA-sequencing evidence
gutSMED30030459SMESG000041220.1 dd_Smed_v4_14151_0_1dd_Smed_v4PMID:29674431
Fincher et al., 2018
FACS sorted cell population asexual adult single-cell RNA-sequencing evidence
epidermisSMED30030459SMESG000041220.1 dd_Smed_v4_14151_0_1dd_Smed_v4PMID:29674431
Fincher et al., 2018
FACS sorted cell population asexual adult single-cell RNA-sequencing evidence
cephalic gangliaSMED30030459SMESG000041220.1 dd_Smed_v4_14151_0_1dd_Smed_v4PMID:29674431
Fincher et al., 2018
FACS sorted cell population asexual adult single-cell RNA-sequencing evidence
muscle cellSMED30030459SMESG000041220.1 dd_Smed_v4_14151_0_1dd_Smed_v4PMID:29674431
Fincher et al., 2018
FACS sorted cell population asexual adult single-cell RNA-sequencing evidence
neoblastSMED30030459SMESG000041220.1 dd_Smed_v4_14151_0_1dd_Smed_v4PMID:29674431
Fincher et al., 2018
FACS sorted cell population asexual adult single-cell RNA-sequencing evidence
parenchymal cellSMED30030459SMESG000041220.1 dd_Smed_v4_14151_0_1dd_Smed_v4PMID:29674431
Fincher et al., 2018
FACS sorted cell population asexual adult single-cell RNA-sequencing evidence
cilated neuronSMED30030459SMESG000041220.1 dd_Smed_v4_14151_0_1dd_Smed_v4PMID:29674431
Fincher et al., 2018
FACS sorted cell population asexual adult single-cell RNA-sequencing evidence
zeta neoblastSMED30030459SMESG000041220.1 dd_Smed_v4_14151_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
SMED30030459 aligns in the following genomic locations:
Alignment LocationAlignment Score
v31.000061:117131..123149 -14303
Homology
BLAST of SMED30030459 vs. Planmine SMEST
Match: SMESG000041220.1 (SMESG000041220.1)

HSP 1 Score: 1016.91 bits (2628), Expect = 0.000e+0
Identity = 521/523 (99.62%), Postives = 523/523 (100.00%), Query Frame = 2
Query: 1313 IDSIYQDKDNETIKEKFEPLKSKHNVSSIKSFIEIPQRMLTQIELQLKEIVEKTENEHPDIKNLKEMLKITHDVSTLVNQVAQYHAVHKSQITINKYFLKADFLRHDNPYSTVVDCMYFSADGSTLPKMLLVLENSVVISDFVNKIPPNQLYXXXXXXXXXXDTLXXXXXXXXXXXLVVDENENSTVQRTSSNCSASTLNKRKRIEGILCSKYHKLFTGLSEVNWKVENSEMFCTPLLLEKSNIVSVRSNASQWRLYDQMFFAIDYRDPKSQNIEQYTFQLVPRFVKNIQVYDKLNVGFPFEFEWSCPEKDISWGELVSSEKRNFCYNLACHFDVEYSETYDLTKSLYLNSSNESMESVATKFSAYSSTPKRSVKKFFRRLTTFVKPVKEKHKTPTPSNGNIQSRISNNFLTPSQKNLNDIKEDLKNVLNDSSNIQLSFTSNADYLQQLNFETSNERLDDHFVNNNLEYFEQISEIDGVAEVKISADPGETVSFSTTPSHKKRNSTKRKSDLDFEKKMKNRKC 2881
            ++SIYQDKDNETIKEKFEPLKSKHNVSSIKSFIEIPQRMLTQIELQLKEIVEKTENEHPDIKNLKEMLKITHDVSTLVNQVAQYHAVHKSQITINKYFLKADFLRHDNPYSTVVDCMYFSADGSTLPKMLLVLENSVVISDFVNKIPPNQLYKKVKKNLKKVDTLNSNNSISIKNSLVVDENENSTVQRTSSNCSASTLNKRKRIEGILCSKYHKLFTGLSEVNWKVENSEMFCTPLLLEKSNIVSVRSNASQWRLYDQMFFAIDYRDPKSQNIEQYTFQLVPRFVKNIQVYDKLNVGFPFEFEWSCPEKDISWGELVSSEKRNFCYNLACHFDVEYSETYDLTKSLYLNSSNESMESVATKFSAYSSTPKRSVKKFFRRLTTFVKPVKEKHKTPTPSNGNIQSRISNNFLTPSQKNLNDIKEDLKNVLNDSSNIQLSFTSNADYLQQLNFETSNERLDDHFVNNNLEYFEQISEIDGVAEVKISADPGETVSFSTTPSHKKRNSTKRKSDLDFEKKMKNRKC
Sbjct:  292 LNSIYQDKDNETIKEKFEPLKSKHNVSSIKSFIEIPQRMLTQIELQLKEIVEKTENEHPDIKNLKEMLKITHDVSTLVNQVAQYHAVHKSQITINKYFLKADFLRHDNPYSTVVDCMYFSADGSTLPKMLLVLENSVVISDFVNKIPPNQLYKKVKKNLKKVDTLNSNNSISIKNSLVVDENENSTVQRTSSNCSASTLNKRKRIEGILCSKYHKLFTGLSEVNWKVENSEMFCTPLLLEKSNIVSVRSNASQWRLYDQMFFAIDYRDPKSQNIEQYTFQLVPRFVKNIQVYDKLNVGFPFEFEWSCPEKDISWGELVSSEKRNFCYNLACHFDVEYSETYDLTKSLYLNSSNESMESVATKFSAYSSTPKRSVKKFFRRLTTFVKPVKEKHKTPTPSNGNIQSRISNNFLTPSQKNLNDIKEDLKNVLNDSSNIQLSFTSNADYLQQLNFETSNERLDDHFVNNNLEYFEQISEIDGVAEVKISADPGETVSFSTTPSHKKRNSTKRKSDLDFEKKMKNRKC 814          

HSP 2 Score: 565.844 bits (1457), Expect = 0.000e+0
Identity = 292/302 (96.69%), Postives = 294/302 (97.35%), Query Frame = 2
Query:   32 MIIYVHYTEITINIEDQFPNEIRCEFFSNINELNIEKIIHSSSIPIFCINDQSLADKLKNKLKKCLIVNSHFLSVQLKLIYKDILKLSKNYVFLFLGFQNKNLLTKLQFKVLAMGGIYAVDESDKIFESVNIVIPYRFTRNVQLILNKLKSYRIYSHFNIDSIEINEFEDLHDKSNS--MGLFNNCRIRLVGFESDKQESISLSIFENNGTFLSISDKNYVEEDIFIFAQGFQSENYAIHLKEISETINLSFVNEDWYWDSVREDFLVPFENYPATICECNHTEKVKIKETLKGTILEKMSE 931
            MIIYVHYTEITINIEDQFPNEIRCEFFSNINELNIEKIIHSSSIPIFCINDQSLADKLKNKLKKCLIVNSHFLSVQLKLIYKDILKLSKNYVFLFLGFQNKNLLTKLQFKVLAMGGIYAVDESDKIFESVNIVIPYRFTRNVQLILNKLKSYRIYSHFNIDSIEINEFEDLHDKSNS  MGLFNNCRIRLVGFESDKQESISLSIFENNGTFLSISDKNYVEEDIFIFAQGFQSENYAIHLKEISETINLSFVNEDWYWDSVREDFLVPFENYPATICECNHTEKVKIKETL     +K +E
Sbjct:    1 MIIYVHYTEITINIEDQFPNEIRCEFFSNINELNIEKIIHSSSIPIFCINDQSLADKLKNKLKKCLIVNSHFLSVQLKLIYKDILKLSKNYVFLFLGFQNKNLLTKLQFKVLAMGGIYAVDESDKIFESVNIVIPYRFTRNVQLILNKLKSYRIYSHFNIDSIEINEFEDLHDKSNSFQMGLFNNCRIRLVGFESDKQESISLSIFENNGTFLSISDKNYVEEDIFIFAQGFQSENYAIHLKEISETINLSFVNEDWYWDSVREDFLVPFENYPATICECNHTEKVKIKETLNSIYQDKDNE 302          
BLAST of SMED30030459 vs. Planmine SMEST
Match: SMESG000041235.1 (SMESG000041235.1)

HSP 1 Score: 301.597 bits (771), Expect = 6.223e-87
Identity = 267/910 (29.34%), Postives = 445/910 (48.90%), Query Frame = 2
Query:   32 MIIYVHYTEITINIEDQFPNEIRCEFFSNINELNIEKIIHSSSIPIFCINDQSLADKLKNKLKKCLIVNSHFLSVQLK---LIYKD--ILKLSKNYVFLFLGFQNKNLLTKL--QFKVLAMGGIYAVDESDKIFESVNIVIPYRFTRNVQLILNKLKSYRIYSH-FNIDSIE---------INEFEDLHDKSNSMGL--FNNCRIRLVGFESDKQESISLSIFENNGTFLSISDKNYVEEDIFIFAQGFQSENYAIHLKEISETINLSFVNEDWYWDSVREDFLVPFENY----PATICE------------------CNHTEKVKIKETLKGTILEKMSEEYLNTSTEYVLSIMNRHFPASDSEIRKELTKQQKMKNDRMNSFINFDIYIKVKLELFNDFMKLGDSKYLKKNE--LIFHAINPITIFFQKVHEKLSPLVSGYLDDTLIGLEVLPIYQSFKKSFSLYNSKIDSIYQ--DK-DNETIKEKFEPLKSKHNVSSIKSFIEIPQRMLTQIELQLKEIVEKTENEHPDIKNLKEMLKITHDVSTLVNQVAQYHAVHKSQITINKYFLKADFLRHDNPYSTVVDCMYFSADGSTLPKMLLVLENSVVISDFVNKIPP---NQLYXXXXXXXXXXDTLXX--XXXXXXXXXLVVDENENSTVQRTSSNCSASTLN--KRKRIEGILCSKYHKLFTGLSEVNWKVENSEMFCTPLLLEKSNIVSVRSNASQWRLYDQMFFAIDYRDPKSQNIEQYTFQLVPRFVKNIQVYDKLNVGFPFEFEWSCPE-KDISWGELVSSEKRNFCYNLACHFDVEY---------------------SETY-------DLTKSLYLNSSNESMESVATKFSAYSSTPKRSVKKFFRRLTTFVKPVKEKHKTPTPSNGN 2515
            M IYVH TE ++  +  FP+    +FF    +L+ E+  +S    IFCI+DQ + D++ +  K+ LI++S FL    K   LIY +  +  + K +    +GF++++    +  QFK++ MGG  + D  D     V  ++ Y+        +   K++   S+ FN+  IE         I+ ++ L +   +  +  F NC++ L+GF+  +   + L IF+N G+   + D  +  + IFI     +SEN    + E S+    + V EDW+W SV   +LV F++Y      TI E                   N  + VK++ +         S      S + + +  N  F    S+  KE  ++ + +  R N  +N    IK KL++ N+F  +   K ++ +   LIF+    IT FFQ  ++   PLV  Y  D  IG+E+LP Y   KK F  YNSK + +    D+ D+  +KE  +     + +SS K FIEIP+RMLT I++Q  +I++ T   HPDI    E+ +    V+ L+  +       ++QI + K       ++  N Y TVVDCM++  DG    K L + +N++V+ +F    P    ++L   +K+ +   + L    +     +NS  ++ N    ++R  S  S +T+N    +++EG  CSK+HKLFTGLS++NWK     ++    +LEKS+++S+ S+   + +  QMFF I+Y D +S  ++     LVPR VK+   Y+K+NV  P +F+W   + K I W E +  EKRNFC  +A H+++E+                     S+ Y       D T +  L+ SN S      K S  S + K+++ + FRR T F K  + K+  P+ S+ N
Sbjct:    1 MTIYVHSTEKSLVSKFLFPSFYEIKFFKTHFDLH-EEYFNSERTLIFCIDDQFIIDEIASHCKRTLIISSKFLISHFKKYKLIYSNSILGNIMKTWKVHLIGFEDEDDDLIIDLQFKIIIMGGSMSTDPDD-----VTHLVVYKMHEKAHGQI--FKTFSDCSNVFNVHYIEFYWKKCSLLISTYDILDNLQETFAVRYFQNCKMHLIGFDEYQLGEMLLCIFDNGGSIYQL-DHLHSPDCIFIVPNNSKSENVQRVINEESKDSMKNVVTEDWFWQSVENQYLVKFDDYRVLLSKTIGENTNYLSPPNDVKKSASQVLNDFKTVKLQTSGNPNQNPPFSFSDKEISVDEIKANYNLGFGFYPSQCSKEKCEEYEYR--RYNLLLNLVKNIKDKLDVLNNFQAIRTHKLIENSNLLLIFNIFKQITDFFQGFYDIFQPLVINYSIDCCIGMELLPHYNQLKKYFQTYNSKFNQMSDLIDRIDSNAVKEHIQHFVDSNEISSFKYFIEIPKRMLTLIQMQFDDIIKSTSKFHPDIVFFIEISQKNRHVTKLIETLEDKLIEGRNQIIVMKCIGNPAIVQIGNRYRTVVDCMHYCDDGLKCAKSLFLFDNTIVMCNFKASAPGKLFDRLIAHLKEQINSGNNLTRCPSIQSIYRNSPFIEMN----IKRKKSISSVTTVNSISVRKLEGNACSKFHKLFTGLSKLNWKENPENIYSETEILEKSSLISLISHRGNFDVQSQMFFTINYIDKQSNLLKNMKLFLVPRVVKHPFKYNKINVALPTDFDWEYNDNKGIKWDEFIVEEKRNFCAIIAQHYEMEFIEDSLLSNSVSSVAFENDWLVSDKYFRTPVKLDKTTTRNLSPSNNSFMGSFKK-SPKSMSLKKTITENFRRFTRFKK--RSKNTLPSSSSQN 892          
BLAST of SMED30030459 vs. Planmine SMEST
Match: SMESG000055277.1 (SMESG000055277.1)

HSP 1 Score: 105.145 bits (261), Expect = 8.967e-23
Identity = 188/807 (23.30%), Postives = 338/807 (41.88%), Query Frame = 2
Query:  287 KLSKNYVFLFLGFQNKNLLTKLQFKVLAMGGIYAVDESDKIFESVNIVIPYRFTRNVQLILNKLKSYRIYSHFNIDSIEINEFEDLHDKSNSMG-----LFNNCRIRLVGFESDKQESISLSIFENNGTFLSISDKNYVEEDIFIFAQGFQSENYAIHLKEISETINLS------------FVNEDWYWDSVREDFLVPFENYPATICECNHT--EKVKIKETLKG----------TILEKMSEEYLNTSTEYVLSIMNRHFPASDSEIRKELTKQQKMKNDRMNSFINFDIYIKVKLELFNDFMKLGDSKYL---KKNELIFHAINPITIFFQKVHEKLSPLVSGYLDDTLIGLEVLPI-------YQSFKKSFSLYNSKIDSI-YQDKDNETIKEKFEPLKSKHNVSSIKSFIEIPQRMLTQIELQLKEIVEKTENEHPDIKNLKEMLKITHDVSTLVNQVAQYHAVHKSQITINKYFLKADF------LRHDNPYSTVVDCMYFSADGSTLPKMLLVLENSVV---ISDFVNKIPPNQLYXXXXXXXXXXDTLXXXXXXXXXXXLVVDENENSTVQRTSSNCSASTLNKRKRIEGI-------LCSKYHKLFTGLSEVNWKVENSEMFCTPLLLEKSNIVSVRSNA-SQWRLYDQMFFAIDYRDPKSQNIEQYTFQLVPRFVKNIQVYDKLNVGFPFEFEWSCPE-KDISWGELVSSEKRNFCYNLACHFDVEYSETYDLTKSLYLNSSNESMESVATKFSAYSSTPKRSVKKFFRRLTTFVKPVKEKHKTPTPSNGNIQSRIS 2533
            K+ KN +  F GF N   L +++ K L MG       SD I +S + VI  + +   Q  L+   + R +S   ID    N  ++    +  +      LF NCR  +VG   +   S+  +I ++ G+   +              +  Q   + I  +EI + INL+             V++DW +DSV+  FL+   NY   I +  H   + ++ +E   G          T+L   S EY+   T  ++++       +DS  R  +          + +F+  +I  ++     N F  L  +  L   K+ + IF A   I +FF  +H++L  ++  + +D   G+E L I       Y+S+K+   L+ S ID + + +  + ++K   +    K++   I SF ++P R    I   + EI+  T   HPDI        +   +S L+N    ++ +   +I   K  L A        L  +N + T VDC+ F      +P  + +++ +++    SDF  K+   +         K    L  +    ++ +     N+N+  +++     +ST N  + ++           SK++K+F GL+ +NW   +++ +     ++KS    +         L   + F + Y +  S N      QLVP  V +I+ Y+ + +    E EW+  E KD+SW E + +EK NFCY     FD    +    +   Y ++  ES     T+ S  SS   R+   FF       KP + + ++P      I S +S
Sbjct:   91 KVLKNEMLYFCGF-NLIELCRMKVKALLMGA----KVSDYITDSTSRVIISKMSYQNQEKLHSNCNQRTFSSNLIDYFWKNHSKNPKTNAGIINSFRAKLFMNCRFVIVGLVRESFNSVMKAIVKHGGSVYQL--------------ENVQIATHVIACREI-DIINLNERKFLSENEFKNVVSKDWIFDSVKRGFLMSMINY-QIIRDRQHINFDDLEYEENQFGKNITECPSIKTLLSLPSNEYITPKTTDIITV-------NDSSNRLIII-------SNLRTFLWNNIVSEI-----NKFQNLRSNSVLSTVKELDDIFKAFQKIFVFFSDLHKQL--IIEEFPEDYCYGIEFLEIFGLVDEYYESYKQ---LFISLIDRVNFINNYSNSVKTLLKEFCKKNSHPDILSFFKLPIRSWLVINTIITEILTNTRCYHPDI---GAWCTVQEKISNLLN---YFNTIENERINGVKQNLVAKCLSSIVELNENNQFWTCVDCVLFDETSKLIPLTIFIMKETIMFCAFSDFKKKLCKYE---------KIKGNLEKSIQRIVRINKDFVPNKNNQ-EKSPKKFRSSTFNPEEFVKEFKTIPFKNQLSKFNKIFNGLANINWNFVSNKKYNEYFEIKKSQFTKISYECLDNDILISPLSFDLSYINSNSMN-STIRLQLVPTIVNSIKDYENIKIDINDEIEWTPKESKDMSWIEFILAEKNNFCY----FFD----QMITASNQRYFDAFQESNSKGLTQLSKSSS---RAYSTFFS------KPKESRTRSPIIKKPTIFSNLS 818          
The following BLAST results are available for this feature:
BLAST of SMED30030459 vs. Ensembl Human
Analysis Date: 2016-08-08 (Schmidtea mediterranea smed_20140614 BLASTX Human e!99)
Total hits: 0
Match NameE-valueIdentityDescription
back to top
BLAST of SMED30030459 vs. Ensembl Celegans
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Celegan e!99)
Total hits: 0
Match NameE-valueIdentityDescription
back to top
BLAST of SMED30030459 vs. Ensembl Fly
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Drosophila e!99)
Total hits: 0
Match NameE-valueIdentityDescription
back to top
BLAST of SMED30030459 vs. Ensembl Zebrafish
Analysis Date: 2016-08-08 (Schmidtea mediterranea smed_20140614 BLASTX Zebrafish e!99)
Total hits: 0
Match NameE-valueIdentityDescription
back to top
BLAST of SMED30030459 vs. Ensembl Xenopus
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Xenopus e!99)
Total hits: 0
Match NameE-valueIdentityDescription
back to top
BLAST of SMED30030459 vs. Ensembl Mouse
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Mouse e!99)
Total hits: 0
Match NameE-valueIdentityDescription
back to top
BLAST of SMED30030459 vs. UniProt/SwissProt
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI UniProt)
Total hits: 0
Match NameE-valueIdentityDescription
back to top
BLAST of SMED30030459 vs. TrEMBL
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI TrEMBL)
Total hits: 0
Match NameE-valueIdentityDescription
back to top
BLAST of SMED30030459 vs. Ensembl Cavefish
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Cavefish e!99)
Total hits: 0
Match NameE-valueIdentityDescription
back to top
BLAST of SMED30030459 vs. Ensembl Sea Lamprey
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Sea Lamprey e!99)
Total hits: 0
Match NameE-valueIdentityDescription
back to top
BLAST of SMED30030459 vs. Ensembl Yeast
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Yeast e!Fungi46)
Total hits: 0
Match NameE-valueIdentityDescription
back to top
BLAST of SMED30030459 vs. Ensembl Nematostella
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Nematostella e!Metazoa46)
Total hits: 0
Match NameE-valueIdentityDescription
back to top
BLAST of SMED30030459 vs. Ensembl Medaka
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Medaka e!99)
Total hits: 0
Match NameE-valueIdentityDescription
back to top
BLAST of SMED30030459 vs. Planmine SMEST
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Planmine SMEST)
Total hits: 3
Match NameE-valueIdentityDescription
SMESG000041220.10.000e+099.62SMESG000041220.1[more]
SMESG000041235.16.223e-8729.34SMESG000041235.1[more]
SMESG000055277.18.967e-2323.30SMESG000055277.1[more]
back to top
Sequences
The following sequences are available for this feature:

transcript sequence

>SMED30030459 ID=SMED30030459|Name=SMED30030459|organism=Schmidtea mediterranea sexual|type=transcript|length=2902bp
ATACGATTTAGTAAATTTTTACTGAGCAGTAATGATTATTTATGTCCATT
ATACAGAAATAACAATAAATATTGAAGACCAGTTTCCTAATGAAATCAGA
TGTGAATTTTTCAGCAATATTAATGAATTGAATATTGAAAAAATTATTCA
TTCTAGCAGCATTCCTATATTTTGTATAAACGACCAATCATTGGCCGATA
AACTGAAAAATAAATTGAAAAAATGTCTGATTGTTAATTCACATTTTCTG
TCTGTACAACTAAAATTGATATACAAAGATATTTTGAAATTGTCCAAAAA
CTATGTTTTTCTCTTTCTCGGATTTCAAAATAAAAATCTACTGACTAAAT
TGCAATTCAAAGTTCTTGCTATGGGTGGAATTTACGCTGTCGACGAATCG
GATAAAATCTTTGAATCTGTCAATATCGTTATTCCTTATCGGTTTACGCG
GAATGTTCAGCTGATACTCAACAAATTGAAGTCGTATCGAATATATTCTC
ATTTTAATATTGATTCCATCGAAATTAATGAGTTTGAAGATTTACATGAC
AAATCCAATTCAATGGGCTTATTCAACAATTGTCGAATTCGATTGGTCGG
ATTTGAGTCTGATAAACAGGAATCAATCTCTTTAAGCATTTTTGAGAATA
ATGGAACCTTTTTATCGATATCGGATAAAAATTATGTCGAGGAAGACATT
TTCATTTTTGCACAAGGCTTTCAATCAGAAAATTACGCAATCCACTTGAA
GGAGATTTCAGAAACGATTAATCTTAGTTTTGTGAATGAGGATTGGTATT
GGGACTCTGTGAGAGAAGACTTTTTAGTTCCCTTTGAGAATTATCCTGCA
ACGATCTGTGAATGTAATCACACTGAGAAAGTAAAAATAAAGGAAACATT
GAAGGGCACCATACTTGAAAAAATGAGCGAAGAGTATTTGAATACATCAA
CAGAATATGTTTTATCCATAATGAATCGTCATTTTCCTGCCTCGGATTCC
GAAATTAGAAAAGAATTAACAAAGCAGCAAAAAATGAAAAATGACAGAAT
GAATAGCTTTATTAATTTTGATATCTATATCAAAGTTAAACTTGAGCTTT
TCAATGATTTTATGAAGTTAGGTGACAGCAAATACTTAAAAAAAAACGAA
TTAATCTTTCATGCAATAAATCCAATAACCATTTTCTTTCAAAAGGTTCA
CGAAAAGTTATCTCCGCTTGTAAGCGGGTACTTAGATGATACGTTGATTG
GGCTTGAAGTGTTACCCATTTACCAAAGCTTTAAGAAATCCTTTTCATTA
TATAATTCCAAAATAGACTCCATCTATCAGGATAAAGATAATGAAACAAT
TAAAGAAAAATTTGAACCTTTAAAGTCTAAACACAACGTTTCATCAATTA
AGTCTTTTATTGAAATTCCACAAAGAATGTTAACCCAGATCGAACTGCAA
CTTAAAGAAATCGTGGAAAAAACCGAAAATGAACATCCTGATATTAAAAA
TTTAAAGGAAATGTTGAAAATAACCCACGACGTCTCTACATTGGTGAATC
AGGTGGCACAATATCACGCTGTCCACAAAAGTCAAATAACAATAAATAAA
TATTTCCTAAAAGCGGATTTTCTGAGACATGACAACCCCTATTCAACGGT
CGTTGATTGCATGTATTTCTCCGCCGACGGGTCTACATTGCCAAAAATGC
TATTGGTTTTAGAGAATTCTGTAGTTATTAGTGATTTTGTCAATAAAATC
CCACCCAATCAATTGTATAAAAAAGTGAAGAAAAACTTGAAAAAAGTCGA
CACCTTAAATTCCAACAATTCCATTTCCATTAAAAATTCATTGGTTGTTG
ACGAGAATGAAAACTCAACTGTTCAAAGAACCTCATCGAATTGCAGTGCG
AGCACTTTAAATAAGCGGAAACGAATAGAGGGGATATTGTGCTCGAAATA
CCATAAATTATTTACCGGCTTGTCCGAGGTCAATTGGAAAGTCGAGAACA
GTGAGATGTTTTGCACTCCATTATTGCTTGAAAAATCCAATATCGTTTCG
GTCCGGTCGAATGCAAGCCAATGGAGACTTTATGATCAGATGTTCTTTGC
GATTGATTACAGGGATCCTAAATCACAAAACATAGAGCAGTACACATTTC
AACTCGTACCAAGATTTGTGAAAAACATCCAAGTTTATGACAAACTGAAT
GTGGGATTTCCATTTGAATTCGAATGGTCTTGTCCAGAAAAGGATATTTC
ATGGGGTGAACTTGTTAGCAGCGAGAAACGAAATTTCTGTTACAATTTGG
CCTGCCATTTTGATGTGGAATATTCTGAGACATACGATTTAACTAAGTCT
TTATATTTAAATTCATCGAACGAAAGTATGGAAAGTGTAGCAACAAAGTT
TTCAGCATATTCCTCAACCCCTAAAAGGTCAGTTAAAAAGTTTTTCAGGC
GACTGACCACATTTGTAAAACCCGTGAAGGAGAAACACAAAACTCCGACT
CCTTCAAATGGAAACATTCAGTCAAGAATCTCAAATAATTTCCTAACTCC
ATCGCAAAAAAACTTAAATGATATCAAAGAAGATTTAAAAAATGTTTTAA
ATGACAGCTCAAATATTCAATTATCTTTCACTAGCAACGCTGATTACTTG
CAGCAATTGAATTTCGAGACCTCTAACGAGCGTTTGGATGACCATTTTGT
GAACAATAATTTGGAATATTTTGAGCAAATATCCGAAATAGATGGTGTGG
CTGAGGTGAAAATTTCCGCTGATCCGGGAGAAACGGTATCGTTTTCCACT
ACCCCATCACATAAAAAACGAAACTCCACAAAAAGAAAGAGCGATTTAGA
CTTCGAAAAGAAAATGAAAAACAGAAAATGCTAGCATATCGACATTTACG
AA
back to top

protein sequence of SMED30030459-orf-1

>SMED30030459-orf-1 ID=SMED30030459-orf-1|Name=SMED30030459-orf-1|organism=Schmidtea mediterranea sexual|type=polypeptide|length=951bp
MIIYVHYTEITINIEDQFPNEIRCEFFSNINELNIEKIIHSSSIPIFCIN
DQSLADKLKNKLKKCLIVNSHFLSVQLKLIYKDILKLSKNYVFLFLGFQN
KNLLTKLQFKVLAMGGIYAVDESDKIFESVNIVIPYRFTRNVQLILNKLK
SYRIYSHFNIDSIEINEFEDLHDKSNSMGLFNNCRIRLVGFESDKQESIS
LSIFENNGTFLSISDKNYVEEDIFIFAQGFQSENYAIHLKEISETINLSF
VNEDWYWDSVREDFLVPFENYPATICECNHTEKVKIKETLKGTILEKMSE
EYLNTSTEYVLSIMNRHFPASDSEIRKELTKQQKMKNDRMNSFINFDIYI
KVKLELFNDFMKLGDSKYLKKNELIFHAINPITIFFQKVHEKLSPLVSGY
LDDTLIGLEVLPIYQSFKKSFSLYNSKIDSIYQDKDNETIKEKFEPLKSK
HNVSSIKSFIEIPQRMLTQIELQLKEIVEKTENEHPDIKNLKEMLKITHD
VSTLVNQVAQYHAVHKSQITINKYFLKADFLRHDNPYSTVVDCMYFSADG
STLPKMLLVLENSVVISDFVNKIPPNQLYKKVKKNLKKVDTLNSNNSISI
KNSLVVDENENSTVQRTSSNCSASTLNKRKRIEGILCSKYHKLFTGLSEV
NWKVENSEMFCTPLLLEKSNIVSVRSNASQWRLYDQMFFAIDYRDPKSQN
IEQYTFQLVPRFVKNIQVYDKLNVGFPFEFEWSCPEKDISWGELVSSEKR
NFCYNLACHFDVEYSETYDLTKSLYLNSSNESMESVATKFSAYSSTPKRS
VKKFFRRLTTFVKPVKEKHKTPTPSNGNIQSRISNNFLTPSQKNLNDIKE
DLKNVLNDSSNIQLSFTSNADYLQQLNFETSNERLDDHFVNNNLEYFEQI
SEIDGVAEVKISADPGETVSFSTTPSHKKRNSTKRKSDLDFEKKMKNRKC
*
back to top
Annotated Terms
The following terms have been associated with this transcript:
Vocabulary: Planarian Anatomy
TermDefinition
PLANA:0000014zeta neoblast
PLANA:0000026gut
PLANA:0000099neuron
PLANA:0000101muscle cell
PLANA:0002032epidermal cell
PLANA:0003116parenchymal cell
Vocabulary: INTERPRO
TermDefinition
IPR035899DBL_dom_sf
IPR036420BRCT_dom_sf
IPR001357BRCT_dom
IPR000219DH-domain
Vocabulary: molecular function
TermDefinition
GO:0005085guanyl-nucleotide exchange factor activity
GO:0005089Rho guanyl-nucleotide exchange factor activity
Vocabulary: biological process
TermDefinition
GO:0035023regulation of Rho protein signal transduction
InterPro
Analysis Name: Schmidtea mediteranean smed_20140614 Interproscan
Date Performed: 2020-05-01
IPR TermIPR DescriptionSourceSource TermSource DescriptionAlignment
IPR035899Dbl homology (DH) domain superfamilyGENE3DG3DSA:1.20.900.10coord: 358..524
e-value: 1.2E-7
score: 33.1
IPR035899Dbl homology (DH) domain superfamilySUPERFAMILYSSF48065DBL homology domain (DH-domain)coord: 368..509
IPR036420BRCT domain superfamilyGENE3DG3DSA:3.40.50.10190coord: 169..274
e-value: 4.9E-6
score: 28.7
IPR036420BRCT domain superfamilySUPERFAMILYSSF52113BRCT domaincoord: 178..272
NoneNo IPR availableMOBIDB_LITEmobidb-litedisorder_predictioncoord: 916..950
NoneNo IPR availableMOBIDB_LITEmobidb-litedisorder_predictioncoord: 933..950
IPR001357BRCT domainPROSITEPS50172BRCTcoord: 176..273
score: 10.057
IPR000219Dbl homology (DH) domainPROSITEPS50010DH_2coord: 294..508
score: 10.748