SMED30030459
Overview
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 progeniesWe 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
Sub-lethal Irradiated Surviving X1 and X2 Cell Population
Embryonic Expression
Davies et. al., 2017
Hover the mouse over a column in the graph to view average RPKM values per sample. Embryonic Stages: Y: yolk. S2-S8: Stages 2-8. C4: asexual adult. SX: virgin, sexually mature adult. back to top Anatomical Expression
PAGE et. al., 2020SMED30030459 has been reported as being expressed in these anatomical structures and/or regions. Read more about PAGEPAGE Curations: 9
Alignments
SMED30030459 aligns in the following genomic locations:
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
BLAST of SMED30030459 vs. Ensembl Celegans
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Celegan e!99) Total hits: 0
BLAST of SMED30030459 vs. Ensembl Fly
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Drosophila e!99) Total hits: 0
BLAST of SMED30030459 vs. Ensembl Zebrafish
Analysis Date: 2016-08-08 (Schmidtea mediterranea smed_20140614 BLASTX Zebrafish e!99) Total hits: 0
BLAST of SMED30030459 vs. Ensembl Xenopus
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Xenopus e!99) Total hits: 0
BLAST of SMED30030459 vs. Ensembl Mouse
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Mouse e!99) Total hits: 0
BLAST of SMED30030459 vs. UniProt/SwissProt
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI UniProt) Total hits: 0
BLAST of SMED30030459 vs. TrEMBL
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI TrEMBL) Total hits: 0
BLAST of SMED30030459 vs. Ensembl Cavefish
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Cavefish e!99) Total hits: 0
BLAST of SMED30030459 vs. Ensembl Sea Lamprey
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Sea Lamprey e!99) Total hits: 0
BLAST of SMED30030459 vs. Ensembl Yeast
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Yeast e!Fungi46) Total hits: 0
BLAST of SMED30030459 vs. Ensembl Nematostella
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Nematostella e!Metazoa46) Total hits: 0
BLAST of SMED30030459 vs. Ensembl Medaka
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Medaka e!99) Total hits: 0
BLAST of SMED30030459 vs. Planmine SMEST
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Planmine SMEST) Total hits: 3
Analyses
This transcript is derived from or has results from the following analyses Sequences
The following sequences are available for this feature:
transcript sequence >SMED30030459 ID=SMED30030459|Name=SMED30030459|organism=Schmidtea mediterranea sexual|type=transcript|length=2902bpback 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 MIIYVHYTEITINIEDQFPNEIRCEFFSNINELNIEKIIHSSSIPIFCINback to top Annotated Terms
The following terms have been associated with this transcript:
InterPro
Analysis Name: Schmidtea mediteranean smed_20140614 Interproscan
Date Performed: 2020-05-01
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