SMED30027092
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., 2020SMED30027092 has been reported as being expressed in these anatomical structures and/or regions. Read more about PAGEPAGE Curations: 15
Alignments
SMED30027092 aligns in the following genomic locations:
Homology
BLAST of SMED30027092 vs. Planmine SMEST
Match: SMESG000032651.1 (SMESG000032651.1) HSP 1 Score: 730.324 bits (1884), Expect = 0.000e+0 Identity = 351/357 (98.32%), Postives = 351/357 (98.32%), Query Frame = 1 Query: 115 MKLAVKYFLSACLLLNAVISISGNQTHLRVNTIPEFPFPAGSNFTIEIVEKENGKQIYGNSHDILIIQISDSSKKQQAIFEYIYKDMIDMEIKGDFMRIPTWTKFKSQIIATMLFDRSANDKTLEIFQITASNNNEKRNQMKTLNKNSRIYQSKISLLIDPKLELLITSMDGRKFELMLDEWGKASCRAFDGVPMEKPYWDKNFDLKMRNPKYSPERNERTIEIYASILDHMKELSCTAGRTRAAVKINVLHHPTQILLDPELGSFVENGTTTYCSSIDGFPVPEVRWHFISGPDDPGRYFNISKDGRKLLLKSETPIGTVWKFNCTASNILPRTKGSFNRTVSFEIGRKLTSNFRL 1185 MKLAVKYFLSACLLLNAVISISGNQTHLRVNTIPEFPFPAGSNFTIEIVEKENGKQIYGNSHDILIIQISDSSKKQQAIFEYIYKDMIDMEIKGDFMRIPTWTKFKSQIIATMLFDRSANDKTLEIFQITASNNNEKRNQMKTLNKNSRIYQSKISLLIDPKLELLITSMDGRKFELMLDEWGKASCRAFDGVPMEKPYWDKNFDLKMRNPKYSPERNERTIEIYASILDHMKELSCTAGRTRAAVKINVLHHPTQILLDPELGSFVENGTTTYCSSIDGFPVPEVRWHFISGPDDPGRYFNISKDGRKLLLKSETPIGTVWKFNCTASNILPRTKGSFNRTVSFEIGR F L Sbjct: 1 MKLAVKYFLSACLLLNAVISISGNQTHLRVNTIPEFPFPAGSNFTIEIVEKENGKQIYGNSHDILIIQISDSSKKQQAIFEYIYKDMIDMEIKGDFMRIPTWTKFKSQIIATMLFDRSANDKTLEIFQITASNNNEKRNQMKTLNKNSRIYQSKISLLIDPKLELLITSMDGRKFELMLDEWGKASCRAFDGVPMEKPYWDKNFDLKMRNPKYSPERNERTIEIYASILDHMKELSCTAGRTRAAVKINVLHHPTQILLDPELGSFVENGTTTYCSSIDGFPVPEVRWHFISGPDDPGRYFNISKDGRKLLLKSETPIGTVWKFNCTASNILPRTKGSFNRTVSFEIGRPQEGLFGL 357 HSP 2 Score: 355.91 bits (912), Expect = 1.080e-107 Identity = 178/182 (97.80%), Postives = 180/182 (98.90%), Query Frame = 1 Query: 4174 VFYSDLTFQIMVGVAVMGAIIIFCIAMVFIVCLARRSCVDQNATRNNRRNGVPAKHVVEKKTLDSEQVTLLPPGAPQNHLDLANTGSGLPLPPPEYQLIIDNSEVKPAIPLEPQVSTEPYAEVTYAELNTSDLPMKESRGHKFXXXXXXSDEYNQQVIYSQIIGTISTPDPGQRTYMNQDSV 4719 +F +LTFQIMVGVAVMGAIIIFCIAMVFIVCLARRSCVDQNATRNNRRNGVPAKHVVEKKTLDSEQVTLLPPGAPQNHLDLANTGSGLPLPPPEYQLIIDNSEVKPAIPLEPQVSTEPYAEVTYAELNTSDLPMKESRGHKFNNNNNNSDEYNQQVIYSQIIGTISTPDPGQRTYMNQDSV Sbjct: 354 LFGLNLTFQIMVGVAVMGAIIIFCIAMVFIVCLARRSCVDQNATRNNRRNGVPAKHVVEKKTLDSEQVTLLPPGAPQNHLDLANTGSGLPLPPPEYQLIIDNSEVKPAIPLEPQVSTEPYAEVTYAELNTSDLPMKESRGHKFNNNNNNSDEYNQQVIYSQIIGTISTPDPGQRTYMNQDSV 535
BLAST of SMED30027092 vs. Planmine SMEST
Match: SMESG000032650.1 (SMESG000032650.1) HSP 1 Score: 615.535 bits (1586), Expect = 0.000e+0 Identity = 380/381 (99.74%), Postives = 380/381 (99.74%), Query Frame = -1 Query: 5195 MPALKGFIIALEDNCSINRINHLEMTSLLISLTVCYLXXXXXXXXXIMLATMMLICMYRINTRATFYTIYFWILYIQLFKLFINVTFYEMQYILIFGSGMTALFMAFVIYSYNIFFYIYMSVDAIFFYLLAGLSVLNLIRLQKPFQIINKHIIHLLCSVIVFLAFLFNMIILYNTQAFICTNSGKIGFIYTTQLWKLPILLCLVFFHIIIPWVTSIFTTIYVYKLSRRLGSKSSNLKRXXXXXXXXXXXXXAPTITTLVSWILHRDIFLYQSLAMIMSDIGQYTSVLFILYILFVTDAKFRKLFLRFNPRLTESVEXXXXXXXXXXXXXXXXXXXXXXTNDEVVTNKVXXXXXXXXXXXXXXXSRPSKMEIKSSEVSKERA 6337 MPALKGFIIALEDNCSINRINHLEMTSLLISLTVCYLIIIIIANIVIMLATMMLICMYRINTRATFYTIYFWILYIQLFKLFINVTFYEMQYILIFGSGMTALFMAFVIYSYNIFFYIYMSVDAIFFYLLAGLSVLNLIRLQKPFQIINKHIIHL CSVIVFLAFLFNMIILYNTQAFICTNSGKIGFIYTTQLWKLPILLCLVFFHIIIPWVTSIFTTIYVYKLSRRLGSKSSNLKRLALFINLIFILLAAPTITTLVSWILHRDIFLYQSLAMIMSDIGQYTSVLFILYILFVTDAKFRKLFLRFNPRLTESVESKYYTSNSRYKSTKTSYSTETWTNDEVVTNKVLKPPKSFSKSFISLLSRPSKMEIKSSEVSKERA Sbjct: 1 MPALKGFIIALEDNCSINRINHLEMTSLLISLTVCYLIIIIIANIVIMLATMMLICMYRINTRATFYTIYFWILYIQLFKLFINVTFYEMQYILIFGSGMTALFMAFVIYSYNIFFYIYMSVDAIFFYLLAGLSVLNLIRLQKPFQIINKHIIHLSCSVIVFLAFLFNMIILYNTQAFICTNSGKIGFIYTTQLWKLPILLCLVFFHIIIPWVTSIFTTIYVYKLSRRLGSKSSNLKRLALFINLIFILLAAPTITTLVSWILHRDIFLYQSLAMIMSDIGQYTSVLFILYILFVTDAKFRKLFLRFNPRLTESVESKYYTSNSRYKSTKTSYSTETWTNDEVVTNKVLKPPKSFSKSFISLLSRPSKMEIKSSEVSKERA 381
BLAST of SMED30027092 vs. Planmine SMEST
Match: SMESG000014496.1 (SMESG000014496.1) HSP 1 Score: 204.142 bits (518), Expect = 3.334e-55 Identity = 112/348 (32.18%), Postives = 190/348 (54.60%), Query Frame = 1 Query: 151 LLLNAVI-------SISGNQTHLRVNTIPEFPFPAGSNFTIEIVEKENGKQIYGNSHDILIIQIS--DSSKKQQAIFEYIYKDMIDMEIKGDFMRIPTWTK-FKS-QIIATMLFDRSANDKTLEIFQITASNNNEKRNQMKTLNKNSRIYQSKISLLIDPKLELLITSMDGRKFELMLDEWGKASCRAFDGVPMEKPYWDKNFDLKMRNPKYSPERNERTIEIYASILDHMKELSCTAGRTRAAVKINVLHHPTQILLDPELGSFVENGTTTYCSSIDGFPVPEVRWHFISGPDDPGRYFNISKDGRKLLLKSETPIGTVWKFNCTASNILPRTKGSFNRTVSFEIGR 1161 +LLNAVI ++ Q L V + P + F I+I + NG ++ + D ++I+I + ++++++I Y +D ID EI G FM I W K F S +I +++F R A++K LEIF +A N ++R +K L+ R+ KI L + +L L + ++ + E+++++ ASCRAF G+P EKP ++ + L + Y+ NE + + AS+ DH+ SC+AG I + HHPT + + P + + +T C + DG+P PE+ W I GP + R++N G ++ + S +P+G+ W F CT ++L TK N+T+SF I + Sbjct: 1 MLLNAVIFCLIQQLVLTDAQPLLTVCFVSTVPHLLKNTFDIQIKPQANGTKLSDDPSDTMVIRIYSFNFTEEEKSILNYGSQDAIDEEILGKFMDIKVWEKNFSSLRINISIMFKRGAHNKYLEIFYFSAPNKFQRRKYLKNLSLAKRLLYQKIELFMPSQLNLSMYPLNVDRKEIIINDMVMASCRAFGGIPQEKPKFEDHVHLNVMEKIYNKTTNEIRMNLRASLSDHLTNFSCSAGNVTETYTIRIHHHPTALYIQPIIKKRFRSNSTIICFTKDGYPDPEINWQLIEGPPNADRFYNFPGKGDQIHINSNSPVGSKWTFKCTMKSMLVNTKKMLNKTISFAIAK 348
BLAST of SMED30027092 vs. Planmine SMEST
Match: SMESG000014710.1 (SMESG000014710.1) HSP 1 Score: 195.667 bits (496), Expect = 1.721e-52 Identity = 104/287 (36.24%), Postives = 166/287 (57.84%), Query Frame = 1 Query: 307 LIIQISDSS--KKQQAIFEYIYKDMIDMEIKGDFMRIPTWTKFKS-QIIATML-FDRSANDKTLEIFQITASNNNEKRNQMKTLNKNSRIYQSKISLLIDPKLELLITSMDGRKFELMLDEWGKASCRAFDGVPMEKPYWDKNFDLKMRNPKYSPERNERTIEIYASILDHMKELSCTAGRTRAAVKINVLHHPTQILLDPELGSFVENGTTTYCSSIDGFPVPEVRWHFISGPDDPGRYFNISKDGRKLLLKSETPIGTVWKFNCTASNILPRTKGSFNRTVSFEI 1155 ++IQ +D + K+ AIF++ K++I E + D+MRIPTW KF+ I TM+ F + AN++ LEI+ I ++ E+RN + L +Y++ I+LL+ P+LEL + S + + SC+A DG P +P K+ D+K+ +S + N I I S+LDH + ++C AG +V+I + H PT+I L PE+ + N T C + +G+P P + W+FI GP D Y+ I+ ++L +K PIG+ WKF C+A+N +FN+TVSF I Sbjct: 1 MVIQTTDLNGFDKEVAIFDFGLKEVISQEFQSDYMRIPTWGKFEEGATIYTMINFTQYANNRILEIYYINPNSTKERRNMLNHLKPTQLMYRNNINLLVPPQLELKMNSQVRNYITVEPNSSLTVSCQALDGQPKVRPEIVKS-DMKIEFDIFSHDSNTHKITIRTSMLDHNRTVTCKAGSVMKSVRIFIYHAPTKIKLQPEVKKVLGNNTGIICLATNGYPTPRITWYFIHGPSDASLYYQIAPYTQRLYIKENVPIGSSWKFICSATNSFFERSKTFNKTVSFTI 286
BLAST of SMED30027092 vs. Planmine SMEST
Match: SMESG000070072.1 (SMESG000070072.1) HSP 1 Score: 185.267 bits (469), Expect = 2.836e-49 Identity = 107/343 (31.20%), Postives = 180/343 (52.48%), Query Frame = 1 Query: 148 CLLLNAVISISGNQTHLRVNTIPEFPFPAGSNFTIEIVEK-ENGKQIYGNSHDILIIQISD--SSKKQQAIFEYIYKDMIDMEIKGDFMRIPTWTKFKS--QIIATMLFDRSANDKTLEIFQITASNNNEKRNQMKTLNKNSRIYQSKISLLIDPKLELLITSMDGRKFELMLDEWGKASCRAFDGVPMEKPYWDKNFDLKMRNPKYSPERNERTIEIYASILDHMKELSCTAGRTRAAVKINVLHHPTQILLDPELGSFVENGTTTYCSSIDGFPVPEVRWHFISGPDDPGRYFNISKDGRKLLLKSETPIGTVWKFNCTASNILPRTKGSFNRTVSFEIGR 1161 C L +++ S Q L V ++ +FP G F+++I + ENGK + + D + I+I D ++ ++A Y + +D E KG M + W K + + +++F+R+A++K LEIF +ASN E++ +K L+ R++ I L I L L + + + E+++++ ASC+AF G+P EKP ++ + L + Y+ NE + + AS+ DH+ SC AG I + HHPT + + P F N T C + DG+P PE+ W I GP + ++NI G ++ + S + G+ W F CT + L T N+T+SF I R Sbjct: 8 CFFLPLILAQS--QIPLFVKSVSKFPHLIGDAFSLDIQSRTENGK-LSSDPSDTMAIRIVDLNFTEIERAFLVYGVLNFMDDEFKGKLMDVKVWEKNPTLTAMNISIIFNRAAHNKYLEIFYFSASNALERKKYLKNLSLAKRLFHELIDLFIPSTLTLSVLPIKVDRREIIINDMVMASCKAFGGIPQEKPRFEDHAHLNVTEIIYNKTANEIRMNLRASLTDHLTNFSCVAGNVTETFTIRIHHHPTALYIQPIKKRFQSNSTIK-CYTNDGYPDPEINWQLIEGPPNANLFYNIPPKGDQIYINSNSQTGSKWTFRCTMKSFLVNTNKILNKTISFAITR 346 The following BLAST results are available for this feature:
BLAST of SMED30027092 vs. Ensembl Human
Analysis Date: 2016-08-08 (Schmidtea mediterranea smed_20140614 BLASTX Human e!99) Total hits: 0
BLAST of SMED30027092 vs. Ensembl Celegans
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Celegan e!99) Total hits: 0
BLAST of SMED30027092 vs. Ensembl Fly
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Drosophila e!99) Total hits: 0
BLAST of SMED30027092 vs. Ensembl Zebrafish
Analysis Date: 2016-08-08 (Schmidtea mediterranea smed_20140614 BLASTX Zebrafish e!99) Total hits: 0
BLAST of SMED30027092 vs. Ensembl Xenopus
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Xenopus e!99) Total hits: 0
BLAST of SMED30027092 vs. Ensembl Mouse
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Mouse e!99) Total hits: 0
BLAST of SMED30027092 vs. UniProt/SwissProt
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI UniProt) Total hits: 0
BLAST of SMED30027092 vs. TrEMBL
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI TrEMBL) Total hits: 0
BLAST of SMED30027092 vs. Ensembl Cavefish
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Cavefish e!99) Total hits: 0
BLAST of SMED30027092 vs. Ensembl Sea Lamprey
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Sea Lamprey e!99) Total hits: 0
BLAST of SMED30027092 vs. Ensembl Yeast
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Yeast e!Fungi46) Total hits: 0
BLAST of SMED30027092 vs. Ensembl Nematostella
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Nematostella e!Metazoa46) Total hits: 0
BLAST of SMED30027092 vs. Ensembl Medaka
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Medaka e!99) Total hits: 0
BLAST of SMED30027092 vs. Planmine SMEST
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Planmine SMEST) Total hits: 5
Analyses
This transcript is derived from or has results from the following analyses Sequences
The following sequences are available for this feature:
transcript sequence >SMED30027092 ID=SMED30027092|Name=SMED30027092|organism=Schmidtea mediterranea sexual|type=transcript|length=6415bpback to top protein sequence of SMED30027092-orf-1 >SMED30027092-orf-1 ID=SMED30027092-orf-1|Name=SMED30027092-orf-1|organism=Schmidtea mediterranea sexual|type=polypeptide|length=173bp MVGVAVMGAIIIFCIAMVFIVCLARRSCVDQNATRNNRRNGVPAKHVVEKback to top protein sequence of SMED30027092-orf-2 >SMED30027092-orf-2 ID=SMED30027092-orf-2|Name=SMED30027092-orf-2|organism=Schmidtea mediterranea sexual|type=polypeptide|length=113bp MCGKGLKRCQLVLLAIARNDNTHIANKLVEFQDFFCIISLSYFTKIAENVback to top protein sequence of SMED30027092-orf-3 >SMED30027092-orf-3 ID=SMED30027092-orf-3|Name=SMED30027092-orf-3|organism=Schmidtea mediterranea sexual|type=polypeptide|length=400bp MKLAVKYFLSACLLLNAVISISGNQTHLRVNTIPEFPFPAGSNFTIEIVEback to top protein sequence of SMED30027092-orf-4 >SMED30027092-orf-4 ID=SMED30027092-orf-4|Name=SMED30027092-orf-4|organism=Schmidtea mediterranea sexual|type=polypeptide|length=382bp MPALKGFIIALEDNCSINRINHLEMTSLLISLTVCYLIIIIIANIVIMLAback to top protein sequence of SMED30027092-orf-5 >SMED30027092-orf-5 ID=SMED30027092-orf-5|Name=SMED30027092-orf-5|organism=Schmidtea mediterranea sexual|type=polypeptide|length=110bp MGEVANLEPFKPRESGIEVGELLNTTKRKLLVNLRPISKLTVRLKEPFVRback to top Annotated Terms
The following terms have been associated with this transcript:
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