SMED30000712
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., 2020SMED30000712 has been reported as being expressed in these anatomical structures and/or regions. Read more about PAGEPAGE Curations: 1
Alignments
SMED30000712 aligns in the following genomic locations:
Homology
BLAST of SMED30000712 vs. Ensembl Fly
Match: CG9286 (gene:FBgn0038183 transcript:FBtr0082830) HSP 1 Score: 48.9062 bits (115), Expect = 2.066e-6 Identity = 50/198 (25.25%), Postives = 100/198 (50.51%), Query Frame = 2 Query: 281 EDSTLLSLTTVINLKKHQNAISIMQLLSSI--KANI-ANDTIGLEIIKILEDPVNNIGFVINERNIN-NSSLTLRVLETVFEDIIKFQSTDEELKYSHYCILLTLSKNCSTGDLEFYHEEMKK------VY-----------GKFTYKSLFKIESETSDKGSSVSIQG------YRAFVLFPSNELDKFLSYIK*IIN 793 ED T+ +T+V+NL ++ SI QL + I +A A+ + ++ +IL+ ++GF+INER IN + +++ +L+++ ++I ++ +++KY +LL ++FY +E KK VY KF+++ + + SET S ++G YR ++ + +L + + I+ IN Sbjct: 111 EDGTIFGITSVLNLTAKKDQPSIAQLRTYILDRAKTHASPEVQQQLKEILDSEQRHVGFLINERFINIPAQISVPLLQSLQQEIEAAKA--KKMKYDFGTLLLL---------VKFYRKESKKGKPGEDVYTNAEDELLSDRAKFSFE--YSMASETDSGMSGDWLEGDAVMTPYRKLLVLEAKKLPQLIDDIQRFIN 295
BLAST of SMED30000712 vs. UniProt/SwissProt
Match: sp|Q5AXW5|BCP1_EMENI (Protein bcp1 OS=Emericella nidulans (strain FGSC A4 / ATCC 38163 / CBS 112.46 / NRRL 194 / M139) OX=227321 GN=bcp1 PE=3 SV=1) HSP 1 Score: 56.6102 bits (135), Expect = 5.725e-8 Identity = 52/192 (27.08%), Postives = 91/192 (47.40%), Query Frame = 2 Query: 41 MSKRSKVVD-NVEIYNCDFICDYVMNEDFDMIMTIFQNFIPKEFNLDFKNITEIV-------LSDTDLALCMRNCLSEDDP---NNLDVDPEDSTLLSLTTVINLKKHQNAISIMQLLSSIKANIANDTIGLEIIKIL--EDPVNNIGFVINERNINNSSLTLRVLETVFEDIIKFQSTDEE-LKYSHYCIL 574 M KR ++ D +V + D +ED DM+ F+ F P+E +DF I ++ D DL+ L++ P + + D +DS + TV+NL++H + I L + IK A+ T L + L + P+ IG ++ ER IN S + + + ++ I + ++E +SHY I+ Sbjct: 1 MGKRKQIKDGDVSMGGTDPATGDSSDEDIDMVNVDFEWFDPQE--IDFHGIKHLIRQLFDVDAQDLDLSGLTDMILAQ--PLLGSTVKTDGKDSDPYAFLTVLNLQEHADKPPIKSLTTYIKRK-ASGTPSLSPLAQLFSQTPIPPIGLILTERLINMPSEVVPPMYAMLQEEITWAIEEKEPYNFSHYLIV 187
BLAST of SMED30000712 vs. UniProt/SwissProt
Match: sp|Q2U600|BCP1_ASPOR (Protein bcp1 OS=Aspergillus oryzae (strain ATCC 42149 / RIB 40) OX=510516 GN=bcp1 PE=3 SV=1) HSP 1 Score: 54.6842 bits (130), Expect = 2.529e-7 Identity = 54/194 (27.84%), Postives = 97/194 (50.00%), Query Frame = 2 Query: 41 MSKRSKVVDN-VEIYNCDFICDY-VMNEDFDMIMTIFQNFIPKEFNLDFKNITEIVLSDTDLALCMRNCLSE---DDP---NNLDVDPEDSTLLSLTTVINLKKHQNAISIMQLLSSIKANIANDTIGLEIIKIL-EDPVNNIGFVINERNINNSSLTLRVLETVFEDIIKFQSTDEE-LKYSHYCILLTLSKN 592 M KR ++ DN VE+ D D +ED D++ F+ F P+ + I L D+D + + LS+ P + + VD +S + TV+NL++H++ I L+S ++ +++ + ++L + PV IG ++ ER IN + + + T+ + I + D+E K+SHY I +SKN Sbjct: 1 MGKRKEIKDNDVEMGGTDPRVDGDESDEDMDIVNVDFEWFDPQPIDFHGLKILLRQLFDSDAQIFDMSALSDMILAQPLLGSTVKVDGNESDPYAFLTVLNLQEHKDKPVIKDLISYLQRKASSNPDLAPLSQLLSQTPVPPIGLILTERLINMPAEVVPPMYTMLMEEIAWAIQDKEPYKFSHYLI---VSKN 191
BLAST of SMED30000712 vs. TrEMBL
Match: A0A4Y7LU90 (Protein BCCIP homolog OS=Ceriodaphnia reticulata OX=302197 GN=EOG090X0C3Y PE=2 SV=1) HSP 1 Score: 57.7658 bits (138), Expect = 8.047e-6 Identity = 42/174 (24.14%), Postives = 85/174 (48.85%), Query Frame = 2 Query: 83 NCDFICDYVMNEDFDMIMTI-FQNFIPKEFNLDFKNITEIVLSDTDLALCMRNCLSEDDPNNLDVD--PEDSTLLSLTTVINLKKHQNAISIMQLLSSIKANIANDTIGLEIIKILEDPVNNIGFVINERNIN-NSSLTLRVLETVFEDIIKFQSTDEELKYSHYCILLTLSKN 592 +F EDF I + +Q F+ NL +TE+++ + + ++ C+ EDDP+N D + P D + +T+VINL H++ + ++ + GL ED N +G + NER IN +++ +LE + ++I + + + ++H+ ++ L ++ Sbjct: 47 QVEFAGQSPAPEDFHGIKALMYQLFLKAHINL--SGLTELIIEQSYIGSILQQCVDEDDPDNSDEEGAPADE-VFGITSVINLTHHKDVECVKEVKKYLLEKTQKKLTGL-----FEDSSNQVGLLFNERFINIPPQVSVPLLENLCKEIEEAKKGGKPFDFTHFILISKLHES 212
BLAST of SMED30000712 vs. TrEMBL
Match: A0A4Y7MV34 (Protein BCCIP homolog OS=Daphnia pulex OX=6669 GN=EOG090X0C3Y PE=2 SV=1) HSP 1 Score: 57.3806 bits (137), Expect = 9.752e-6 Identity = 47/206 (22.82%), Postives = 96/206 (46.60%), Query Frame = 2 Query: 41 MSKRSKVVDNVEIYNCDFICDYVMNEDFDMIMTIFQNFIPKEFNLDFKNITEIVLSDTDLALCMRNCLSEDDPNNLDVDPEDSTLLSLTTVINLKKHQNAISIMQLLSSIKANIANDTIGLEIIKILEDPVNNIGFVINERNIN-NSSLTLRVLETVFEDIIKFQSTDEELKYSHYCILLTLSKNCSTGDLEFYHEEMKKVYGKFT 655 M + ++ +N DF+ + EDF I ++ K +++ +TE+++ + ++ C+ D+P++ D + +T+VINL H++ I ++ + GL +DP N IG + NER IN +++ +LE + ++I + + + + ++H+ IL++ + D E KKV G T Sbjct: 32 MGEDEQLGENDREIQVDFVGQSPIAEDFHGIKSLMHQLFLKA-HINLSGLTELIIQQNYIGSILQQCVDNDEPDSDDEGNSLDEVFGITSVINLTHHKDVECIKEVKKYLLEKTQKKLSGL-----FDDPSNQIGLLFNERFINIPPQVSVPLLENLCKEIDEAKKSGKPFDFTHF-ILISKLHESTRKDPE---SRKKKVKGGAT 227
BLAST of SMED30000712 vs. Planmine SMEST
Match: SMESG000059672.1 (SMESG000059672.1) HSP 1 Score: 488.804 bits (1257), Expect = 8.196e-177 Identity = 244/247 (98.79%), Postives = 245/247 (99.19%), Query Frame = 2 Query: 41 MSKRSKVVDNVEIYNCDFICDYVMNEDFDMIMTIFQNFIPKEFNLDFKNITEIVLSDTDLALCMRNCLSEDDPNNLDVDPEDSTLLSLTTVINLKKHQNAISIMQLLSSIKANIANDTIGLEIIKILEDPVNNIGFVINERNINNSSLTLRVLETVFEDIIKFQSTDEELKYSHYCILLTLSKNCSTGDLEFYHEEMKKVYGKFTYKSLFKIESETSDKGSSVSIQGYRAFVLFPSNELDKFLSYIK 781 MSKRSKVVDNVEIYNCDFICDYVMNEDFDMIMTIFQNFIPKEFNLDFKNITEIVLSDTDLALCMRNCLSEDDPNNLDVDPEDSTLLSLTTVINLKKHQN ISI+QLLSSIKANIANDTIGLEIIKILEDPVNNIGFVINERNINNSSLTLRVLETVFEDIIKFQSTDEELKYSHYCILLTLSKNCSTGDLEFYHEEMKKVYGK TYKSLFKIESETSDKGSSVSIQGYRAFVLFPSNELDKFLSYIK Sbjct: 1 MSKRSKVVDNVEIYNCDFICDYVMNEDFDMIMTIFQNFIPKEFNLDFKNITEIVLSDTDLALCMRNCLSEDDPNNLDVDPEDSTLLSLTTVINLKKHQNEISIVQLLSSIKANIANDTIGLEIIKILEDPVNNIGFVINERNINNSSLTLRVLETVFEDIIKFQSTDEELKYSHYCILLTLSKNCSTGDLEFYHEEMKKVYGKLTYKSLFKIESETSDKGSSVSIQGYRAFVLFPSNELDKFLSYIK 247 The following BLAST results are available for this feature:
BLAST of SMED30000712 vs. Ensembl Human
Analysis Date: 2016-08-08 (Schmidtea mediterranea smed_20140614 BLASTX Human e!99) Total hits: 0
BLAST of SMED30000712 vs. Ensembl Celegans
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Celegan e!99) Total hits: 0
BLAST of SMED30000712 vs. Ensembl Fly
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Drosophila e!99) Total hits: 1
BLAST of SMED30000712 vs. Ensembl Zebrafish
Analysis Date: 2016-08-08 (Schmidtea mediterranea smed_20140614 BLASTX Zebrafish e!99) Total hits: 0
BLAST of SMED30000712 vs. Ensembl Xenopus
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Xenopus e!99) Total hits: 0
BLAST of SMED30000712 vs. Ensembl Mouse
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Mouse e!99) Total hits: 0
BLAST of SMED30000712 vs. UniProt/SwissProt
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI UniProt) Total hits: 2
BLAST of SMED30000712 vs. TrEMBL
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI TrEMBL) Total hits: 2
BLAST of SMED30000712 vs. Ensembl Cavefish
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Cavefish e!99) Total hits: 0
BLAST of SMED30000712 vs. Ensembl Sea Lamprey
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Sea Lamprey e!99) Total hits: 0
BLAST of SMED30000712 vs. Ensembl Yeast
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Yeast e!Fungi46) Total hits: 0
BLAST of SMED30000712 vs. Ensembl Nematostella
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Nematostella e!Metazoa46) Total hits: 0
BLAST of SMED30000712 vs. Ensembl Medaka
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Medaka e!99) Total hits: 0
BLAST of SMED30000712 vs. Planmine SMEST
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Planmine SMEST) Total hits: 1
Analyses
This transcript is derived from or has results from the following analyses Sequences
The following sequences are available for this feature:
transcript sequence >SMED30000712 ID=SMED30000712|Name=SMED30000712|organism=Schmidtea mediterranea sexual|type=transcript|length=923bpback to top protein sequence of SMED30000712-orf-1 >SMED30000712-orf-1 ID=SMED30000712-orf-1|Name=SMED30000712-orf-1|organism=Schmidtea mediterranea sexual|type=polypeptide|length=248bp MSKRSKVVDNVEIYNCDFICDYVMNEDFDMIMTIFQNFIPKEFNLDFKNIback 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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