SMED30023360
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., 2020SMED30023360 has been reported as being expressed in these anatomical structures and/or regions. Read more about PAGEPAGE Curations: 4
Alignments
SMED30023360 aligns in the following genomic locations: Homology
BLAST of SMED30023360 vs. TrEMBL
Match: A0A183BUT1 (Uncharacterized protein OS=Globodera pallida OX=36090 PE=4 SV=1) HSP 1 Score: 62.7734 bits (151), Expect = 5.292e-7 Identity = 38/104 (36.54%), Postives = 51/104 (49.04%), Query Frame = 1 Query: 391 GPVEFTDFMSEFYMYATAYRWTQAATVQRLPLYLKGAAREAWQQLDKRNIGNDWSKLKDELANKLIGGDIKRIMRQKFYNRVQRSDE*VSEFAHYLTTLADKAF 702 G +F ++ F ATA+ W A Q LPLYL+GAA+ ++ L N W L D LA KL RQK R QR E + EFA ++ L +A+ Sbjct: 34 GSEDFQQYLKNFNTLATAHSWPPARCTQILPLYLRGAAKAVYEGLCDAERTN-WMSLVDALAGKLKRMSSSLTARQKLAQRKQRPGETLEEFAQAVSELVARAY 136
BLAST of SMED30023360 vs. TrEMBL
Match: V3ZGP0 (Uncharacterized protein OS=Lottia gigantea OX=225164 GN=LOTGIDRAFT_164300 PE=4 SV=1) HSP 1 Score: 61.6178 bits (148), Expect = 1.867e-6 Identity = 41/137 (29.93%), Postives = 69/137 (50.36%), Query Frame = 1 Query: 367 LLLNHYGGGPVEFTDFMSEFYMYATAYRWTQAATVQRLPLYLKGAAREAWQQLDKRNIGNDWSKLKDELANKLIGGDIKRIMRQKFYNRVQRSDE*VSEFAHYLTTLADKAFEIKQEQPDTVKQIIELLQDQFLMGV 777 +L + + G EF D + F A +WT Q + + LKG+AR+ + ++ +W L+DEL +L G + + +F R+++SDE +F++ L LA K + I +V EL +DQFL G+ Sbjct: 37 VLPDTFTGEEEEFIDLLESFEACAAVNKWTDEEKCQFVAIKLKGSARKVFNDIEP-GAKREWILLEDELKRRLDGTRRPDLYKSEFLTRIKKSDEGYLDFSNALRILARKEYPIV-----SVGIRDELARDQFLRGL 167
BLAST of SMED30023360 vs. Planmine SMEST
Match: SMESG000018010.1 (SMESG000018010.1) HSP 1 Score: 258.455 bits (659), Expect = 2.232e-93 Identity = 126/151 (83.44%), Postives = 132/151 (87.42%), Query Frame = 1 Query: 331 VRDTNDYASFQKLLLNHYGGGPVEFTDFMSEFYMYATAYRWTQAATVQRLPLYLKGAAREAWQQLDKRNIGNDWSKLKDELANKLIGGDIKRIMRQKFYNRVQRSDE*VSEFAHYLTTLADKAFEIKQEQPDTVKQIIELLQDQFLMGVEK 783 VRDTN YAS QKL +N Y G VEFTDFM E+YMYATAY WTQ VQRLPLYLK A+EA QQLDKRNIGNDWSKLKDELANKLI GDIKRIMRQKFYNRVQRS+E VSEFAHYLTTLADKAFE+KQEQPDTVKQI ELLQDQFLMG +K Sbjct: 23 VRDTNYYASCQKLPVNQYRGDAVEFTDFMGEYYMYATAYGWTQPVMVQRLPLYLKRTAQEAGQQLDKRNIGNDWSKLKDELANKLISGDIKRIMRQKFYNRVQRSEESVSEFAHYLTTLADKAFEVKQEQPDTVKQIRELLQDQFLMGADK 173 HSP 2 Score: 103.605 bits (257), Expect = 2.232e-93 Identity = 59/87 (67.82%), Postives = 65/87 (74.71%), Query Frame = 3 Query: 780 KKAMQIEYNLQITEKKEQSFAGNSERRDRSLTPVKNDQFQRTISPSPKFRNKFDFKRSIGNVQSSN--KCLKCH-TERKLII*IKVS 1031 KKAMQIE NL+ TEKK QSFA ++RDRSLTPVKNDQFQRTISP PKFR KFDF SI NVQSSN K ++C ER I+ I V Sbjct: 192 KKAMQIELNLKNTEKKAQSFAVIYKKRDRSLTPVKNDQFQRTISPLPKFRYKFDFNGSIANVQSSNNGKTIQCDIVERWDIMPISVG 278
BLAST of SMED30023360 vs. Planmine SMEST
Match: SMESG000067075.1 (SMESG000067075.1) HSP 1 Score: 228.024 bits (580), Expect = 3.899e-83 Identity = 110/133 (82.71%), Postives = 117/133 (87.97%), Query Frame = 1 Query: 331 VRDTNDYASFQKLLLNHYGGGPVEFTDFMSEFYMYATAYRWTQAATVQRLPLYLKGAAREAWQQLDKRNIGNDWSKLKDELANKLIGGDIKRIMRQKFYNRVQRSDE*VSEFAHYLTTLADKAFEIKQEQPDT 729 VRDTNDYAS QKL +N Y G PVEF DFM E+YMYATAYRWTQA VQRL L+LK AAREA QQLDKRNIGNDW KLKD+LANKL+G DIKRIMRQ+FYNRVQRSDE VSEFAHYLTTLADKAFE+KQEQ DT Sbjct: 23 VRDTNDYASCQKLPVNQYKGDPVEFADFMGEYYMYATAYRWTQAVMVQRLLLHLKEAAREALQQLDKRNIGNDWLKLKDKLANKLVGSDIKRIMRQQFYNRVQRSDESVSEFAHYLTTLADKAFEVKQEQSDT 155 HSP 2 Score: 100.138 bits (248), Expect = 3.899e-83 Identity = 52/67 (77.61%), Postives = 56/67 (83.58%), Query Frame = 3 Query: 816 TEKKEQSFAGNSERRDRSLTPVKNDQFQRTISPSPKFRNKFDFKRSIGNVQSSN--KCLKCHTERKL 1010 TEKK QSFA SERRDRS+TPVKNDQFQRTISPSPKFRNKFDF RSI NVQSSN K ++C RK+ Sbjct: 157 TEKKAQSFAVISERRDRSITPVKNDQFQRTISPSPKFRNKFDFNRSIPNVQSSNNGKIMQCDICRKM 223
BLAST of SMED30023360 vs. Planmine SMEST
Match: SMESG000053640.1 (SMESG000053640.1) HSP 1 Score: 196.438 bits (498), Expect = 2.089e-74 Identity = 96/118 (81.36%), Postives = 99/118 (83.90%), Query Frame = 1 Query: 430 MYATAYRWTQAATVQRLPLYLKGAAREAWQQLDKRNIGNDWSKLKDELANKLIGGDIKRIMRQKFYNRVQRSDE*VSEFAHYLTTLADKAFEIKQEQPDTVKQIIELLQDQFLMGVEK 783 MYATAY WTQA VQRLPLYLKGAARE WQ L+K NI N+WSKLKDELANKLIGGD K I RQK YNRVQR DE SEF YLTTLADKAFE+KQEQPDTVK I E LQDQFLMGVEK Sbjct: 1 MYATAYGWTQAVMVQRLPLYLKGAARETWQNLNKINIRNEWSKLKDELANKLIGGDKKHITRQKIYNRVQRLDESFSEFPFYLTTLADKAFEVKQEQPDTVKHIREFLQDQFLMGVEK 118 HSP 2 Score: 102.834 bits (255), Expect = 2.089e-74 Identity = 57/79 (72.15%), Postives = 62/79 (78.48%), Query Frame = 3 Query: 780 KKAMQIEYNLQITEKKEQSFAGNSERRDRSLTPVKNDQFQRTISPSPKFRNKFDFKRSIGNVQSSN--KCLKCHTERKL 1010 KKA +IE NL+ TEKK QSFA SERRDRSLT VKNDQFQRTISPS KFRNKF F RSI NVQSSN K ++C RK+ Sbjct: 137 KKATRIELNLKSTEKKAQSFAVISERRDRSLTLVKNDQFQRTISPSSKFRNKFYFNRSIANVQSSNNEKTIQCDICRKM 215
BLAST of SMED30023360 vs. Planmine SMEST
Match: SMESG000080881.1 (SMESG000080881.1) HSP 1 Score: 236.498 bits (602), Expect = 1.746e-73 Identity = 113/148 (76.35%), Postives = 126/148 (85.14%), Query Frame = 1 Query: 340 TNDYASFQKLLLNHYGGGPVEFTDFMSEFYMYATAYRWTQAATVQRLPLYLKGAAREAWQQLDKRNIGNDWSKLKDELANKLIGGDIKRIMRQKFYNRVQRSDE*VSEFAHYLTTLADKAFEIKQEQPDTVKQIIELLQDQFLMGVEK 783 +NDYAS QKL + YGG PVEF DF +++YMYATAY W+Q+ VQRLPLYLKGAAREAWQQ+DKR I NDW+KLKD LA KLIGGDIKRIMRQKFYNRVQR DE VSEFA++LTTLA+KAFEIK EQ D VKQ+ ELLQDQFL GV K Sbjct: 1563 SNDYASCQKLPVQQYGGDPVEFVDFKADYYMYATAYGWSQSIMVQRLPLYLKGAAREAWQQIDKRLIANDWTKLKDALAAKLIGGDIKRIMRQKFYNRVQRPDESVSEFAYHLTTLAEKAFEIKPEQVDVVKQVKELLQDQFLTGVRK 1710 HSP 2 Score: 59.3066 bits (142), Expect = 1.746e-73 Identity = 29/52 (55.77%), Postives = 39/52 (75.00%), Query Frame = 3 Query: 780 KKAMQIEYNLQITEKKEQSFAGNSERRDRSLTPVKNDQFQRTISPSPKFRNK 935 KKAM+IE NL+ T+ K +SF E RDRS++ +KN+ FQ++ SPSPKFR K Sbjct: 1729 KKAMKIELNLKTTQPKAESFTTIDESRDRSVSRIKNNLFQKSTSPSPKFRVK 1780
BLAST of SMED30023360 vs. Planmine SMEST
Match: SMESG000057446.1 (SMESG000057446.1) HSP 1 Score: 226.868 bits (577), Expect = 2.430e-72 Identity = 110/148 (74.32%), Postives = 123/148 (83.11%), Query Frame = 1 Query: 340 TNDYASFQKLLLNHYGGGPVEFTDFMSEFYMYATAYRWTQAATVQRLPLYLKGAAREAWQQLDKRNIGNDWSKLKDELANKLIGGDIKRIMRQKFYNRVQRSDE*VSEFAHYLTTLADKAFEIKQEQPDTVKQIIELLQDQFLMGVEK 783 +NDYAS QKL + YGG PV+F DFM+++YMYATAY W+Q+ VQRL L LKGAAREAWQQ+DKR I NDW+KLKD LA KLIGGDIKRIMRQKFYNRVQR DE VSEFA++LTTLA KAFEIK EQ D KQ+ ELLQDQFL GV K Sbjct: 32 SNDYASCQKLPVQQYGGDPVKFVDFMADYYMYATAYGWSQSIMVQRLRLNLKGAAREAWQQIDKRFIANDWTKLKDALAAKLIGGDIKRIMRQKFYNRVQRPDESVSEFAYHLTTLAKKAFEIKPEQVDVAKQMKELLQDQFLTGVRK 179 HSP 2 Score: 65.0846 bits (157), Expect = 2.430e-72 Identity = 31/58 (53.45%), Postives = 44/58 (75.86%), Query Frame = 3 Query: 780 KKAMQIEYNLQITEKKEQSFAGNSERRDRSLTPVKNDQFQRTISPSPKFRNKFDFKRS 953 KK M+IE NL+ T+ K +SF E RDRS++P+KN+ FQ++ SPSPKFR KF+ ++S Sbjct: 198 KKTMKIELNLKTTQPKAESFTTIDESRDRSVSPIKNNLFQKSTSPSPKFRVKFEPRKS 255 The following BLAST results are available for this feature:
BLAST of SMED30023360 vs. Ensembl Human
Analysis Date: 2016-08-08 (Schmidtea mediterranea smed_20140614 BLASTX Human e!99) Total hits: 0
BLAST of SMED30023360 vs. Ensembl Celegans
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Celegan e!99) Total hits: 0
BLAST of SMED30023360 vs. Ensembl Fly
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Drosophila e!99) Total hits: 0
BLAST of SMED30023360 vs. Ensembl Zebrafish
Analysis Date: 2016-08-08 (Schmidtea mediterranea smed_20140614 BLASTX Zebrafish e!99) Total hits: 0
BLAST of SMED30023360 vs. Ensembl Xenopus
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Xenopus e!99) Total hits: 0
BLAST of SMED30023360 vs. Ensembl Mouse
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Mouse e!99) Total hits: 0
BLAST of SMED30023360 vs. UniProt/SwissProt
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI UniProt) Total hits: 0
BLAST of SMED30023360 vs. TrEMBL
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI TrEMBL) Total hits: 2
BLAST of SMED30023360 vs. Ensembl Cavefish
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Cavefish e!99) Total hits: 0
BLAST of SMED30023360 vs. Ensembl Sea Lamprey
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Sea Lamprey e!99) Total hits: 0
BLAST of SMED30023360 vs. Ensembl Yeast
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Yeast e!Fungi46) Total hits: 0
BLAST of SMED30023360 vs. Ensembl Nematostella
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Nematostella e!Metazoa46) Total hits: 0
BLAST of SMED30023360 vs. Ensembl Medaka
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Medaka e!99) Total hits: 0
BLAST of SMED30023360 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 >SMED30023360 ID=SMED30023360|Name=SMED30023360|organism=Schmidtea mediterranea sexual|type=transcript|length=1235bpback to top protein sequence of SMED30023360-orf-1 >SMED30023360-orf-1 ID=SMED30023360-orf-1|Name=SMED30023360-orf-1|organism=Schmidtea mediterranea sexual|type=polypeptide|length=130bp MSSNNSTTSTTTAPIVSTSAVTVRDTNDYASFQKLLLNHYGGGPVEFTDFback 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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