SMED30018491
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., 2020SMED30018491 has been reported as being expressed in these anatomical structures and/or regions. Read more about PAGEPAGE Curations: 14
Alignments
SMED30018491 aligns in the following genomic locations:
Homology
BLAST of SMED30018491 vs. Planmine SMEST
Match: SMESG000000384.1 (SMESG000000384.1) HSP 1 Score: 1073.54 bits (2775), Expect = 0.000e+0 Identity = 529/530 (99.81%), Postives = 530/530 (100.00%), Query Frame = 1 Query: 391 FTNQSGTNYQKSITGLLEPYKDRKFYVVFHPTNSSYHMAHIVVTLEDKRFKMYLFGYAEAARVELLHFQPSSNPQNPAKLLLIRDFVNDNRSKKIQLFNSGAHTGFVSFYSHQQQVRFQPRSFLMVSKTTKEIKVTSISPVDVITFFFLYCDEELRRACRISCTTFPHQDKYNLFNVAHIFTILPEEKDIQQCKLPEFDWRPSLIRQLDGSVCYCNINLMPAISKSTRPNCVDFDITDFKLTLNEASSVRTIDRQTSQSSVTGNSTLTNIENLNSKPMYMNSVSSYIDSINSLTAIVIQKNENYFPPTVIYRTSYTGILIRNDNIFQVQWVISDMFLMSSNNSPDTCSSRYSLSSWSGTIPDSCMTVTMFKGTLKPGDSVLVPVAFKPTVVGRLKCKCNVKVLKDNSDSFMEKELDFYGKGIAQDLDCEQDQRNLNFNVSPQILNFLSFESGLPVKRKLYLQSNSDYLQIFLSHVGEPFEXXXXXXXXXXXXSLIEISFKAFKPDIFSNVLVLSDDEGNSTFVLLKGELR 1980 FTNQSGTNYQKSITGLLEPYKDRKFYVVFHPTNSSYHMAHIVVTLEDKRFKMYLFGYAEAARVELLHFQPSSNPQNPAKLLLIRDFVNDNRSKKIQLFNSGAHTGFVSFYSHQQQVRFQPRSFLMVSKTTKEIKVTSISPVDVITFFFLYCDEELRRACRISCTTFPHQDKYNLFNVAHIFTILPEEKDIQQCKLPEFDWRPSLIRQLDGSVCYCNINLMPAISKSTRPNCVDFDITDFKLTLNEASSVRTIDRQTSQSSVTGNSTLTNIENLNSKPMYMNSVSSYIDSINSLTAIVIQKNENYFPPTVIYRTSYTG+LIRNDNIFQVQWVISDMFLMSSNNSPDTCSSRYSLSSWSGTIPDSCMTVTMFKGTLKPGDSVLVPVAFKPTVVGRLKCKCNVKVLKDNSDSFMEKELDFYGKGIAQDLDCEQDQRNLNFNVSPQILNFLSFESGLPVKRKLYLQSNSDYLQIFLSHVGEPFEIKTKKVIVKKGKSLIEISFKAFKPDIFSNVLVLSDDEGNSTFVLLKGELR Sbjct: 333 FTNQSGTNYQKSITGLLEPYKDRKFYVVFHPTNSSYHMAHIVVTLEDKRFKMYLFGYAEAARVELLHFQPSSNPQNPAKLLLIRDFVNDNRSKKIQLFNSGAHTGFVSFYSHQQQVRFQPRSFLMVSKTTKEIKVTSISPVDVITFFFLYCDEELRRACRISCTTFPHQDKYNLFNVAHIFTILPEEKDIQQCKLPEFDWRPSLIRQLDGSVCYCNINLMPAISKSTRPNCVDFDITDFKLTLNEASSVRTIDRQTSQSSVTGNSTLTNIENLNSKPMYMNSVSSYIDSINSLTAIVIQKNENYFPPTVIYRTSYTGVLIRNDNIFQVQWVISDMFLMSSNNSPDTCSSRYSLSSWSGTIPDSCMTVTMFKGTLKPGDSVLVPVAFKPTVVGRLKCKCNVKVLKDNSDSFMEKELDFYGKGIAQDLDCEQDQRNLNFNVSPQILNFLSFESGLPVKRKLYLQSNSDYLQIFLSHVGEPFEIKTKKVIVKKGKSLIEISFKAFKPDIFSNVLVLSDDEGNSTFVLLKGELR 862 HSP 2 Score: 60.4622 bits (145), Expect = 4.374e-15 Identity = 31/40 (77.50%), Postives = 31/40 (77.50%), Query Frame = 3 Query: 255 IKSFKLHLKAEKPQFAEIRIISPSTPFHVNIFVFSHNCNY 374 IKSFKLHLKAEKPQFAEIRIISPSTPFH F NY Sbjct: 305 IKSFKLHLKAEKPQFAEIRIISPSTPFH---FTNQSGTNY 341 HSP 3 Score: 40.4318 bits (93), Expect = 4.374e-15 Identity = 16/17 (94.12%), Postives = 17/17 (100.00%), Query Frame = 1 Query: 109 SKPKYEEIRAWLQHNQM 159 SKPKYEEIRAWLQHNQ+ Sbjct: 288 SKPKYEEIRAWLQHNQI 304
BLAST of SMED30018491 vs. Planmine SMEST
Match: SMESG000000384.1 (SMESG000000384.1) HSP 1 Score: 1073.15 bits (2774), Expect = 0.000e+0 Identity = 529/530 (99.81%), Postives = 530/530 (100.00%), Query Frame = 1 Query: 391 FTNQSGTNYQKSITGLLEPYKDRKFYVVFHPTNSSYHMAHIVVTLEDKRFKMYLFGYAEAARVELLHFQPSSNPQNPAKLLLIRDFVNDNRSKKIQLFNSGAHTGFVSFYSHQQQVRFQPRSFLMVSKTTKEIKVTSISPVDVITFFFLYCDEELRRACRISCTTFPHQDKYNLFNVAHIFTILPEEKDIQQCKLPEFDWRPSLIRQLDGSVCYCNINLMPAISKSTRPNCVDFDITDFKLTLNEASSVRTIDRQTSQSSVTGNSTLTNIENLNSKPMYMNSVSSYIDSINSLTAIVIQKNENYFPPTVIYRTSYTGILIRNDNIFQVQWVISDMFLMSSNNSPDTCSSRYSLSSWSGTIPDSCMTVTMFKGTLKPGDSVLVPVAFKPTVVGRLKCKCNVKVLKDNSDSFMEKELDFYGKGIAQDLDCEQDQRNLNFNVSPQILNFLSFESGLPVKRKLYLQSNSDYLQIFLSHVGEPFEXXXXXXXXXXXXSLIEISFKAFKPDIFSNVLVLSDDEGNSTFVLLKGELR 1980 FTNQSGTNYQKSITGLLEPYKDRKFYVVFHPTNSSYHMAHIVVTLEDKRFKMYLFGYAEAARVELLHFQPSSNPQNPAKLLLIRDFVNDNRSKKIQLFNSGAHTGFVSFYSHQQQVRFQPRSFLMVSKTTKEIKVTSISPVDVITFFFLYCDEELRRACRISCTTFPHQDKYNLFNVAHIFTILPEEKDIQQCKLPEFDWRPSLIRQLDGSVCYCNINLMPAISKSTRPNCVDFDITDFKLTLNEASSVRTIDRQTSQSSVTGNSTLTNIENLNSKPMYMNSVSSYIDSINSLTAIVIQKNENYFPPTVIYRTSYTG+LIRNDNIFQVQWVISDMFLMSSNNSPDTCSSRYSLSSWSGTIPDSCMTVTMFKGTLKPGDSVLVPVAFKPTVVGRLKCKCNVKVLKDNSDSFMEKELDFYGKGIAQDLDCEQDQRNLNFNVSPQILNFLSFESGLPVKRKLYLQSNSDYLQIFLSHVGEPFEIKTKKVIVKKGKSLIEISFKAFKPDIFSNVLVLSDDEGNSTFVLLKGELR Sbjct: 316 FTNQSGTNYQKSITGLLEPYKDRKFYVVFHPTNSSYHMAHIVVTLEDKRFKMYLFGYAEAARVELLHFQPSSNPQNPAKLLLIRDFVNDNRSKKIQLFNSGAHTGFVSFYSHQQQVRFQPRSFLMVSKTTKEIKVTSISPVDVITFFFLYCDEELRRACRISCTTFPHQDKYNLFNVAHIFTILPEEKDIQQCKLPEFDWRPSLIRQLDGSVCYCNINLMPAISKSTRPNCVDFDITDFKLTLNEASSVRTIDRQTSQSSVTGNSTLTNIENLNSKPMYMNSVSSYIDSINSLTAIVIQKNENYFPPTVIYRTSYTGVLIRNDNIFQVQWVISDMFLMSSNNSPDTCSSRYSLSSWSGTIPDSCMTVTMFKGTLKPGDSVLVPVAFKPTVVGRLKCKCNVKVLKDNSDSFMEKELDFYGKGIAQDLDCEQDQRNLNFNVSPQILNFLSFESGLPVKRKLYLQSNSDYLQIFLSHVGEPFEIKTKKVIVKKGKSLIEISFKAFKPDIFSNVLVLSDDEGNSTFVLLKGELR 845 HSP 2 Score: 60.8474 bits (146), Expect = 3.005e-9 Identity = 31/41 (75.61%), Postives = 31/41 (75.61%), Query Frame = 3 Query: 252 SIKSFKLHLKAEKPQFAEIRIISPSTPFHVNIFVFSHNCNY 374 IKSFKLHLKAEKPQFAEIRIISPSTPFH F NY Sbjct: 287 DIKSFKLHLKAEKPQFAEIRIISPSTPFH---FTNQSGTNY 324
BLAST of SMED30018491 vs. Planmine SMEST
Match: SMESG000072635.1 (SMESG000072635.1) HSP 1 Score: 116.701 bits (291), Expect = 8.936e-27 Identity = 114/416 (27.40%), Postives = 181/416 (43.51%), Query Frame = 1 Query: 406 GTNYQKSITGLLEPYKDRKFYVVFHPTNSSYHMAHIVVTLEDKRFKMYLFGYAEAARVELLHFQPSSNPQNPAKLLLIRDFVNDNRSKKIQLFNSGAHTGFVSFYS-HQQQVRFQPRSFLMVSKTTKEIKVTSISPVDVITFFFLYCDEELRRACRISCTTFPHQDKYNLFNVAHIFTILPEEKDIQQCKLPEFDWRPSLIRQLDGSVCYCNINLMPAISKSTRPNCVDFDITDFKLTLNEASSVRTIDRQTSQSSVTGNSTLTN-IENLNSKPMYMNSVSSYIDSINSLTAIVIQKNENYFPPTVIYRTSYTGILIRNDNIFQVQWVISDMFLMSSNNSPDTCSSRYSLSSWSGTIPDSCMTVTMFKGTLKPGDSVLVPVAFKPTVVGRLKCKCNVKVLKDNSDSFMEKELDFYG 1647 G +I L P + + VVF PT+ Y +IVV + K+FK++LFGYA A++ Q P +LL + NRS ++ L N T F+ FY ++ + F+PR FL+ T+ +++ + LY DE LRRA + C P Q LFN IF P E D K ++ P L +Q++ + I L I +R +C D D T++ ++V + + + N +TN I+NL + S LT ++I+KNE FP T I S GI+I+N N + W I + +P D + KGT+ D+ ++P+ F+P VG+ + V+V ++ S +E + G Sbjct: 177 GRKLSSAIDVSLLPKVENRITVVFLPTDHWYCSGNIVVECQSKKFKVHLFGYACPAKIVF---------QEPKRLLYNSENEESNRSVEMSLTNVSPRTAFIYFYDVYKSGITFRPRKFLVHPDETRSVEIILPRIEKQYEYGVLYVDEGLRRATKEYCNKDP-QKMPKLFNDLRIFFPCPGESDRNYEKWRSTNYVPELNKQIEKNFFEKTIELS-KIKYLSREDCRLLDSVDV-FTMDGLTTVSFPNLKVDEDKY-NNVVITNYIKNLRT------------SSKGELTNVLIEKNEYEFPETPIKSKSVIGIVIQNPNGNPLSWSIVHI-------NPH----------------DYMAVIGESKGTM--SDNKVIPIQFQPPSVGKFVSEFIVRVWNNDDYSQIENLIKMTG 542 The following BLAST results are available for this feature:
BLAST of SMED30018491 vs. Ensembl Human
Analysis Date: 2016-08-08 (Schmidtea mediterranea smed_20140614 BLASTX Human e!99) Total hits: 0
BLAST of SMED30018491 vs. Ensembl Celegans
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Celegan e!99) Total hits: 0
BLAST of SMED30018491 vs. Ensembl Fly
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Drosophila e!99) Total hits: 0
BLAST of SMED30018491 vs. Ensembl Zebrafish
Analysis Date: 2016-08-08 (Schmidtea mediterranea smed_20140614 BLASTX Zebrafish e!99) Total hits: 0
BLAST of SMED30018491 vs. Ensembl Xenopus
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Xenopus e!99) Total hits: 0
BLAST of SMED30018491 vs. Ensembl Mouse
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Mouse e!99) Total hits: 0
BLAST of SMED30018491 vs. UniProt/SwissProt
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI UniProt) Total hits: 0
BLAST of SMED30018491 vs. TrEMBL
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI TrEMBL) Total hits: 0
BLAST of SMED30018491 vs. Ensembl Cavefish
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Cavefish e!99) Total hits: 0
BLAST of SMED30018491 vs. Ensembl Sea Lamprey
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Sea Lamprey e!99) Total hits: 0
BLAST of SMED30018491 vs. Ensembl Yeast
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Yeast e!Fungi46) Total hits: 0
BLAST of SMED30018491 vs. Ensembl Nematostella
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Nematostella e!Metazoa46) Total hits: 0
BLAST of SMED30018491 vs. Ensembl Medaka
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Medaka e!99) Total hits: 0
BLAST of SMED30018491 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 >SMED30018491 ID=SMED30018491|Name=SMED30018491|organism=Schmidtea mediterranea sexual|type=transcript|length=2164bpback to top protein sequence of SMED30018491-orf-1 >SMED30018491-orf-1 ID=SMED30018491-orf-1|Name=SMED30018491-orf-1|organism=Schmidtea mediterranea sexual|type=polypeptide|length=494bp MAHIVVTLEDKRFKMYLFGYAEAARVELLHFQPSSNPQNPAKLLLIRDFVback 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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