SMED30014417
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., 2020SMED30014417 has been reported as being expressed in these anatomical structures and/or regions. Read more about PAGEPAGE Curations: 6
Alignments
SMED30014417 aligns in the following genomic locations:
Homology
BLAST of SMED30014417 vs. Planmine SMEST
Match: SMESG000027581.1 (SMESG000027581.1) HSP 1 Score: 570.081 bits (1468), Expect = 0.000e+0 Identity = 321/325 (98.77%), Postives = 321/325 (98.77%), Query Frame = 1 Query: 28 MDDTVNMIKLKQTTLEAXXXXXXXXXXXXDAKRDIKNXXXXXXXXXXXXXAIFDRIEQSFDHKIDRHLKFIKMESCLKSTIKALDNEQKNLYRNFMCNFQMLSDEIRAVSSLLTFMKHWEDKLMNGFEMTRYPTEFIKCLEKIPDCERAKLRRDLSDIIWLPTHENTEMARGTKQNQLRSLANQETVTITDARDHIVPQPMHLDRGQSGMLDISLLDLTVDPDNRHHGGLSGEADDSNDQSEAPSRTQLISDLSGLAGDTDDCNFQSIDMCTAIDSHIGFTFDSTLTRSVHLSIXXXXXXXXXXXXXXXQLAEEEVLDNDLICLE 1002 MDDTVNMIKLKQTTLEAIKSIKKLK DAKRDIKNEDDDYEFKEFDEFAIFDRIEQSFDHKIDRHLKFIKMESCLKSTIKALDNEQKNLYRNFMCNFQMLSDEIRAVSSLLTFMKHWEDKLMNGFEMTRYPTEFIKCLEKIPDCERAKLRRDLSDIIWLPTHENTEMARGTKQNQLRSLANQETVTITDARDHIVPQPMHLDRGQSGMLDISLLDLTVDPDNRHHGGLSGEADDSNDQSEAPSRTQLISDLSGLAGDTDDCNFQSIDMCTAIDSHIGFTFDSTLTRSVHLSIGSGAGEGEASHRGAAQLAEEEVLDNDLICLE Sbjct: 1 MDDTVNMIKLKQTTLEAIKSIKKLK----DAKRDIKNEDDDYEFKEFDEFAIFDRIEQSFDHKIDRHLKFIKMESCLKSTIKALDNEQKNLYRNFMCNFQMLSDEIRAVSSLLTFMKHWEDKLMNGFEMTRYPTEFIKCLEKIPDCERAKLRRDLSDIIWLPTHENTEMARGTKQNQLRSLANQETVTITDARDHIVPQPMHLDRGQSGMLDISLLDLTVDPDNRHHGGLSGEADDSNDQSEAPSRTQLISDLSGLAGDTDDCNFQSIDMCTAIDSHIGFTFDSTLTRSVHLSIGSGAGEGEASHRGAAQLAEEEVLDNDLICLE 321
BLAST of SMED30014417 vs. Planmine SMEST
Match: SMESG000027581.1 (SMESG000027581.1) HSP 1 Score: 569.311 bits (1466), Expect = 0.000e+0 Identity = 325/327 (99.39%), Postives = 325/327 (99.39%), Query Frame = 1 Query: 28 MDDTVNMIKLKQTTLEAXXXXXXXXXXXXDAKRDIKNXXXXXXXXXXXXXAIFDRIEQSFDHKIDRHLKFIKMESCLKSTIKALDNEQKNLYRNFMCNFQMLSDEIRAVSSLLTFMKHWEDKLMNGFEMTRYPTEFIKCLEKIPDCERAKLRRDLSDIIWLPTHENTEMARGTKQ--NQLRSLANQETVTITDARDHIVPQPMHLDRGQSGMLDISLLDLTVDPDNRHHGGLSGEADDSNDQSEAPSRTQLISDLSGLAGDTDDCNFQSIDMCTAIDSHIGFTFDSTLTRSVHLSIXXXXXXXXXXXXXXXQLAEEEVLDNDLICLE 1002 MDDTVNMIKLKQTTLEAIKSIKKLKVLILDAKRDIKNEDDDYEFKEFDEFAIFDRIEQSFDHKIDRHLKFIKMESCLKSTIKALDNEQKNLYRNFMCNFQMLSDEIRAVSSLLTFMKHWEDKLMNGFEMTRYPTEFIKCLEKIPDCERAKLRRDLSDIIWLPTHENTEMARGTKQ NQLRSLANQETVTITDARDHIVPQPMHLDRGQSGMLDISLLDLTVDPDNRHHGGLSGEADDSNDQSEAPSRTQLISDLSGLAGDTDDCNFQSIDMCTAIDSHIGFTFDSTLTRSVHLSIGSGAGEGEASHRGAAQLAEEEVLDNDLICLE Sbjct: 1 MDDTVNMIKLKQTTLEAIKSIKKLKVLILDAKRDIKNEDDDYEFKEFDEFAIFDRIEQSFDHKIDRHLKFIKMESCLKSTIKALDNEQKNLYRNFMCNFQMLSDEIRAVSSLLTFMKHWEDKLMNGFEMTRYPTEFIKCLEKIPDCERAKLRRDLSDIIWLPTHENTEMARGTKQVSNQLRSLANQETVTITDARDHIVPQPMHLDRGQSGMLDISLLDLTVDPDNRHHGGLSGEADDSNDQSEAPSRTQLISDLSGLAGDTDDCNFQSIDMCTAIDSHIGFTFDSTLTRSVHLSIGSGAGEGEASHRGAAQLAEEEVLDNDLICLE 327
BLAST of SMED30014417 vs. Planmine SMEST
Match: SMESG000027581.1 (SMESG000027581.1) HSP 1 Score: 565.459 bits (1456), Expect = 0.000e+0 Identity = 321/327 (98.17%), Postives = 321/327 (98.17%), Query Frame = 1 Query: 28 MDDTVNMIKLKQTTLEAXXXXXXXXXXXXDAKRDIKNXXXXXXXXXXXXXAIFDRIEQSFDHKIDRHLKFIKMESCLKSTIKALDNEQKNLYRNFMCNFQMLSDEIRAVSSLLTFMKHWEDKLMNGFEMTRYPTEFIKCLEKIPDCERAKLRRDLSDIIWLPTHENTEMARGTKQ--NQLRSLANQETVTITDARDHIVPQPMHLDRGQSGMLDISLLDLTVDPDNRHHGGLSGEADDSNDQSEAPSRTQLISDLSGLAGDTDDCNFQSIDMCTAIDSHIGFTFDSTLTRSVHLSIXXXXXXXXXXXXXXXQLAEEEVLDNDLICLE 1002 MDDTVNMIKLKQTTLEAIKSIKKLK DAKRDIKNEDDDYEFKEFDEFAIFDRIEQSFDHKIDRHLKFIKMESCLKSTIKALDNEQKNLYRNFMCNFQMLSDEIRAVSSLLTFMKHWEDKLMNGFEMTRYPTEFIKCLEKIPDCERAKLRRDLSDIIWLPTHENTEMARGTKQ NQLRSLANQETVTITDARDHIVPQPMHLDRGQSGMLDISLLDLTVDPDNRHHGGLSGEADDSNDQSEAPSRTQLISDLSGLAGDTDDCNFQSIDMCTAIDSHIGFTFDSTLTRSVHLSIGSGAGEGEASHRGAAQLAEEEVLDNDLICLE Sbjct: 1 MDDTVNMIKLKQTTLEAIKSIKKLK----DAKRDIKNEDDDYEFKEFDEFAIFDRIEQSFDHKIDRHLKFIKMESCLKSTIKALDNEQKNLYRNFMCNFQMLSDEIRAVSSLLTFMKHWEDKLMNGFEMTRYPTEFIKCLEKIPDCERAKLRRDLSDIIWLPTHENTEMARGTKQVSNQLRSLANQETVTITDARDHIVPQPMHLDRGQSGMLDISLLDLTVDPDNRHHGGLSGEADDSNDQSEAPSRTQLISDLSGLAGDTDDCNFQSIDMCTAIDSHIGFTFDSTLTRSVHLSIGSGAGEGEASHRGAAQLAEEEVLDNDLICLE 323
BLAST of SMED30014417 vs. Planmine SMEST
Match: SMESG000027581.1 (SMESG000027581.1) HSP 1 Score: 553.518 bits (1425), Expect = 0.000e+0 Identity = 315/321 (98.13%), Postives = 315/321 (98.13%), Query Frame = 1 Query: 46 MIKLKQTTLEAXXXXXXXXXXXXDAKRDIKNXXXXXXXXXXXXXAIFDRIEQSFDHKIDRHLKFIKMESCLKSTIKALDNEQKNLYRNFMCNFQMLSDEIRAVSSLLTFMKHWEDKLMNGFEMTRYPTEFIKCLEKIPDCERAKLRRDLSDIIWLPTHENTEMARGTKQ--NQLRSLANQETVTITDARDHIVPQPMHLDRGQSGMLDISLLDLTVDPDNRHHGGLSGEADDSNDQSEAPSRTQLISDLSGLAGDTDDCNFQSIDMCTAIDSHIGFTFDSTLTRSVHLSIXXXXXXXXXXXXXXXQLAEEEVLDNDLICLE 1002 MIKLKQTTLEAIKSIKKLK DAKRDIKNEDDDYEFKEFDEFAIFDRIEQSFDHKIDRHLKFIKMESCLKSTIKALDNEQKNLYRNFMCNFQMLSDEIRAVSSLLTFMKHWEDKLMNGFEMTRYPTEFIKCLEKIPDCERAKLRRDLSDIIWLPTHENTEMARGTKQ NQLRSLANQETVTITDARDHIVPQPMHLDRGQSGMLDISLLDLTVDPDNRHHGGLSGEADDSNDQSEAPSRTQLISDLSGLAGDTDDCNFQSIDMCTAIDSHIGFTFDSTLTRSVHLSIGSGAGEGEASHRGAAQLAEEEVLDNDLICLE Sbjct: 1 MIKLKQTTLEAIKSIKKLK----DAKRDIKNEDDDYEFKEFDEFAIFDRIEQSFDHKIDRHLKFIKMESCLKSTIKALDNEQKNLYRNFMCNFQMLSDEIRAVSSLLTFMKHWEDKLMNGFEMTRYPTEFIKCLEKIPDCERAKLRRDLSDIIWLPTHENTEMARGTKQVSNQLRSLANQETVTITDARDHIVPQPMHLDRGQSGMLDISLLDLTVDPDNRHHGGLSGEADDSNDQSEAPSRTQLISDLSGLAGDTDDCNFQSIDMCTAIDSHIGFTFDSTLTRSVHLSIGSGAGEGEASHRGAAQLAEEEVLDNDLICLE 317
BLAST of SMED30014417 vs. Planmine SMEST
Match: SMESG000013361.1 (SMESG000013361.1) HSP 1 Score: 88.1965 bits (217), Expect = 3.359e-19 Identity = 56/181 (30.94%), Postives = 92/181 (50.83%), Query Frame = 1 Query: 199 QSFDHKIDRHLKFIKMESCLKSTIKALDNEQKNLYRNFMCNFQMLSDEIRAVSSLLTFMKHWEDKLMNGFEMTRYPTEFIKCLEKIPDCERAKLRRDLSDIIWLPT-----------------HENTEMARGTKQNQLRSLANQETVTITDARDHIVPQPMHLDRGQSGMLDISLLDLTVD 690 QSFD + K IKM L K L N+Q+ +Y F+ F LS++I A SS+L+F+ HW +K+ + FE+ YP++F+KCLE +P + ++ +DLS I LP H + E + K L + ++ + + + + +RG + L+IS+LD TV+ Sbjct: 66 QSFDDR--SQFKDIKMH--LNEIKKNLINKQQVMYDEFVSAFNNLSNQIHATSSVLSFLSHWNEKICDNFELKEYPSKFLKCLELVPQSYKLQIEKDLSVIKRLPGDYDKDEDIMSKIFDFSDHRSNETVKNGKLGSSGCLLSDDSTFNEEIMLKVKDKNTNFNRGNTLKLNISVLDYTVN 242 The following BLAST results are available for this feature:
BLAST of SMED30014417 vs. Ensembl Human
Analysis Date: 2016-08-08 (Schmidtea mediterranea smed_20140614 BLASTX Human e!99) Total hits: 0
BLAST of SMED30014417 vs. Ensembl Celegans
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Celegan e!99) Total hits: 0
BLAST of SMED30014417 vs. Ensembl Fly
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Drosophila e!99) Total hits: 0
BLAST of SMED30014417 vs. Ensembl Zebrafish
Analysis Date: 2016-08-08 (Schmidtea mediterranea smed_20140614 BLASTX Zebrafish e!99) Total hits: 0
BLAST of SMED30014417 vs. Ensembl Xenopus
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Xenopus e!99) Total hits: 0
BLAST of SMED30014417 vs. Ensembl Mouse
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Mouse e!99) Total hits: 0
BLAST of SMED30014417 vs. UniProt/SwissProt
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI UniProt) Total hits: 0
BLAST of SMED30014417 vs. TrEMBL
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI TrEMBL) Total hits: 0
BLAST of SMED30014417 vs. Ensembl Cavefish
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Cavefish e!99) Total hits: 0
BLAST of SMED30014417 vs. Ensembl Sea Lamprey
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Sea Lamprey e!99) Total hits: 0
BLAST of SMED30014417 vs. Ensembl Yeast
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Yeast e!Fungi46) Total hits: 0
BLAST of SMED30014417 vs. Ensembl Nematostella
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Nematostella e!Metazoa46) Total hits: 0
BLAST of SMED30014417 vs. Ensembl Medaka
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Medaka e!99) Total hits: 0
BLAST of SMED30014417 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 >SMED30014417 ID=SMED30014417|Name=SMED30014417|organism=Schmidtea mediterranea sexual|type=transcript|length=1027bpback to top protein sequence of SMED30014417-orf-1 >SMED30014417-orf-1 ID=SMED30014417-orf-1|Name=SMED30014417-orf-1|organism=Schmidtea mediterranea sexual|type=polypeptide|length=326bp MDDTVNMIKLKQTTLEAIKSIKKLKVLILDAKRDIKNEDDDYEFKEFDEFback 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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