SMED30021277
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., 2020SMED30021277 has been reported as being expressed in these anatomical structures and/or regions. Read more about PAGEPAGE Curations: 5
Alignments
SMED30021277 aligns in the following genomic locations:
Homology
BLAST of SMED30021277 vs. Planmine SMEST
Match: SMESG000032006.1 (SMESG000032006.1) HSP 1 Score: 374.4 bits (960), Expect = 2.029e-133 Identity = 184/184 (100.00%), Postives = 184/184 (100.00%), Query Frame = 3 Query: 33 MAHLFEKSYESLSEINYQLSTQHSIENEIFDFLENYEILPLKTVQRIVKSFANEYVEILHEKFGYEQSVLKLASCVISINQIDESLERMNEIFWDCMNLRLDKSCGKIIKSWMLNIDRIVLDLKKISNKLSKEYLTCCACQLNPVSILYLPCGDIVICSECYNDSVVKCQGCQRHVDEMHKIYF 584 MAHLFEKSYESLSEINYQLSTQHSIENEIFDFLENYEILPLKTVQRIVKSFANEYVEILHEKFGYEQSVLKLASCVISINQIDESLERMNEIFWDCMNLRLDKSCGKIIKSWMLNIDRIVLDLKKISNKLSKEYLTCCACQLNPVSILYLPCGDIVICSECYNDSVVKCQGCQRHVDEMHKIYF Sbjct: 1 MAHLFEKSYESLSEINYQLSTQHSIENEIFDFLENYEILPLKTVQRIVKSFANEYVEILHEKFGYEQSVLKLASCVISINQIDESLERMNEIFWDCMNLRLDKSCGKIIKSWMLNIDRIVLDLKKISNKLSKEYLTCCACQLNPVSILYLPCGDIVICSECYNDSVVKCQGCQRHVDEMHKIYF 184
BLAST of SMED30021277 vs. Planmine SMEST
Match: SMESG000031958.1 (SMESG000031958.1) HSP 1 Score: 133.65 bits (335), Expect = 1.397e-38 Identity = 67/167 (40.12%), Postives = 97/167 (58.08%), Query Frame = 3 Query: 84 QLSTQHSIENEIFDFLENYEILPLKTVQRIVKSFANEYVEILHEKFGYEQSVLKLASCVISINQIDESLERMNEIFWDCMNLRLDKSCGKIIKSWMLNIDRIVLDLKKISNKLSKEYLTCCACQLNPVSILYLPCGDIVICSECYNDSVVKCQGCQRHVDEMHKIYF 584 ++S ++N + +F + E PLK +++ +KS NE++ L E FGY S+LKLAS +I N++ E +N+IFW CM LR DK C KII M D I +++ I K ++ LTC C VS+LYLPCG +V CS C+ + C C ++E H IYF Sbjct: 24 EISLVEIVKNTLLNFQLDLEKWPLKMMRKFIKSLKNEFIFKLSETFGYNPSILKLASWIICFNEMKNDDENLNDIFWICMELRFDKECWKIIDILMRKTDEIEIEINNIVKKQNESLLTCSICMKEQVSVLYLPCGHVVACSRCHQSTFHSCLACGIKIEEFHIIYF 190
BLAST of SMED30021277 vs. Planmine SMEST
Match: SMESG000067789.1 (SMESG000067789.1) HSP 1 Score: 120.553 bits (301), Expect = 2.844e-33 Identity = 58/153 (37.91%), Postives = 91/153 (59.48%), Query Frame = 3 Query: 123 DFLENYEILPLKTVQRIVKSFANEYVEILHEKFGYEQSVLKLASCVISINQIDESLERMNEIFWDCMNLRLDKSCGKIIKSWMLNIDRIVLDLKKISNKLSKEYLTCCACQLNPVSILYLPCGDIVICSECYNDSVVKCQGCQRHVDEMHKIY 581 DF+ Y+ K + I+K F N +E L + F Y++ +LKL+S ++ +++ + +NE FWDCM LRL+ ++ K W+ D I L + N + K YLTC C+ N VS+LYLPCG +++CS+C + + KCQ C ++E H IY Sbjct: 58 DFINTYDTFTDKEIINILKIFKNPSIEYLIDIFNYDKCILKLSSYLMYLDKTGMDNDSLNEYFWDCMELRLNPEYSRLFKEWIRKSDFIEDKLTEKLNDVKKRYLTCSICKENQVSVLYLPCGHVIVCSKCQDKNNRKCQACSAPINEYHAIY 210
BLAST of SMED30021277 vs. Planmine SMEST
Match: SMESG000031926.1 (SMESG000031926.1) HSP 1 Score: 117.857 bits (294), Expect = 2.069e-32 Identity = 57/152 (37.50%), Postives = 92/152 (60.53%), Query Frame = 3 Query: 126 FLENYEILPLKTVQRIVKSFANEYVEILHEKFGYEQSVLKLASCVISINQIDESLERMNEIFWDCMNLRLDKSCGKIIKSWMLNIDRIVLDLKKISNKLSKEYLTCCACQLNPVSILYLPCGDIVICSECYNDSVVKCQGCQRHVDEMHKIY 581 FL + L + ++ KSF +E +E L + FGY ++LKL+SCVIS+N I + N +FW CM R+ + K+I+ +M N+D + ++ + ++ +LTC C+ N VS+LYLPCG IV+CS C+ + +C+ C +DE H +Y Sbjct: 47 FLSSTNGFDLIFLNKLNKSFNHESIENLSKLFGYNHAMLKLSSCVISLNDIKPTDFNTNLVFWSCMEFRVGQY-QKLIQYFMANVDNLQQNINDKLKEATRLFLTCSCCETNQVSVLYLPCGHIVVCSSCFKSTTRRCESCAVDIDEYHFVY 197
BLAST of SMED30021277 vs. Planmine SMEST
Match: SMESG000031949.1 (SMESG000031949.1) HSP 1 Score: 110.153 bits (274), Expect = 1.620e-29 Identity = 51/150 (34.00%), Postives = 90/150 (60.00%), Query Frame = 3 Query: 132 ENYEILPLKTVQRIVKSFANEYVEILHEKFGYEQSVLKLASCVISINQIDESLERMNEIFWDCMNLRLDKSCGKIIKSWMLNIDRIVLDLKKISNKLSKEYLTCCACQLNPVSILYLPCGDIVICSECYNDSVVKCQGCQRHVDEMHKIY 581 +++E L + +++KSF ++ H+ FGY++ +LKL S +++ +I + + MN +FW CM LRLD I W+ N +++ L ++ ++ YL C C++ VSILYLPCG +++C++C+ + CQ CQ ++E H IY Sbjct: 43 DSFENLDFIFLGKLLKSFNEPLIQYFHDTFGYDKPLLKLVSFILNSYEIKVNKDNMNFLFWTCMELRLDFEYRSEINKWISNFEQLKLKAQEKFQNIASFYLKCFLCKIQQVSILYLPCGHLILCTKCFQRNTKYCQICQILIEEAHTIY 192 The following BLAST results are available for this feature:
BLAST of SMED30021277 vs. Ensembl Human
Analysis Date: 2016-08-08 (Schmidtea mediterranea smed_20140614 BLASTX Human e!99) Total hits: 0
BLAST of SMED30021277 vs. Ensembl Celegans
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Celegan e!99) Total hits: 0
BLAST of SMED30021277 vs. Ensembl Fly
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Drosophila e!99) Total hits: 0
BLAST of SMED30021277 vs. Ensembl Zebrafish
Analysis Date: 2016-08-08 (Schmidtea mediterranea smed_20140614 BLASTX Zebrafish e!99) Total hits: 0
BLAST of SMED30021277 vs. Ensembl Xenopus
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Xenopus e!99) Total hits: 0
BLAST of SMED30021277 vs. Ensembl Mouse
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Mouse e!99) Total hits: 0
BLAST of SMED30021277 vs. UniProt/SwissProt
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI UniProt) Total hits: 0
BLAST of SMED30021277 vs. TrEMBL
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI TrEMBL) Total hits: 0
BLAST of SMED30021277 vs. Ensembl Cavefish
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Cavefish e!99) Total hits: 0
BLAST of SMED30021277 vs. Ensembl Sea Lamprey
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Sea Lamprey e!99) Total hits: 0
BLAST of SMED30021277 vs. Ensembl Yeast
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Yeast e!Fungi46) Total hits: 0
BLAST of SMED30021277 vs. Ensembl Nematostella
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Nematostella e!Metazoa46) Total hits: 0
BLAST of SMED30021277 vs. Ensembl Medaka
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Medaka e!99) Total hits: 0
BLAST of SMED30021277 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 >SMED30021277 ID=SMED30021277|Name=SMED30021277|organism=Schmidtea mediterranea sexual|type=transcript|length=771bpback to top protein sequence of SMED30021277-orf-1 >SMED30021277-orf-1 ID=SMED30021277-orf-1|Name=SMED30021277-orf-1|organism=Schmidtea mediterranea sexual|type=polypeptide|length=185bp MAHLFEKSYESLSEINYQLSTQHSIENEIFDFLENYEILPLKTVQRIVKSback 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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