SMED30016665
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., 2020SMED30016665 has been reported as being expressed in these anatomical structures and/or regions. Read more about PAGEPAGE Curations: 8
Alignments
SMED30016665 aligns in the following genomic locations:
Homology
BLAST of SMED30016665 vs. Planmine SMEST
Match: SMESG000015763.1 (SMESG000015763.1) HSP 1 Score: 396.356 bits (1017), Expect = 1.215e-130 Identity = 187/196 (95.41%), Postives = 190/196 (96.94%), Query Frame = 1 Query: 1366 STKGPLEFDEHEFDYIDNLCVDGENIQPYKMANRSFDHNGLLRIDRNWRFCETDSFDIKSEIKLLEKEFEINQIEPQRRTEAWVSFDSEWENSTFYGIRYRNNNFPSELPSIIVRIPEDYEQSYSADWNLNYNEYQCHPNSEAHLFLETILMSLRNEFSNLSSQSWNIVPFLDIVSIYKRSIQIGLLNYECRKSIV 1953 + K + +HEFDYIDNLCVDGENIQPYKMANRSFDHNGLLRIDRNWRFCETDSFDIKSEIKLLEKEFEINQIEPQRRTEAWVSFDSEWENSTFYGIRYRNNNFPSELPSIIVRIPEDYEQSYSADWNLNYNEYQCHPNSEAHLFLETILMSLRNEFSNLSSQSWNIVPFLDIVSIYKRSIQIGLLNYECRKSIV Sbjct: 327 TLKHVAKIQDHEFDYIDNLCVDGENIQPYKMANRSFDHNGLLRIDRNWRFCETDSFDIKSEIKLLEKEFEINQIEPQRRTEAWVSFDSEWENSTFYGIRYRNNNFPSELPSIIVRIPEDYEQSYSADWNLNYNEYQCHPNSEAHLFLETILMSLRNEFSNLSSQSWNIVPFLDIVSIYKRSIQIGLLNYECRKSIV 522
BLAST of SMED30016665 vs. Planmine SMEST
Match: SMESG000015774.1 (SMESG000015774.1) HSP 1 Score: 396.356 bits (1017), Expect = 1.397e-130 Identity = 187/196 (95.41%), Postives = 190/196 (96.94%), Query Frame = 1 Query: 1366 STKGPLEFDEHEFDYIDNLCVDGENIQPYKMANRSFDHNGLLRIDRNWRFCETDSFDIKSEIKLLEKEFEINQIEPQRRTEAWVSFDSEWENSTFYGIRYRNNNFPSELPSIIVRIPEDYEQSYSADWNLNYNEYQCHPNSEAHLFLETILMSLRNEFSNLSSQSWNIVPFLDIVSIYKRSIQIGLLNYECRKSIV 1953 + K + +HEFDYIDNLCVDGENIQPYKMANRSFDHNGLLRIDRNWRFCETDSFDIKSEIKLLEKEFEINQIEPQRRTEAWVSFDSEWENSTFYGIRYRNNNFPSELPSIIVRIPEDYEQSYSADWNLNYNEYQCHPNSEAHLFLETILMSLRNEFSNLSSQSWNIVPFLDIVSIYKRSIQIGLLNYECRKSIV Sbjct: 327 TLKHVAKIQDHEFDYIDNLCVDGENIQPYKMANRSFDHNGLLRIDRNWRFCETDSFDIKSEIKLLEKEFEINQIEPQRRTEAWVSFDSEWENSTFYGIRYRNNNFPSELPSIIVRIPEDYEQSYSADWNLNYNEYQCHPNSEAHLFLETILMSLRNEFSNLSSQSWNIVPFLDIVSIYKRSIQIGLLNYECRKSIV 522
BLAST of SMED30016665 vs. Planmine SMEST
Match: SMESG000048407.1 (SMESG000048407.1) HSP 1 Score: 127.487 bits (319), Expect = 2.488e-30 Identity = 105/335 (31.34%), Postives = 156/335 (46.57%), Query Frame = 1 Query: 1027 KAEQHVLKHNLNAP------------KQLVPTVQSNEEIFGKRIIPDRSKFAFNAEPLM----ENITVPNN--NNNSLDAAFDDIILKIKKHKPSHRMKVRNGLIKYIKEERKEFFRYLPKYL---------QCENEPMNSTKGPLEFDEHEFDYIDNLCVDGENIQPYKMANRSFDHNGLLRIDRNWRFCETDSFDIKSEIKLLEKEFEINQIEPQRRTEAWVSFDSEWENSTFYGIRYRNNNFPSELPSIIVRIPEDYEQSYSADWNLNYNEYQCHPNSEAHLFLETILMSLRNEFSNLSSQ-SWNIVPFLDIVSIYKRSIQIGLLNYECRKS 1947 KAEQHVL+ N Q+V Q + + D + PL EN+ + N N++SLD AFDD+ K+ +V+ LI + K + ++ +LPK + + +P + PL DE EF +D DG ++ K + D N LL D N+ + D+ E+KLLEKEF++ +IE + ++ W + DS+W +S F+ Y + PS +P I +RI DYE S S DWNLN YQ P + FL + L F+ W+ +P L I+S+YKRSI + NY R S Sbjct: 358 KAEQHVLQKCSNQTTNIHLEKLHPNTSQIVAQSQCRTTVQKPIVNYDEKSMKKSVYPLSNSSNENVDLNNGSINSSSLDIAFDDVCRKLINTDYKVVKRVQQNLIHFFKSRQTQYRHFLPKRVFIDPDDEAAADDTKPKHPKLEPLSVDE-EFGVLDKDEDDGLDLFVNKDSISLIDENRLLHTDLNFACIDMSFCDLAKELKLLEKEFQVTKIEEEHVSKDWFTHDSDWADSQFFSFLYIYKSLPSIVPPIKIRISADYEDSGSTDWNLNLELYQL-PFDD---FLNEVASLLTTNFTEAHHNYQWSGIPVLYIMSLYKRSILLAHENYLNRLS 687
BLAST of SMED30016665 vs. Planmine SMEST
Match: SMESG000048407.1 (SMESG000048407.1) HSP 1 Score: 127.872 bits (320), Expect = 2.626e-30 Identity = 105/335 (31.34%), Postives = 156/335 (46.57%), Query Frame = 1 Query: 1027 KAEQHVLKHNLNAP------------KQLVPTVQSNEEIFGKRIIPDRSKFAFNAEPLM----ENITVPNN--NNNSLDAAFDDIILKIKKHKPSHRMKVRNGLIKYIKEERKEFFRYLPKYL---------QCENEPMNSTKGPLEFDEHEFDYIDNLCVDGENIQPYKMANRSFDHNGLLRIDRNWRFCETDSFDIKSEIKLLEKEFEINQIEPQRRTEAWVSFDSEWENSTFYGIRYRNNNFPSELPSIIVRIPEDYEQSYSADWNLNYNEYQCHPNSEAHLFLETILMSLRNEFSNLSSQ-SWNIVPFLDIVSIYKRSIQIGLLNYECRKS 1947 KAEQHVL+ N Q+V Q + + D + PL EN+ + N N++SLD AFDD+ K+ +V+ LI + K + ++ +LPK + + +P + PL DE EF +D DG ++ K + D N LL D N+ + D+ E+KLLEKEF++ +IE + ++ W + DS+W +S F+ Y + PS +P I +RI DYE S S DWNLN YQ P + FL + L F+ W+ +P L I+S+YKRSI + NY R S Sbjct: 433 KAEQHVLQKCSNQTTNIHLEKLHPNTSQIVAQSQCRTTVQKPIVNYDEKSMKKSVYPLSNSSNENVDLNNGSINSSSLDIAFDDVCRKLINTDYKVVKRVQQNLIHFFKSRQTQYRHFLPKRVFIDPDDEAAADDTKPKHPKLEPLSVDE-EFGVLDKDEDDGLDLFVNKDSISLIDENRLLHTDLNFACIDMSFCDLAKELKLLEKEFQVTKIEEEHVSKDWFTHDSDWADSQFFSFLYIYKSLPSIVPPIKIRISADYEDSGSTDWNLNLELYQL-PFDD---FLNEVASLLTTNFTEAHHNYQWSGIPVLYIMSLYKRSILLAHENYLNRLS 762
BLAST of SMED30016665 vs. Planmine SMEST
Match: SMESG000015798.1 (SMESG000015798.1) HSP 1 Score: 93.2041 bits (230), Expect = 3.314e-21 Identity = 65/199 (32.66%), Postives = 100/199 (50.25%), Query Frame = 1 Query: 1366 STKGPLEFDEHEFDYIDNLCVDGE---NIQPYKMANRSFDHNGLLRID--RNWRFCETDSFDIKSEIKLLEKEFEINQIEPQRRTEAWVSFDSEWENSTFYGIRYRNNNFPSELPSIIVRIPEDYEQSYSADWNLNYNEYQCHPNSEAHLFLETI------LMSLRNEFSNLSSQSWNIVPFLDIVSIYKRSIQIGLLN 1929 S K E+ E EFD++D + I P+ + +G L+ D +W+ +++ + LE EFEI +I PQ E W F+S WENS FY I+Y+++ P+++ I +RI E+YE+S D+NLN EY SEA FL +I ++L++ S L I+ YK+S+Q L N Sbjct: 23 SRKPVKEYVEREFDFLDPEDDGDDDENKIVPFSGVKNRYFKDGKLKSDDFTDWKSYVIHLLEVQDIFENLESEFEITEIGPQLEPEDWTKFESNWENSRFYRIKYKHDKLPTDIIPITIRISENYERSQMVDFNLNLKEYPKKIVSEADEFLSSIKDAYLSCLTLKDGLS-----------LLAILGKYKQSVQAALGN 210 The following BLAST results are available for this feature:
BLAST of SMED30016665 vs. Ensembl Human
Analysis Date: 2016-08-08 (Schmidtea mediterranea smed_20140614 BLASTX Human e!99) Total hits: 0
BLAST of SMED30016665 vs. Ensembl Celegans
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Celegan e!99) Total hits: 0
BLAST of SMED30016665 vs. Ensembl Fly
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Drosophila e!99) Total hits: 0
BLAST of SMED30016665 vs. Ensembl Zebrafish
Analysis Date: 2016-08-08 (Schmidtea mediterranea smed_20140614 BLASTX Zebrafish e!99) Total hits: 0
BLAST of SMED30016665 vs. Ensembl Xenopus
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Xenopus e!99) Total hits: 0
BLAST of SMED30016665 vs. Ensembl Mouse
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Mouse e!99) Total hits: 0
BLAST of SMED30016665 vs. UniProt/SwissProt
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI UniProt) Total hits: 0
BLAST of SMED30016665 vs. TrEMBL
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI TrEMBL) Total hits: 0
BLAST of SMED30016665 vs. Ensembl Cavefish
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Cavefish e!99) Total hits: 0
BLAST of SMED30016665 vs. Ensembl Sea Lamprey
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Sea Lamprey e!99) Total hits: 0
BLAST of SMED30016665 vs. Ensembl Yeast
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Yeast e!Fungi46) Total hits: 0
BLAST of SMED30016665 vs. Ensembl Nematostella
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Nematostella e!Metazoa46) Total hits: 0
BLAST of SMED30016665 vs. Ensembl Medaka
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Medaka e!99) Total hits: 0
BLAST of SMED30016665 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 >SMED30016665 ID=SMED30016665|Name=SMED30016665|organism=Schmidtea mediterranea sexual|type=transcript|length=2065bpback to top protein sequence of SMED30016665-orf-1 >SMED30016665-orf-1 ID=SMED30016665-orf-1|Name=SMED30016665-orf-1|organism=Schmidtea mediterranea sexual|type=polypeptide|length=264bp MENITVPNNNNNSLDAAFDDIILKIKKHKPSHRMKVRNGLIKYIKEERKEback to top Annotated Terms
The following terms have been associated with this transcript:
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