SMED30018563
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., 2020SMED30018563 has been reported as being expressed in these anatomical structures and/or regions. Read more about PAGEPAGE Curations: 8
Alignments
SMED30018563 aligns in the following genomic locations:
Homology
BLAST of SMED30018563 vs. Planmine SMEST
Match: SMESG000057635.1 (SMESG000057635.1) HSP 1 Score: 491.115 bits (1263), Expect = 4.416e-176 Identity = 248/248 (100.00%), Postives = 248/248 (100.00%), Query Frame = 1 Query: 229 MQXXXXXXXXXIVFVTESLFIDERNDVTCLNGKCSVIRYKLYFQNQTYSLRSAREFPCVSLSCSGCAVKGHWSLSEISGKYFLSRFTKNCSIENEKHLSEMFPFYDSKVSEIQCYGFTCRKTIYRMQHNKIIFYSLTGNYSCNKIACRSCSYLGRWVLNNTLGRNLTITRSTNYCAAPNMIAMEDYFSLGGTKAVKAKKEIMWKSIVIGITLTLVAVFGLTFVQFFIRKNSQNGKYTNFNNESQPESI 972 MQLFRLLFLFFIVFVTESLFIDERNDVTCLNGKCSVIRYKLYFQNQTYSLRSAREFPCVSLSCSGCAVKGHWSLSEISGKYFLSRFTKNCSIENEKHLSEMFPFYDSKVSEIQCYGFTCRKTIYRMQHNKIIFYSLTGNYSCNKIACRSCSYLGRWVLNNTLGRNLTITRSTNYCAAPNMIAMEDYFSLGGTKAVKAKKEIMWKSIVIGITLTLVAVFGLTFVQFFIRKNSQNGKYTNFNNESQPESI Sbjct: 1 MQLFRLLFLFFIVFVTESLFIDERNDVTCLNGKCSVIRYKLYFQNQTYSLRSAREFPCVSLSCSGCAVKGHWSLSEISGKYFLSRFTKNCSIENEKHLSEMFPFYDSKVSEIQCYGFTCRKTIYRMQHNKIIFYSLTGNYSCNKIACRSCSYLGRWVLNNTLGRNLTITRSTNYCAAPNMIAMEDYFSLGGTKAVKAKKEIMWKSIVIGITLTLVAVFGLTFVQFFIRKNSQNGKYTNFNNESQPESI 248
BLAST of SMED30018563 vs. Planmine SMEST
Match: SMESG000017240.1 (SMESG000017240.1) HSP 1 Score: 115.931 bits (289), Expect = 4.934e-30 Identity = 71/215 (33.02%), Postives = 105/215 (48.84%), Query Frame = 1 Query: 286 FIDERNDVTCLNGKCSVIRYKLYFQNQTYSLRSAREFPCVSLSCSGCAVKGHWSLSEISGKYFLSRFTKNCSIENEKHLSEMFPFYDSKVSEIQCYGFTCRKTIYRMQHNKIIFYSLTGNYSCNKIACRSCSYLGRWVLNNTLGRNLTITRSTNYCAAPNMIAMEDYFSLGGTKAVKAKKEIMWKSIVIGITLTLVAVFGLTFVQFFIRKNSQNG 930 I+ERNDV+C GKCS+IRY++ Y L S C C CA K WSL +I G ++ R T +C EN K E+FP SKV +I+C ++C K IY+++ N + +T C+ C+ C + +W G + +TR T C A + I + DYF + + + K + +GI + V FVQ R N + G Sbjct: 17 IINERNDVSCNKGKCSIIRYQISGAKSNYELSSRLISSCDPTKCKNCAHKSDWSLLKIQGVSYVVRNTNSCLSENAKEPKEIFPRKYSKVLDIRCNSYSCWKDIYQVRTN---YMKITPQGPCSDDYCKKCYFSDKWNFTKFAGSPI-LTRKTTLCEASSKIKITDYFLITRPRIKRKVKTGAIIGVSVGIATGIAIV---AFVQILKRCNRERG 224
BLAST of SMED30018563 vs. Planmine SMEST
Match: SMESG000017240.1 (SMESG000017240.1) HSP 1 Score: 115.931 bits (289), Expect = 6.411e-30 Identity = 71/215 (33.02%), Postives = 105/215 (48.84%), Query Frame = 1 Query: 286 FIDERNDVTCLNGKCSVIRYKLYFQNQTYSLRSAREFPCVSLSCSGCAVKGHWSLSEISGKYFLSRFTKNCSIENEKHLSEMFPFYDSKVSEIQCYGFTCRKTIYRMQHNKIIFYSLTGNYSCNKIACRSCSYLGRWVLNNTLGRNLTITRSTNYCAAPNMIAMEDYFSLGGTKAVKAKKEIMWKSIVIGITLTLVAVFGLTFVQFFIRKNSQNG 930 I+ERNDV+C GKCS+IRY++ Y L S C C CA K WSL +I G ++ R T +C EN K E+FP SKV +I+C ++C K IY+++ N + +T C+ C+ C + +W G + +TR T C A + I + DYF + + + K + +GI + V FVQ R N + G Sbjct: 26 IINERNDVSCNKGKCSIIRYQISGAKSNYELSSRLISSCDPTKCKNCAHKSDWSLLKIQGVSYVVRNTNSCLSENAKEPKEIFPRKYSKVLDIRCNSYSCWKDIYQVRTN---YMKITPQGPCSDDYCKKCYFSDKWNFTKFAGSPI-LTRKTTLCEASSKIKITDYFLITRPRIKRKVKTGAIIGVSVGIATGIAIV---AFVQILKRCNRERG 233
BLAST of SMED30018563 vs. Planmine SMEST
Match: SMESG000017134.1 (SMESG000017134.1) HSP 1 Score: 113.62 bits (283), Expect = 4.012e-29 Identity = 73/215 (33.95%), Postives = 111/215 (51.63%), Query Frame = 1 Query: 289 IDERNDVTCLNGKCSVIRYKLYFQNQTYSLRSAREFPCVSLSCSGCAVKGHWSLSEISGKYFLSRFTKNCSIENEKHLSEMFPFYDSKVSEIQCYGFTCRKTIYRMQHNKIIFYSLTGNYSCNKIACRSCSYLGRWVLNNTLGRNLTITRSTNYCAAPNMIAMEDYFSLGGTKAVKAK---KEIMW---KSIVIGITLTLVAVFGLTFVQFFIRK 915 I+ERNDVTCL G C I+Y+L + +YS+R C S C C+ K +WS+ + YFL R T NC ENE++ +++FP S V ++ C TC K Y N + F G SCN C++C +W L + R L + R T C+ P I MEDYF + ++ + + + W +++ + I+ LV +TFV F ++ Sbjct: 20 INERNDVTCLFGYCQRIKYQLLQEISSYSIRPTFIANCDSRVCENCSYKSNWSMGMSNEGYFLVRSTSNCHAENERNSADIFPSNSSSVLDLVCVENTCSKFNYSFT-NGVFFSENLG--SCNISGCQNCVTSTKWNLKSFSSR-LILVRQTESCSLPTFIKMEDYFVIQKFNSLTIQISIQNVRWDVVQTLAVTISCLLVFCLCITFVILFRKR 230
BLAST of SMED30018563 vs. Planmine SMEST
Match: SMESG000017162.1 (SMESG000017162.1) HSP 1 Score: 112.079 bits (279), Expect = 1.438e-28 Identity = 68/211 (32.23%), Postives = 112/211 (53.08%), Query Frame = 1 Query: 268 FVTESLFIDERNDVTCLNGKCSVIRYKLYFQNQTYSLRSAREFPCVSLSCSGCAVKGHWSLSEISGKYFLSRFTKNCSIENEKHLSEMFPFYDSKVSEIQCYGFTCRKTIYRMQHNKIIFYSLTGNYSCNKIACRSCSYLGRWVLNNTLGRNLTITRSTNYCAAPNMIAMEDYFSLGGTKAVKAKKEIMWK-SIVIGITLTLVAVFGLTFV 897 F +FIDERND++C G CSV Y+LY L S+ + C S SC GC +K +W+L +G+Y+++R T NC E K ++ MFP S S+I C C K Y++ + + I SL G C C+ C+ L W + + + +L RS++ C+A + I MED+F + + + + W S+++ + ++ ++ L V Sbjct: 13 FCQAKIFIDERNDISCNFGNCSVYAYQLYQNGNGSLLVSSFKSSCDSKSCDGCTIKSNWALIWKNGRYYMTRITSNCQAEKSKFINYMFPSPKSSFSDISCDFGKCVKYKYKISNTRFI-TSLIG--PCENSNCKKCNDLSYWEIESVIIPSL--VRSSSRCSAFDEILMEDFFIVPAS----STESSFWNTSVIVAVIISCLSFVTLVIV 214 The following BLAST results are available for this feature:
BLAST of SMED30018563 vs. Ensembl Human
Analysis Date: 2016-08-08 (Schmidtea mediterranea smed_20140614 BLASTX Human e!99) Total hits: 0
BLAST of SMED30018563 vs. Ensembl Celegans
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Celegan e!99) Total hits: 0
BLAST of SMED30018563 vs. Ensembl Fly
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Drosophila e!99) Total hits: 0
BLAST of SMED30018563 vs. Ensembl Zebrafish
Analysis Date: 2016-08-08 (Schmidtea mediterranea smed_20140614 BLASTX Zebrafish e!99) Total hits: 0
BLAST of SMED30018563 vs. Ensembl Xenopus
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Xenopus e!99) Total hits: 0
BLAST of SMED30018563 vs. Ensembl Mouse
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Mouse e!99) Total hits: 0
BLAST of SMED30018563 vs. UniProt/SwissProt
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI UniProt) Total hits: 0
BLAST of SMED30018563 vs. TrEMBL
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI TrEMBL) Total hits: 0
BLAST of SMED30018563 vs. Ensembl Cavefish
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Cavefish e!99) Total hits: 0
BLAST of SMED30018563 vs. Ensembl Sea Lamprey
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Sea Lamprey e!99) Total hits: 0
BLAST of SMED30018563 vs. Ensembl Yeast
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Yeast e!Fungi46) Total hits: 0
BLAST of SMED30018563 vs. Ensembl Nematostella
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Nematostella e!Metazoa46) Total hits: 0
BLAST of SMED30018563 vs. Ensembl Medaka
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Medaka e!99) Total hits: 0
BLAST of SMED30018563 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 >SMED30018563 ID=SMED30018563|Name=SMED30018563|organism=Schmidtea mediterranea sexual|type=transcript|length=1211bpback to top protein sequence of SMED30018563-orf-1 >SMED30018563-orf-1 ID=SMED30018563-orf-1|Name=SMED30018563-orf-1|organism=Schmidtea mediterranea sexual|type=polypeptide|length=249bp MQLFRLLFLFFIVFVTESLFIDERNDVTCLNGKCSVIRYKLYFQNQTYSLback 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
|