SMED30034594
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., 2020SMED30034594 has been reported as being expressed in these anatomical structures and/or regions. Read more about PAGEPAGE Curations: 20Note: Hover over icons to view figure legend
Alignments
SMED30034594 aligns in the following genomic locations:
Homology
BLAST of SMED30034594 vs. Ensembl Fly
Match: dnr1 (gene:FBgn0260866 transcript:FBtr0071837) HSP 1 Score: 53.9138 bits (128), Expect = 1.993e-7 Identity = 24/52 (46.15%), Postives = 34/52 (65.38%), Query Frame = 2 Query: 1196 NDSIQCNICMDRSIDTVLN-CGHTF-CLNCANEFHKCPNCNLDVSSYTKIFL 1345 ++++QC ICMDR+I+TV N C H C CA CPNC + ++S KI+L Sbjct: 543 SEAMQCKICMDRAINTVFNPCCHVIACAQCAARCSNCPNCRVKITSVVKIYL 594
BLAST of SMED30034594 vs. Ensembl Fly
Match: dnr1 (gene:FBgn0260866 transcript:FBtr0330229) HSP 1 Score: 53.9138 bits (128), Expect = 2.088e-7 Identity = 24/52 (46.15%), Postives = 34/52 (65.38%), Query Frame = 2 Query: 1196 NDSIQCNICMDRSIDTVLN-CGHTF-CLNCANEFHKCPNCNLDVSSYTKIFL 1345 ++++QC ICMDR+I+TV N C H C CA CPNC + ++S KI+L Sbjct: 543 SEAMQCKICMDRAINTVFNPCCHVIACAQCAARCSNCPNCRVKITSVVKIYL 594
BLAST of SMED30034594 vs. Planmine SMEST
Match: SMESG000007087.1 (SMESG000007087.1) HSP 1 Score: 521.161 bits (1341), Expect = 8.403e-170 Identity = 274/278 (98.56%), Postives = 276/278 (99.28%), Query Frame = 2 Query: 512 NYELIIKMLLANEGDVNKLNTNQESIFDIANNLRNESFVNVMLDHCKQPLELSVTKSFEMILSNLVESENWDLLSQIIDHARVDEISNKYLMSLSISVLKKQKTTELFGKIMSLCLDKNIIFCGGETFVTALIKSGIHSSTMVSILARKLFDINKTNLGNETPLVLACEGXXXXXXXXXXXXNCDLKRYRHEAIESAVLAKLKAKNENNHLKVDLGSQIIKLLSETIDNDSIQCNICMDRSIDTVLNCGHTFCLNCANEFHKCPNCNLDVSSYTKIFL 1345 NYELIIKMLLANEGDVNKLNTNQ+SIFDIANNLRNESFVNVMLDHCKQPLELSVTKSFEMILSNLVESENWDLLSQIID+ARVDEISNKYLMSLSISVLKKQKT ELF KIMSLCLDKNIIFCGGETFVTALIKSGIHSSTMVSILARKLFDINKTNLGNETPLVLACEGLLLDVVKVLVALNCDLKRYRHEAIESAVLAKLKAKNENNHLKVDLGSQIIKLLSETIDNDSIQCNICMDRSIDTVLNCGHTFCLNCANEFHKCPNCNLDVSSYTKIFL Sbjct: 1488 NYELIIKMLLANEGDVNKLNTNQDSIFDIANNLRNESFVNVMLDHCKQPLELSVTKSFEMILSNLVESENWDLLSQIIDNARVDEISNKYLMSLSISVLKKQKTAELFDKIMSLCLDKNIIFCGGETFVTALIKSGIHSSTMVSILARKLFDINKTNLGNETPLVLACEGLLLDVVKVLVALNCDLKRYRHEAIESAVLAKLKAKNENNHLKVDLGSQIIKLLSETIDNDSIQCNICMDRSIDTVLNCGHTFCLNCANEFHKCPNCNLDVSSYTKIFL 1765
BLAST of SMED30034594 vs. Planmine SMEST
Match: SMESG000074227.1 (SMESG000074227.1) HSP 1 Score: 440.269 bits (1131), Expect = 1.831e-147 Identity = 235/283 (83.04%), Postives = 252/283 (89.05%), Query Frame = 2 Query: 497 PPQNFNYELIIKMLLANEGDVNKLNTNQESIFDIANNLRNESFVNVMLDHCKQPLELSVTKSFEMILSNLVESENWDLLSQIIDHARVDEISNKYLMSLSISVLKKQKTTELFGKIMSLCLDKNIIFCGGETFVTALIKSGIHSSTMVSILARKLFDINKTNLGNETPLVLACEGXXXXXXXXXXXXNCDLKRYRHEAIESAVLAKLKAKNENNHLKVDLGSQIIKLLSETIDNDSIQCNICMDRSIDTVLNCGHTFCLNCANEFHKCPNCNLDVSSYTKIFL 1345 P + NYE IIKMLL NEGDVNKLN NQESIFDIAN L+NESFVNVMLDHC QPL+LSVTKSFE+ILSNLVESENW+LLSQII HA VDEISNKYL+SLSISVLKKQ TTELF KIMSLCL KNII CGGET VTA+IKSGI SSTMVSIL RK+FD NKTNL NE PL+LAC+ LL DVV VLVALNCDLKRYRHEAIESAVLAKL+AKNENNHLKV+ GS+IIKLLSETIDNDSIQC ICMDRS DTVLNCGHTFCLNC NE +KCPNC D+S+ +KIFL Sbjct: 516 PIEIENYESIIKMLLTNEGDVNKLNQNQESIFDIANTLKNESFVNVMLDHCNQPLKLSVTKSFEVILSNLVESENWNLLSQIIGHAHVDEISNKYLISLSISVLKKQNTTELFDKIMSLCLYKNIILCGGETVVTAVIKSGIPSSTMVSILERKIFDTNKTNLENEAPLILACKFLLFDVVNVLVALNCDLKRYRHEAIESAVLAKLEAKNENNHLKVEFGSEIIKLLSETIDNDSIQCQICMDRSKDTVLNCGHTFCLNCVNELYKCPNCFSDISTSSKIFL 798
BLAST of SMED30034594 vs. Planmine SMEST
Match: SMESG000074227.1 (SMESG000074227.1) HSP 1 Score: 439.884 bits (1130), Expect = 4.735e-147 Identity = 235/283 (83.04%), Postives = 252/283 (89.05%), Query Frame = 2 Query: 497 PPQNFNYELIIKMLLANEGDVNKLNTNQESIFDIANNLRNESFVNVMLDHCKQPLELSVTKSFEMILSNLVESENWDLLSQIIDHARVDEISNKYLMSLSISVLKKQKTTELFGKIMSLCLDKNIIFCGGETFVTALIKSGIHSSTMVSILARKLFDINKTNLGNETPLVLACEGXXXXXXXXXXXXNCDLKRYRHEAIESAVLAKLKAKNENNHLKVDLGSQIIKLLSETIDNDSIQCNICMDRSIDTVLNCGHTFCLNCANEFHKCPNCNLDVSSYTKIFL 1345 P + NYE IIKMLL NEGDVNKLN NQESIFDIAN L+NESFVNVMLDHC QPL+LSVTKSFE+ILSNLVESENW+LLSQII HA VDEISNKYL+SLSISVLKKQ TTELF KIMSLCL KNII CGGET VTA+IKSGI SSTMVSIL RK+FD NKTNL NE PL+LAC+ LL DVV VLVALNCDLKRYRHEAIESAVLAKL+AKNENNHLKV+ GS+IIKLLSETIDNDSIQC ICMDRS DTVLNCGHTFCLNC NE +KCPNC D+S+ +KIFL Sbjct: 539 PIEIENYESIIKMLLTNEGDVNKLNQNQESIFDIANTLKNESFVNVMLDHCNQPLKLSVTKSFEVILSNLVESENWNLLSQIIGHAHVDEISNKYLISLSISVLKKQNTTELFDKIMSLCLYKNIILCGGETVVTAVIKSGIPSSTMVSILERKIFDTNKTNLENEAPLILACKFLLFDVVNVLVALNCDLKRYRHEAIESAVLAKLEAKNENNHLKVEFGSEIIKLLSETIDNDSIQCQICMDRSKDTVLNCGHTFCLNCVNELYKCPNCFSDISTSSKIFL 821
BLAST of SMED30034594 vs. Planmine SMEST
Match: SMESG000007100.1 (SMESG000007100.1) HSP 1 Score: 323.939 bits (829), Expect = 8.933e-106 Identity = 174/278 (62.59%), Postives = 217/278 (78.06%), Query Frame = 2 Query: 515 YELIIKMLLANEGDVNKLNTNQESIFDIANNLRNESFVNVMLDHCKQPLELSVTKSFEMILSNLVESENWDLLSQIIDHARVDEISNKYLMSLSISVLKKQKTTELFGKIMSLCLDKNIIFCGGETFVTALIKSGIHSSTMVSILARKLFDINKTNLGNETPLVLACEGXXXXXXXXXXXXNCDLKRYRHEAIESAVLAKLKAKNENNHLKVDLGSQIIKLLSETIDNDSIQ-CNICMDRSIDTVLNCGHTFCLNCANEFHKCPNCNLDVSSYTKIFL 1345 YE IIKMLL NEG+VN L+ N ESIFDIA LRNE+F+ +MLDHCKQ LELSVTKS E+ILSNLV+SENWDLL Q+ID+A+VDEISN+YL+ L ISVL+K+ T ELF +I+S+C DKN I GETFVTAL+KS I+ +TMVSIL RKLFDINK NL + PL+LACE LL VV L+ LNCDLK ++ +AIES VLAK KA+ +N+H+K GS+II+LLSE++D + C ICMDR+ DT LNCGHT C C+++ CP C+L + + +IFL Sbjct: 229 YESIIKMLLENEGNVNHLDENNESIFDIARKLRNENFIYLMLDHCKQRLELSVTKSMEIILSNLVDSENWDLLFQVIDNAKVDEISNEYLLFLCISVLRKRNTLELFDEIISICTDKNAILHNGETFVTALLKSDINPATMVSILNRKLFDINKANLHKQVPLILACENLLFVVVNALLKLNCDLKYHKSQAIESVVLAKSKAELQNDHVKAKKGSEIIELLSESVDFKELHLCQICMDRNKDTALNCGHTLCSICSDKLSVCPFCSLAIVNSLRIFL 506
BLAST of SMED30034594 vs. Planmine SMEST
Match: SMESG000007103.1 (SMESG000007103.1) HSP 1 Score: 87.8113 bits (216), Expect = 3.890e-18 Identity = 64/192 (33.33%), Postives = 110/192 (57.29%), Query Frame = 2 Query: 545 NEGDVNKLNTNQESIFDIANNLRNESFVNVMLDHCKQPLELSVTKSFEMILSNLVESENWDLLSQIIDHARVDEISNKYLMSLSISVLKKQKTTELFGKIMSLCLDKNIIFCGGETFVTALIKSGIHSSTMVSILARKLFDINKTNLGNETPLVLACEGXXXXXXXXXXXXNCDLKRYRHEAIESAVLAKLK 1120 +EGD+ K N S +A ++++ + N++L+ C + +EL + L +V + D+LS +D + + ++L+ L + LK QK+ +++ I+ C K+II GETF+T L+K+ S + I+ K FDINK NL NE+ L++ACE L ++VK LV CD+ + A+++ + AKLK Sbjct: 29 HEGDIIKTNAMNNSALSLAYKIKDKKYYNLLLN-CFKSIELLSDEFGRNFLRQIV-IDKADVLSNTLDKCLIKDCHTEFLLDLGLMALK-QKSNDIYKNILDHCKTKDIILKNGETFLTNLVKNKEDISIITDIVTSKYFDINKVNLRNESILMIACEQLNENIVKFLVRSGCDVTYNSYGAVQATINAKLK 217 HSP 2 Score: 73.9442 bits (180), Expect = 9.108e-14 Identity = 58/222 (26.13%), Postives = 116/222 (52.25%), Query Frame = 2 Query: 491 CYPPQNFNYEL-IIKMLLANEGDVNKLNTNQESIFDIANNLRNESFVNVMLDHCKQPLELSVTKSFEMILSNLVESENWDLLSQIIDHARVDEISNKYLMSLSISVLKKQKTTELFGKIMSLCLDKNIIFCGGETFVTALIKSGIHSSTMVSILARKLFDINKTNLGNETPLVLACEGXXXXXXXXXXXXNCDLKRYRHEAIESAVLAKLKAKNENNHLKVD 1153 Y P + L ++KML+ ++G++ N + + + + +++S+ + +L+ C L++ +S +L L L I+ + SN+ L+ L++ VLK E + KI+ +C++ + IF GETF+++L K+ + S + S++ LFD KTN E L+LAC L+ V+ +L+ C++ + A+ ++ K+E + LK++ Sbjct: 280 AYHPHKEQFVLDLLKMLIDSKGNLILENAQKVNFLSKSYDYQDKSYFSQLLERCPGNLQILSNESGIKLLFKLSSETKLKALEFILSKIEMAGNSNENLLKLAVQVLK-NGGIETYNKIIKMCIEFDAIFDDGETFISSLFKNNVKESIIKSVIESGLFDAKKTNNKAENALMLACSRLMTTVIPILLNQGCEIAYSGYNAVIMTIVGNQTLKSEESKLKMN 500 The following BLAST results are available for this feature:
BLAST of SMED30034594 vs. Ensembl Human
Analysis Date: 2016-08-08 (Schmidtea mediterranea smed_20140614 BLASTX Human e!99) Total hits: 0
BLAST of SMED30034594 vs. Ensembl Celegans
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Celegan e!99) Total hits: 0
BLAST of SMED30034594 vs. Ensembl Fly
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Drosophila e!99) Total hits: 2
BLAST of SMED30034594 vs. Ensembl Zebrafish
Analysis Date: 2016-08-08 (Schmidtea mediterranea smed_20140614 BLASTX Zebrafish e!99) Total hits: 0
BLAST of SMED30034594 vs. Ensembl Xenopus
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Xenopus e!99) Total hits: 0
BLAST of SMED30034594 vs. Ensembl Mouse
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Mouse e!99) Total hits: 0
BLAST of SMED30034594 vs. UniProt/SwissProt
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI UniProt) Total hits: 0
BLAST of SMED30034594 vs. TrEMBL
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI TrEMBL) Total hits: 0
BLAST of SMED30034594 vs. Ensembl Cavefish
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Cavefish e!99) Total hits: 0
BLAST of SMED30034594 vs. Ensembl Sea Lamprey
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Sea Lamprey e!99) Total hits: 0
BLAST of SMED30034594 vs. Ensembl Yeast
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Yeast e!Fungi46) Total hits: 0
BLAST of SMED30034594 vs. Ensembl Nematostella
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Nematostella e!Metazoa46) Total hits: 0
BLAST of SMED30034594 vs. Ensembl Medaka
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Medaka e!99) Total hits: 0
BLAST of SMED30034594 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 >SMED30034594 ID=SMED30034594|Name=SMED30034594|organism=Schmidtea mediterranea sexual|type=transcript|length=1372bpback to top protein sequence of SMED30034594-orf-1 >SMED30034594-orf-1 ID=SMED30034594-orf-1|Name=SMED30034594-orf-1|organism=Schmidtea mediterranea sexual|type=polypeptide|length=272bp MLLANEGDVNKLNTNQESIFDIANNLRNESFVNVMLDHCKQPLELSVTKSback 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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