SMED30023228
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., 2020SMED30023228 has been reported as being expressed in these anatomical structures and/or regions. Read more about PAGEPAGE Curations: 12
Homology
BLAST of SMED30023228 vs. Planmine SMEST
Match: SMESG000058720.1 (SMESG000058720.1) HSP 1 Score: 574.318 bits (1479), Expect = 0.000e+0 Identity = 311/347 (89.63%), Postives = 314/347 (90.49%), Query Frame = 2 Query: 2 KELINKIGKYERECSECVRLQRKCENCTRKRKANGYDSDEGSSIRNPEIPKKNNLQIETDESNNSVSLDENSCSASENGELISKGLQSSIDIKRRKTTWKCEFCSSTNENNLENCRNCYKVRKNIEELEKKPNIGKELIN----------------------TRKRNANIQIRPEKNPPVPQRNNPSCSNGNKKIEKVSNDDNNYNQWICVGCSKLQRKCEVCSGKIKPNKEDNIQSSPKRKSPIIYRENPRNYSQIPNENNQSKNLLQTRGDNQKQPIVKQSPPIGQTGRSRSPQKLINENKKTNEIYGKCKKCKREKELIHHKKCKSCQSLSYRIKMFLICGA*A 976 KE INKIGKYERECSECVRLQRKCENCTRKRKANGYDSDEGSSIRNPEIPKKNNLQIETDESNNSVSL+ENSCSASENGELISKG QSSIDIKRRKTTWKCEFCSSTNENNLENCRNCYKVR NIEE EKKPNIGKE IN TRKRNANIQIRPEKN PVPQRNNPSCSNGNKKIEKVSNDDNNYNQ ICVGCSKLQRKCEVCSGK PNKEDNIQ+SPKRKSPIIYRENPRNYSQIPNENNQSKNLLQTRGDNQKQPIVKQSPPIGQTGRSRSPQKLINENKKTNEIYGKCKKCKREKELI+HKKCKSCQSL YRIKMFLICGA A Sbjct: 337 KESINKIGKYERECSECVRLQRKCENCTRKRKANGYDSDEGSSIRNPEIPKKNNLQIETDESNNSVSLEENSCSASENGELISKGFQSSIDIKRRKTTWKCEFCSSTNENNLENCRNCYKVRTNIEESEKKPNIGKESINKIGKYERECSECVRLQRKCENCTRKRNANIQIRPEKNHPVPQRNNPSCSNGNKKIEKVSNDDNNYNQLICVGCSKLQRKCEVCSGKRIPNKEDNIQNSPKRKSPIIYRENPRNYSQIPNENNQSKNLLQTRGDNQKQPIVKQSPPIGQTGRSRSPQKLINENKKTNEIYGKCKKCKREKELIYHKKCKSCQSLRYRIKMFLICGASA 683 HSP 2 Score: 150.984 bits (380), Expect = 2.250e-37 Identity = 96/169 (56.80%), Postives = 102/169 (60.36%), Query Frame = 2 Query: 164 LQIETDESNNSVSLDENSCSASENGELISKGLQSSIDIKRRKTTWKCEFCSSTNENNLENCRNCYKVRKNIEELEKKPNIGKELINTRKRNANIQIRPEKNPPVPQRNNPSCSNGNKKIEKVSNDDNNYNQWICVGCSKLQRKCEVCSGKIKPNKEDNIQSSPKRKSPI 670 LQ ETDES S+DENSCSASENGELISKGLQSSIDIKRRKTTWKCEFCSSTNENNLENCRNCYKVR NIEE EKKPNIGKE IN KI K + C C +LQRKCE C+ K K N D+ + S R I Sbjct: 260 LQFETDES----SMDENSCSASENGELISKGLQSSIDIKRRKTTWKCEFCSSTNENNLENCRNCYKVRTNIEESEKKPNIGKESIN-------------------------------KIGKYERE--------CSECVRLQRKCENCTRKRKANGYDSDEGSSIRNPEI 385
BLAST of SMED30023228 vs. Planmine SMEST
Match: SMESG000016978.1 (SMESG000016978.1) HSP 1 Score: 360.147 bits (923), Expect = 3.001e-114 Identity = 176/181 (97.24%), Postives = 177/181 (97.79%), Query Frame = -2 Query: 1914 FLQYLLSTINGQYYRITDNSCVQGICTIYSYNFQRNISGLFLTGIERRPCFRLNCTNCFLKGEWNITYFLTSGILTRDIQYCKADAKNDLLNLFPNSVSTIYGIQCLNYSCTVPVYKTYNSILYVTELIKCNSQSCWNCHTSRFWQQNVTQSKIIERYIHFCNESKTIDVRLAFFNYSQGK 2456 F +LLSTINGQYYRITDNSCVQGICTIYSYN QRNISGLFLTGIERRPCFRLNCTNCFLKGEWNITYFLTSGILTRDIQYCKADAKNDLLNLFPNSVSTIYGIQCLNYSCTVPVYKTYNSILYVTELIKCNSQSCWNCHTSRFWQQNVTQSKIIERYIHFCNESKTIDVRLAFFNYSQ K Sbjct: 6 FAIFLLSTINGQYYRITDNSCVQGICTIYSYNLQRNISGLFLTGIERRPCFRLNCTNCFLKGEWNITYFLTSGILTRDIQYCKADAKNDLLNLFPNSVSTIYGIQCLNYSCTVPVYKTYNSILYVTELIKCNSQSCWNCHTSRFWQQNVTQSKIIERYIHFCNESKTIDVRLAFFNYSQDK 186 HSP 2 Score: 57.3806 bits (137), Expect = 3.726e-8 Identity = 43/160 (26.88%), Postives = 67/160 (41.88%), Query Frame = -2 Query: 1935 DNSCVQGICTIYSYNFQRNISGLFLTGIERRPCFRLNCTNCFLKGEWNITYFLTSGILTRDIQYCKADAKNDLLNLFPNSVSTIYGIQCLNYSCTVPVYKTYNSILYVTELIKCN-SQSCWNCHTSRFWQQN--VTQSKIIERYIHFCNESKTIDVRLAF 2405 D SC G C I+ Y + L + C L+C NC KGEW + L R+ +C + + +FP S ST+ I+C +Y C Y+ S T + +C S C NC W + + ++R + C E + I++ F Sbjct: 194 DISCKYGQCQIFRYQLYFDGVSYSLRKDFQSTCQSLSCYNCIYKGEWTLMESNGHYFLQRNTSFCSMEPTRFINEVFPESYSTVTDIECQHYRCKKTFYQQPPSYQLKTYMEECQMSTICQNCRYVSSWNETNLIRIGFFLKRESYLCPEIEYINIADYF 353
BLAST of SMED30023228 vs. Planmine SMEST
Match: SMESG000017154.1 (SMESG000017154.1) HSP 1 Score: 76.6406 bits (187), Expect = 3.791e-15 Identity = 46/137 (33.58%), Postives = 66/137 (48.18%), Query Frame = -2 Query: 2001 TDNSCVQGICTIYSYNFQRNISGLFLTGIERRPCFRLNCTNCFLKGEWNITYFLTSGILTRDIQYCKADAKNDLLNLFPN-SVSTIYGIQCLNYSCTVPVYKTYNSILYVTELIKCNSQSCWNCHTSRFWQQNVTQS 2408 TD C G C Y ++ SG + + + C +NC NC KG+W + + LTR+ C AD+ + +FP+ S S + I C +Y CT+ Y LY L KC+ SC C+ +WQ N TQS Sbjct: 24 TDIRCANGACYNVVYELYQDSSGYRMNVVTKSDCPPINCNNCVYKGDWTLIASSGAYYLTRNTFLCLADSFRNFTEIFPDPSSSNMVDIACNSYQCTIYHYIIKEPFLYTYNLGKCSDFSCEGCNMCNYWQLNKTQS 160
BLAST of SMED30023228 vs. Planmine SMEST
Match: SMESG000017127.1 (SMESG000017127.1) HSP 1 Score: 59.3066 bits (142), Expect = 2.322e-9 Identity = 55/180 (30.56%), Postives = 82/180 (45.56%), Query Frame = -2 Query: 1926 FLQYLLST--INGQYYRITDNSCVQGICTIYSYNFQRNISGLFLTGIERRPCFRLNCTNCFLKGEWNITYFLTSGILTRDIQYCKADAKNDLLNLFPNSVSTIYGIQCLNYSCTVPVYKTYNSILYVTE-LIKCNSQSCWNCHTSRFWQQNVTQSKIIERYIHFCNESKTIDVRLAFFNY 2456 LQYL+ + IN +Y D SC G C + SY + L ++ + C L+C NC +K +WNI SGIL+R + C + + + +F + T+ IQC N C+ Y +Y Y T L C C +C S W N + +ER ++ C + I FF Y Sbjct: 11 LLQYLIGSKIINKRY----DFSCNYGTCRLVSYQLESIYGRLTVSSSQVGSCSSLSCANCTVKSDWNI----FSGILSRTVVNCLTEQRKFVSEIFTYAAYTMADIQCFNNKCSKYSYSSY--FPYETNYLGSCQDWQCSDCLRSMIWTYNA--NGYLERDVYSCPAASKITAE-DFFIY 177
BLAST of SMED30023228 vs. Planmine SMEST
Match: SMESG000057635.1 (SMESG000057635.1) HSP 1 Score: 58.5362 bits (140), Expect = 4.964e-9 Identity = 41/162 (25.31%), Postives = 71/162 (43.83%), Query Frame = -2 Query: 1935 DNSCVQGICTIYSYNFQRNISGLFLTGIERRPCFRLNCTNCFLKGEWNITYFLTSGILTRDIQYCKADAKNDLLNLFPNSVSTIYGIQCLNYSCTVPVYKT-YNSILY--VTELIKCNSQSCWNCHTSRFWQQNVTQSK--IIERYIHFCNESKTIDVRLAF 2405 D +C+ G C++ Y L PC L+C+ C +KG W+++ L+R + C + + L +FP S + IQC ++C +Y+ +N I++ +T CN +C +C W N T + I R ++C I + F Sbjct: 26 DVTCLNGKCSVIRYKLYFQNQTYSLRSAREFPCVSLSCSGCAVKGHWSLSEISGKYFLSRFTKNCSIENEKHLSEMFPFYDSKVSEIQCYGFTCRKTIYRMQHNKIIFYSLTGNYSCNKIACRSCSYLGRWVLNNTLGRNLTITRSTNYCAAPNMIAMEDYF 187 The following BLAST results are available for this feature:
BLAST of SMED30023228 vs. Ensembl Human
Analysis Date: 2016-08-08 (Schmidtea mediterranea smed_20140614 BLASTX Human e!99) Total hits: 0
BLAST of SMED30023228 vs. Ensembl Celegans
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Celegan e!99) Total hits: 0
BLAST of SMED30023228 vs. Ensembl Fly
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Drosophila e!99) Total hits: 0
BLAST of SMED30023228 vs. Ensembl Zebrafish
Analysis Date: 2016-08-08 (Schmidtea mediterranea smed_20140614 BLASTX Zebrafish e!99) Total hits: 0
BLAST of SMED30023228 vs. Ensembl Xenopus
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Xenopus e!99) Total hits: 0
BLAST of SMED30023228 vs. Ensembl Mouse
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Mouse e!99) Total hits: 0
BLAST of SMED30023228 vs. UniProt/SwissProt
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI UniProt) Total hits: 0
BLAST of SMED30023228 vs. TrEMBL
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI TrEMBL) Total hits: 0
BLAST of SMED30023228 vs. Ensembl Cavefish
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Cavefish e!99) Total hits: 0
BLAST of SMED30023228 vs. Ensembl Sea Lamprey
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Sea Lamprey e!99) Total hits: 0
BLAST of SMED30023228 vs. Ensembl Yeast
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Yeast e!Fungi46) Total hits: 0
BLAST of SMED30023228 vs. Ensembl Nematostella
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Nematostella e!Metazoa46) Total hits: 0
BLAST of SMED30023228 vs. Ensembl Medaka
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Medaka e!99) Total hits: 0
BLAST of SMED30023228 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 >SMED30023228 ID=SMED30023228|Name=SMED30023228|organism=Schmidtea mediterranea sexual|type=transcript|length=3240bpback to top protein sequence of SMED30023228-orf-1 >SMED30023228-orf-1 ID=SMED30023228-orf-1|Name=SMED30023228-orf-1|organism=Schmidtea mediterranea sexual|type=polypeptide|length=324bp KELINKIGKYERECSECVRLQRKCENCTRKRKANGYDSDEGSSIRNPEIPback to top Annotated Terms
The following terms have been associated with this transcript:
|