SMED30028277
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., 2020SMED30028277 has been reported as being expressed in these anatomical structures and/or regions. Read more about PAGEPAGE Curations: 2
Homology
BLAST of SMED30028277 vs. Planmine SMEST
Match: SMESG000050296.1 (SMESG000050296.1) HSP 1 Score: 746.888 bits (1927), Expect = 0.000e+0 Identity = 389/393 (98.98%), Postives = 391/393 (99.49%), Query Frame = -2 Query: 32 MVIFKYNNFNVKETSERICGCLKCEGVFMTLIMELDQSQIVVQCNNAKNNIINFTSSFIWPEQFYGYPIPRQINISNKIFVWMGNIGPYNGYKDVIYMEMKNQLVGCIHEIFFFDERVVIPNVKKSLFAVQCTKNTKYNKCHAFKYNQINNTYYTFLANVSLLPGQLYTMDSKKLDLYGFPIGINLITNNWDFKQNSCLLEILFKKKISVLFFINESQDIEILTIKHRIFGCFRHLSNSKIQKFQNFFIDFRKNQLVIHIQNNGTVESFLEEILFLPSEIKVGSFHREKICTYSNKTINFNYRNQIMSVSAVTPTWVLIEVDKLXXXXXXXXXXXXXXXXXXXXXFNQKSVEQNCIPDRIIPHVGTESRHHSIMECTNISTPLYNFEIYDEIQ 1210 MVIFKYNNFNVKETSERICGCLKCEGVFMTLIMELDQSQIVVQCNNAKNNIINFTSSFIWPEQFYGYPIPRQINISNKIFVWMGNIGPYNGYKDVIYMEMKNQLVGCIHEIFFFDERVVIPNVKKSLFAVQCTKNTKYNKCHAFKYNQINNTYYTFLANVSLLPGQLYTMDSKKLDLYGFPIGINLITNNWDFKQNSCLLEILFKKKISVLFFINESQDIEILTIKHRIFGCFRHLSNSKIQKFQNFFIDFRKNQLVIHIQNNGTVESFLEEILFLPSEIKVGSFHREKICTYSNKTINFNYRNQIMSVSAVTPTWVLIEVDKLLILTFSIVIVISIII+ITIWAFNQKSV QNCIPDR IPHVGTESRHHS+MECTNISTPLYNFEIYDEIQ Sbjct: 1 MVIFKYNNFNVKETSERICGCLKCEGVFMTLIMELDQSQIVVQCNNAKNNIINFTSSFIWPEQFYGYPIPRQINISNKIFVWMGNIGPYNGYKDVIYMEMKNQLVGCIHEIFFFDERVVIPNVKKSLFAVQCTKNTKYNKCHAFKYNQINNTYYTFLANVSLLPGQLYTMDSKKLDLYGFPIGINLITNNWDFKQNSCLLEILFKKKISVLFFINESQDIEILTIKHRIFGCFRHLSNSKIQKFQNFFIDFRKNQLVIHIQNNGTVESFLEEILFLPSEIKVGSFHREKICTYSNKTINFNYRNQIMSVSAVTPTWVLIEVDKLLILTFSIVIVISIIISITIWAFNQKSVGQNCIPDRSIPHVGTESRHHSVMECTNISTPLYNFEIYDEIQ 393
BLAST of SMED30028277 vs. Planmine SMEST
Match: SMESG000050299.1 (SMESG000050299.1) HSP 1 Score: 177.948 bits (450), Expect = 1.418e-49 Identity = 117/397 (29.47%), Postives = 199/397 (50.13%), Query Frame = -2 Query: 257 SVNYVHFEIDGILNRKYQFNLTIFIQDFKGIVIYAIDSKKNRFLVELEEENDRKMVIFKYNNFNVKETSERICGCLKCEGVFMTLIMELDQSQIVVQCNNAKNN--IINFTSSFIWPEQFYGYPIPRQINISNKI-FVWMGNIGPYNGYKDVIYMEMKNQLVGCIHEIFFFDERVVIPNVKKSLFAVQCTK-----------NTKYNKCHAFKYNQIN--NTYYTFLANVSLLPGQLYTMDSKKLDLYGFPIGINLITNNWDFK---QNSCLLEILFKKKISVLFFINESQDIEILTI-KHRIFGCFRHLSNSKIQKFQNFFIDFRKNQLVIHIQNNGTVESFLEEILFLPSEIKVGSFHREKICTYSNKTINFNYR-----NQIMSVSAVTPTWVL 1372 S NY+H E+DG L + N ++F++ FKGIV Y ID + N+ L+ELEEE D K ++FK+NN + E S +CGC KC V+MT I++LD+SQI V+CNN + S + P+QF YP+P N K+ +++MGNIGPY G + Y+ + NQL+GC+ + F+F+ +++ + F C TK+ + I+ NT Y + N+S+ T + L G I L +W QN CL+EI +++F++ +Q + + + K+ F + L +F + + ++ + + + +F++++ P I +G + IC ++F Y+ N++ S ++ PT L Sbjct: 20 STNYIHLELDGDLISQETTNFSLFVKHFKGIVFYGID-RSNKVLIELEEEKDEKRILFKFNNILINEKSRNLCGCPKCSDVYMTFILQLDRSQIAVKCNNQTQTLQVDRSKSKILKPDQFDNYPVPNMYNREKKVTYIFMGNIGPYKGPNYMEYLPLYNQLIGCLDK-FYFNGKLIRVTSNSTKFKSFCLTEYIETVHSENFTTKFTVSYDIPDCSISSLNTRYC-IRNLSIFN---LTTSNTPLKFAGKHFFIRL---DWIVSIRYQNLCLMEIFLNDGSAIIFYVENAQSLVVQKVYKNGTFSLSKILETLDTNSTYTMIANFTETKFIVRLSSKEDISTFIQQLNNPPVSINIGISRTQSICKTFEGFMDFQYKILYSPNKMSSTPSLKPTTAL 407
BLAST of SMED30028277 vs. Planmine SMEST
Match: SMESG000050280.1 (SMESG000050280.1) HSP 1 Score: 132.88 bits (333), Expect = 1.529e-33 Identity = 104/358 (29.05%), Postives = 167/358 (46.65%), Query Frame = -2 Query: 338 SVNYVHFEIDGILNRKYQFNLTIFIQDFKGIVIYAIDSKKNRFLVELEEENDRKMVIFKYNNFNVKETSERICGCLKCEGVFMTLIMELDQSQIVVQCNNAKNNIINFTSSFIWPEQFYGYPIPR-QINISNKIFVWMGNIGPYNGYKDVIYMEMKNQLVGCIHEIFFFDERVVIPNVKKSLFAVQCTKNTKYNKCHAFKYNQINNTY-YTFLANVSLLP---GQLYTMDSKKLDLY------GFPIGINLITNNWD--FKQNSCLLEILFKKKISVLFFINESQDIEILTIKHRIFGCFRHLSNSKIQKFQNFFIDFRKNQLVIHIQNNGTVESFLEEILFLPSEIKVGSFHREKIC 1372 S NY + E G L + +FN ++FI+ F GI +YA+DS N+FL+E+E E + ++ I KYN + E +CGC C M ++ L + ++ +C I + QF GYP+PR + N +NKI+ W+GNIG Y G ++Y+ + NQL GC+ + F+F+ R + K + C + C+ +Y A S+ P + + SK DLY FPI I L W + +N CL++I K + ++N+ I +R R+L+ K I F Q +I + + +F+E P E+++GS IC Sbjct: 15 SANYTYSESQGDLQK--EFNFSLFIETFSGITLYAVDSNNNKFLIEMELEENLQIAIIKYNKLFNRVKLENLCGCRFCSHASMAFVVRLRRLEVNAKCKGVDKLI--RLENVNGDGQFNGYPLPRKRSNNTNKIYFWIGNIGYYFGLGKILYVPLNNQLTGCLDK-FYFNNRFLTFEQKGKMMLNSCPNVFNESVCNETSCMADQISYGINDCALASVNPRYCRKALPLYSKSKDLYEIKIRAKFPITIRL---EWKSFYLKNFCLIDIKMGKNKFITMYLNKMNQISFAISHNRSIVVERNLTKMKELDNNLLIIIFNVTQFMIRAASANEIYTFIEPFNERPMEMRIGSGGNINIC 364
BLAST of SMED30028277 vs. Planmine SMEST
Match: SMESG000050280.1 (SMESG000050280.1) HSP 1 Score: 132.494 bits (332), Expect = 1.770e-33 Identity = 104/358 (29.05%), Postives = 167/358 (46.65%), Query Frame = -2 Query: 338 SVNYVHFEIDGILNRKYQFNLTIFIQDFKGIVIYAIDSKKNRFLVELEEENDRKMVIFKYNNFNVKETSERICGCLKCEGVFMTLIMELDQSQIVVQCNNAKNNIINFTSSFIWPEQFYGYPIPR-QINISNKIFVWMGNIGPYNGYKDVIYMEMKNQLVGCIHEIFFFDERVVIPNVKKSLFAVQCTKNTKYNKCHAFKYNQINNTY-YTFLANVSLLP---GQLYTMDSKKLDLY------GFPIGINLITNNWD--FKQNSCLLEILFKKKISVLFFINESQDIEILTIKHRIFGCFRHLSNSKIQKFQNFFIDFRKNQLVIHIQNNGTVESFLEEILFLPSEIKVGSFHREKIC 1372 S NY + E G L + +FN ++FI+ F GI +YA+DS N+FL+E+E E + ++ I KYN + E +CGC C M ++ L + ++ +C I + QF GYP+PR + N +NKI+ W+GNIG Y G ++Y+ + NQL GC+ + F+F+ R + K + C + C+ +Y A S+ P + + SK DLY FPI I L W + +N CL++I K + ++N+ I +R R+L+ K I F Q +I + + +F+E P E+++GS IC Sbjct: 18 SANYTYSESQGDLQK--EFNFSLFIETFSGITLYAVDSNNNKFLIEMELEENLQIAIIKYNKLFNRVKLENLCGCRFCSHASMAFVVRLRRLEVNAKCKGVDKLI--RLENVNGDGQFNGYPLPRKRSNNTNKIYFWIGNIGYYFGLGKILYVPLNNQLTGCLDK-FYFNNRFLTFEQKGKMMLNSCPNVFNESVCNETSCMADQISYGINDCALASVNPRYCRKALPLYSKSKDLYEIKIRAKFPITIRL---EWKSFYLKNFCLIDIKMGKNKFITMYLNKMNQISFAISHNRSIVVERNLTKMKELDNNLLIIIFNVTQFMIRAASANEIYTFIEPFNERPMEMRIGSGGNINIC 367
BLAST of SMED30028277 vs. Planmine SMEST
Match: SMESG000050315.1 (SMESG000050315.1) HSP 1 Score: 130.568 bits (327), Expect = 1.529e-32 Identity = 103/373 (27.61%), Postives = 184/373 (49.33%), Query Frame = -2 Query: 305 VNYVHFEIDGILNRKYQFNLTIFIQDFKGIVIYAIDSKKNRFLVELEEENDRKMVIFKYNNFNVKETSERICGCLKCEGVFMTLIMELDQSQIVVQCNNAKNNIINFTSSFIWPE------QFYGYPIPRQINISNKIFVWMGNIGPYNGYKDVIYMEMKNQLVGCIHEIFFFDERVVIPNVKKSLFAVQCTKNTKYNKCHAFKYNQINNTYYTFLANVSLLPGQLYTMDSKKLDLYGFPIGIN----LITNNW---DFKQNSCLLEILFKKKISVLFFINESQDIEILTIKHRIFGCFR--HLSNSKIQKFQNFFIDFRKNQLVIHIQNNGTVESFLEEILFLPSEIKVGSFHREKICTYSNK---TINFNY 1369 NY + +++G L R+ FN +IF++ F G+V+YAIDS N L+E+E++ V K N+ S+ +CGC C+ ++ T I++ + + ++CN +TS+ + QF+GYPIP SNK F+WMGNIG + G D+IY +K QL+GC+ FF + +++ S F+ C K C+ +Q Y ++S L G+ + + + L+ I +N LI W D + CL+E+ K +LF ++++Q +++ I ++ F + I +F +++I + + + SF +L L E+++ +F + + Y N +NFN+ Sbjct: 20 ANYTYQDMEGNLIREGSFNFSIFVKQFSGLVLYAIDSF-NNLLIEIEKDT----VFIKLNDTISLANSQELCGCSSCKHIYATFILKTRDNILTIKCNG-------YTSTLAVGKIKKKANQFFGYPIPNGYK-SNKTFLWMGNIGLFKGLNDMIYFPLKGQLIGCLDN-FFINGKLIQFKSYGSQFSFTCPKGYNQTICNGNHCSQSTVFYDMNDCSISSLNGRYCSTNLRSLNTEHSSIKLNHKLSLIRLEWMTNDDLADPCLMEMKLKNGNIILFHLDKTQRFKMI-INNKQAKLFHTTQMKTLPINSTNILAANFTGTEILIKLYSEENINSF---VLPLVDEVQLVNFGKSSMKGYCNDFSGLMNFNF 374 The following BLAST results are available for this feature:
BLAST of SMED30028277 vs. Ensembl Human
Analysis Date: 2016-08-08 (Schmidtea mediterranea smed_20140614 BLASTX Human e!99) Total hits: 0
BLAST of SMED30028277 vs. Ensembl Celegans
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Celegan e!99) Total hits: 0
BLAST of SMED30028277 vs. Ensembl Fly
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Drosophila e!99) Total hits: 0
BLAST of SMED30028277 vs. Ensembl Zebrafish
Analysis Date: 2016-08-08 (Schmidtea mediterranea smed_20140614 BLASTX Zebrafish e!99) Total hits: 0
BLAST of SMED30028277 vs. Ensembl Xenopus
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Xenopus e!99) Total hits: 0
BLAST of SMED30028277 vs. Ensembl Mouse
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Mouse e!99) Total hits: 0
BLAST of SMED30028277 vs. UniProt/SwissProt
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI UniProt) Total hits: 0
BLAST of SMED30028277 vs. TrEMBL
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI TrEMBL) Total hits: 0
BLAST of SMED30028277 vs. Ensembl Cavefish
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Cavefish e!99) Total hits: 0
BLAST of SMED30028277 vs. Ensembl Sea Lamprey
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Sea Lamprey e!99) Total hits: 0
BLAST of SMED30028277 vs. Ensembl Yeast
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Yeast e!Fungi46) Total hits: 0
BLAST of SMED30028277 vs. Ensembl Nematostella
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Nematostella e!Metazoa46) Total hits: 0
BLAST of SMED30028277 vs. Ensembl Medaka
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Medaka e!99) Total hits: 0
BLAST of SMED30028277 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 >SMED30028277 ID=SMED30028277|Name=SMED30028277|organism=Schmidtea mediterranea sexual|type=transcript|length=1487bpback to top protein sequence of SMED30028277-orf-1 >SMED30028277-orf-1 ID=SMED30028277-orf-1|Name=SMED30028277-orf-1|organism=Schmidtea mediterranea sexual|type=polypeptide|length=469bp MIILQIFRLFILIYFQFFVVNSVNYVHFEIDGILNRKYQFNLTIFIQDFKback 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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