SMED30024899
Overview
Neoblast Clusters
Zeng et. al., 2018▻ Overview▻ 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 AppSub-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., 2020SMED30024899 has been reported as being expressed in these anatomical structures and/or regions. Read more about PAGEPAGE Curations: 6
Alignments
SMED30024899 aligns in the following genomic locations:
Homology
BLAST of SMED30024899 vs. Planmine SMEST
Match: SMESG000016790.1 (SMESG000016790.1) HSP 1 Score: 853.203 bits (2203), Expect = 0.000e+0 Identity = 454/465 (97.63%), Postives = 459/465 (98.71%), Query Frame = 3 Query: 108 MGPIYNSRYFTRELLYRITGIVFVFILGLGIMSVYFYYSIRMIPSSAKVLWKIYNYGISGFELLNILLIYVCLNVNYRYRNLRMTRIIEQPLIFYLICLPFLILTMNISIFLMIIMFFHSHLLENGLAVNLLMXXXXXXXXXXXXXXXXGFKDTGEEWNMNFINVFTISSVAMSIFFHFNYSVIFLETANFRLFISPVINSSFEMSPIFGKMPIILGQSIMILFVVLNPYFYIYLKNNLQHILKHRYRQISGTNQSILHNKHRVLIFGSILPISALTMTVVIRFYPGNQQNSIDVVRIVSEILKMFLILVIMPEWRVEKLPSQKTFHKIINIXXXXXXXXVCVKFMSALVKYVMFVLDGHSGGRGFFIFSIDIVKLLELFSQTCFLSLSIDRTPGNCKRPFWWFLFFNCIMLFVSNFGDLIEEVIETVSDHELSNSTLRLLLGGLSAIYKPPILLYYLISSVMIQ 1502 MGPIYNSRYFTRELLYRITGIVFVFILGLGIMSVYFYYSIRMIPSSAKVLWKIYNYGISGFELLNILLIYVCLNVNYRYRNLRMTRIIEQPLIFYLICLPFLILTMNISIFLMIIMFFHS+LLENGLAVNLLMLSITFFILII+IINTSGF DTGEEWNMNFINVFTISSVAMSIFFHFNYSV +LETANFRLFISPVINSSFEMSPI GKMPIILGQSIMILFVVLNPYFYIYLKNNLQHILKHRYRQISGTNQSILHNKHRVLIFGSILPISALTMTVVIRFYPGNQQNSIDVVRIVSEILKMFLILVIMPEWRVEKLPS K FHKIINIFLFFGLFGVCVKFMSALVKYVMFVLDGHSGGRG FIFSIDIVKLLELFSQTCFLSLSIDRTPGNCKRPFWWFLFFNCIMLFVSNFGDLIEEVIETVSDHELSNSTLRLLLGGLSAI+KPP+LLYYLISSVMIQ Sbjct: 1 MGPIYNSRYFTRELLYRITGIVFVFILGLGIMSVYFYYSIRMIPSSAKVLWKIYNYGISGFELLNILLIYVCLNVNYRYRNLRMTRIIEQPLIFYLICLPFLILTMNISIFLMIIMFFHSYLLENGLAVNLLMLSITFFILIILIINTSGFTDTGEEWNMNFINVFTISSVAMSIFFHFNYSVTYLETANFRLFISPVINSSFEMSPIIGKMPIILGQSIMILFVVLNPYFYIYLKNNLQHILKHRYRQISGTNQSILHNKHRVLIFGSILPISALTMTVVIRFYPGNQQNSIDVVRIVSEILKMFLILVIMPEWRVEKLPSHKNFHKIINIFLFFGLFGVCVKFMSALVKYVMFVLDGHSGGRGLFIFSIDIVKLLELFSQTCFLSLSIDRTPGNCKRPFWWFLFFNCIMLFVSNFGDLIEEVIETVSDHELSNSTLRLLLGGLSAIFKPPVLLYYLISSVMIQ 465
BLAST of SMED30024899 vs. Planmine SMEST
Match: SMESG000025344.1 (SMESG000025344.1) HSP 1 Score: 101.679 bits (252), Expect = 8.921e-23 Identity = 119/461 (25.81%), Postives = 219/461 (47.51%), Query Frame = 3 Query: 177 VFILGLGIMSVYFYYSIRMIPSSAK---VLWKIYNYGISGFELLNILLIYVCLNVNYRYRNLRMTRIIEQPLIFYLICLPFLILTMNISIFLMIIMFFHSHLLENGLAVNLL---MXXXXXXXXXXXXXXXXGFKDTGEEWNMNFINVFTISSVAMSIFFHFNYSVI------FLETANFRLFISPVINSSFEM--SPIFGKMPIILGQSIMILFVVLNPYFYIYLKNNLQHILKHRYRQISGTNQSILHNKHRVLIFGSILPISALTMTVVIRFYPGNQQNSIDVVRIVSEILKM---FLILVIMPEWRVE-KLPSQKTFHKIINIXXXXXXXXVCVKFMSALVKYVMFVLDGHSGGRGFFIFSIDI-------VKLLELFSQTCFLSLSIDRTPGNCKRPFWWFLFFNCIMLFVSNFGDLIEEVIETVSDHELSNSTLRLLLGGLSAIYKPPILLYYLI 1484 +F+ G+ ++ Y +Y ++ P + L KI NY IS ++++I+LI +N+R+RNLR+ +EQPLIFYLICLP L IS+ + ++ FH ++G + N+L ++ +F+ II++I+ +GF DTGEEW MN+ N TI S+ ++I F T N F+S N +F + + + + ++++ L +V P+ I LK NL H+ + + ++ ++++L I G LT V++ Q ++ V I S I+K+ F I ++ E K+ ++ + +N+ G +F + V+ + + + G G F + DI V L+E T + +D + + W F++ I + + G E + ++ D E ++ +R++ G P ++LY I Sbjct: 24 LFLFGMVYVTNYGFYVYQISPRGDRKDEYLDKI-NYSISFVKIVSIILICYNTQINHRFRNLRIKHKLEQPLIFYLICLPMLF----ISLMGLFVIIFHYTFEKSGTSTNILYFALVIFEYFLFIILVIDINGFSDTGEEWFMNYFNSMTIIITMTSVMIQICLNIIMILTDDFTNTMNRTTFVSLFSNHNFTIFDKTCYRTLVFLKKRAVITLSLVFIPFLVIPLKRNLTHLFRFKPKEDLPEDKTVLSMNKVSSITGGFTVGVFLTFIVIVHLLYVMQ--NVPQVIIASRIIKLLVSFFISCLLGIMITEIKISARLNSSQYLNVKNILIYLGAFGQFSVQITNIVVNIYNLQTNGNGLFESTKDILILTSNFVYLIETILMTTLMLFVLDGKAVSFPKNSWSIFFYSPINILILQIGVFTEYLTKSFYD-EQNSFQIRMMEIGTMYFAIPLVILYRAI 476
BLAST of SMED30024899 vs. Planmine SMEST
Match: SMESG000025336.1 (SMESG000025336.1) HSP 1 Score: 95.5153 bits (236), Expect = 1.101e-20 Identity = 85/298 (28.52%), Postives = 157/298 (52.68%), Query Frame = 3 Query: 177 VFILGLGIMSVYFYYSIRMIPSSAK---VLWKIYNYGISGFELLNILLIYVCLNVNYRYRNLRMTRIIEQPLIFYLICLPFLILTMNISIFLMIIMFFHSHLLENGLAVNLL-MXXXXXXXXXXXXXXXXGFKDTGEEWNMNFINVFTISSVAMSIFFHFNYSVIFLETANFRLFISPVI------NSSFEM--SPIFGKMPIILGQSIMILFVVLNPYFYIYLKNNLQHILKHRYRQISGTNQSILHNKHRVLIFGSILPISALTMTVVIRFYPGNQQNSIDVVRIVSEILKMFLIL 1034 +F+ G+ ++ Y +Y R+ P+ + + KI NY IS ++++I+LI +N+R+RNLR+ +EQPLIFYLICLP L++++ I +F++I+ + ++N + ++ +F+ I+++I+ +GF DTGEEW MN+ N TI S+ ++I + T F ++ V+ N SF + K+ + ++++ L + P+ I LK NL H+ + + + +Q IL I GS+ +T+ ++ + + + S I+K FLIL Sbjct: 24 LFLFGMVYVTNYGFYVYRITPNENRNDGYIEKI-NYSISFVKVVSIILICYNTKINHRFRNLRIKHKLEQPLIFYLICLPILLMSL-IGVFVVILYYTFERSVKNPSHITYCSLVIFEYFLFIVLVIDINGFSDTGEEWFMNYFNSMTIIITMTSVIMQICLNIIMILTEEFSNSLNQVLHFNLYSNHSFTFFDKTSYNKIIFLKKRTVITLSLAFIPFLVIPLKRNLNHLFQFKTKDDLPEDQPILSMNKVSSITGSLTVGVYITLIFIVDLCNFVIHERGNYIYLTSRIIKAFLIL 319
BLAST of SMED30024899 vs. Planmine SMEST
Match: SMESG000025342.1 (SMESG000025342.1) HSP 1 Score: 90.8929 bits (224), Expect = 8.144e-20 Identity = 84/298 (28.19%), Postives = 156/298 (52.35%), Query Frame = 3 Query: 177 VFILGLGIMSVYFYYSIRMIPSSAK---VLWKIYNYGISGFELLNILLIYVCLNVNYRYRNLRMTRIIEQPLIFYLICLPFLILTMNISIFLMIIMFFHSHLLENGLAVNLL-MXXXXXXXXXXXXXXXXGFKDTGEEWNMNFINVFTISSVAMSIFFHFNYSVIFLETANFRLFISPVI------NSSFEM--SPIFGKMPIILGQSIMILFVVLNPYFYIYLKNNLQHILKHRYRQISGTNQSILHNKHRVLIFGSILPISALTMTVVIRFYPGNQQNSIDVVRIVSEILKMFLIL 1034 +F+ G+ ++ Y +Y R+ P + + KI NY IS ++++I+LI +N+R+RNLR+ ++QPLIFYLICLP L++++ I +F++I+ + ++N + ++ +F+ I+++I+ +GF DTGEEW MN+ N TI S+ ++I + T F ++ V+ N SF + K+ + ++++ L + P+ I LK NL H+ + + + +Q IL I GS+ +T+ ++ + + + S I+K FLIL Sbjct: 24 LFLFGMVYVTNYGFYVYRISPMENRNDGYIEKI-NYSISFVKVVSIILICYNTKINHRFRNLRIKHKLKQPLIFYLICLPILLMSL-IGVFVVILYYTFERSVKNPSHITYCSLVIFEYFLFIVLVIDINGFSDTGEEWFMNYFNSMTIIITMTSVIMQICLNIIMILTDEFFNSLNQVLHFNLYSNHSFTFFDKTSYNKIIFLKKRTVITLSLAFIPFLVIPLKRNLNHLFQFKTKDDLPEDQPILSMNKVSSITGSLTVGVYITLIFIVDLCNFVIHERGNYIYLTSRIIKAFLIL 319
BLAST of SMED30024899 vs. Planmine SMEST
Match: SMESG000027122.1 (SMESG000027122.1) HSP 1 Score: 85.5001 bits (210), Expect = 1.458e-17 Identity = 121/467 (25.91%), Postives = 234/467 (50.11%), Query Frame = 3 Query: 141 RELLYRITGIVFVFILGLGIMSVYFYYSI--RMIPSSAKVLWKIYNYGISGFELLNILLIYVCLNVNYRYRNLRMTRIIEQPLIFYLICLPFLILTMNISIFLMIIMFFHSHLLENGLAVNLLMXXXXXXXXXXXXXXXXGFKDTGEEWNMNFINVFTISSVAMSIFFHFNYSVIFLETANFRLFISPVINSSFEMSP-----IFGKMPIILGQ----SIMILFVVLNPYFYIYLKNNLQHILKHRYRQISGTNQSILHNKHRVLIFGSILPISALTMTVVIRFYPGNQ--QNSIDVVRIVSEILKMFLILVIM-PEWRVEKLPSQKTFHKIINIXXXXXXXXVCVKFMSALVKYVM-FVLDGHSGGRGFFIFSIDIVKLLELFSQTCFLSLSIDRTPGNCKRPFWWFLFFNCIMLFVSNFGDLIEEVIETVSDHELSNSTLRLLLGGLSAIYKPPILLYYLISSVM 1496 +E++ ++ ++F + L I+ Y + I + ++ + ++ ++N+LLI +NY+YRNLR + IEQPL+FYLICLP L++ + L I G + + + + FF +II+I++ SGF DTGEE +N +N TI +S+ F F+ + I L++ N +F + NS ++ S + K + L + SI++L +VL PY I L+ NL+ + K IS + I L I+ ++ ++ ++ N +N I +V + + +F I +M E + F+ I NIFL FG G ++ ++ ++ +V+ + + +F+F ++KLL+ + + ++R R FW F + +++F++ + +LI+E+++ V D++ + +L G++++ P +LY+L S+M Sbjct: 2 KEIVEKLIACAYLFTVSLSILLTYSTFIILNTQVQERCSYCFEFIQWPVNILMMVNVLLIVYNTKMNYKYRNLRFSLQIEQPLVFYLICLPLLLVILVALTLLTINSISRWFATRIGFVIEIGLAATEFFAVIILILDISGFSDTGEEPFINSVNSVTIIVTLISMGFLFSKNFI-LKSRN--IFKNSYNNSIYDKSRDDRSILSYKSNLFLNRLKETSILLLLIVLIPYMMIPLRENLRKLWKS--LSISKHKEHIGKKYTSYLTVSGIIIVTVYSIVSIVIGVNRNNFIKNPIYFFLMVVQEVSVFPIFYLMLQETNLWTRLMNVNFYNITNIFLHFGTIGQYLQTLNGILFHVIESQMKASTNNIDYFMFGFHLIKLLKTTITSLLVLAMVERNFKKPLRTFWNCFFSSPVLIFINQWANLIQELMQQV-DYK-NGFQANAILQGVTSLASPFCILYHLYCSMM 461 The following BLAST results are available for this feature:
BLAST of SMED30024899 vs. Ensembl Human
Analysis Date: 2016-08-08 (Schmidtea mediterranea smed_20140614 BLASTX Human e!99) Total hits: 0
BLAST of SMED30024899 vs. Ensembl Celegans
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Celegan e!99) Total hits: 0
BLAST of SMED30024899 vs. Ensembl Fly
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Drosophila e!99) Total hits: 0
BLAST of SMED30024899 vs. Ensembl Zebrafish
Analysis Date: 2016-08-08 (Schmidtea mediterranea smed_20140614 BLASTX Zebrafish e!99) Total hits: 0
BLAST of SMED30024899 vs. Ensembl Xenopus
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Xenopus e!99) Total hits: 0
BLAST of SMED30024899 vs. Ensembl Mouse
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Mouse e!99) Total hits: 0
BLAST of SMED30024899 vs. UniProt/SwissProt
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI UniProt) Total hits: 0
BLAST of SMED30024899 vs. TrEMBL
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI TrEMBL) Total hits: 0
BLAST of SMED30024899 vs. Ensembl Cavefish
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Cavefish e!99) Total hits: 0
BLAST of SMED30024899 vs. Ensembl Sea Lamprey
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Sea Lamprey e!99) Total hits: 0
BLAST of SMED30024899 vs. Ensembl Yeast
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Yeast e!Fungi46) Total hits: 0
BLAST of SMED30024899 vs. Ensembl Nematostella
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Nematostella e!Metazoa46) Total hits: 0
BLAST of SMED30024899 vs. Ensembl Medaka
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Medaka e!99) Total hits: 0
BLAST of SMED30024899 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 >SMED30024899 ID=SMED30024899|Name=SMED30024899|organism=Schmidtea mediterranea sexual|type=transcript|length=1548bpback to top protein sequence of SMED30024899-orf-1 >SMED30024899-orf-1 ID=SMED30024899-orf-1|Name=SMED30024899-orf-1|organism=Schmidtea mediterranea sexual|type=polypeptide|length=473bp MGPIYNSRYFTRELLYRITGIVFVFILGLGIMSVYFYYSIRMIPSSAKVLback 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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