SMED30017216
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., 2020SMED30017216 has been reported as being expressed in these anatomical structures and/or regions. Read more about PAGEPAGE Curations: 3
Homology
BLAST of SMED30017216 vs. TrEMBL
Match: A0A095BUK2 (Protein numb OS=Schistosoma haematobium OX=6185 GN=MS3_00720 PE=4 SV=1) HSP 1 Score: 67.781 bits (164), Expect = 2.064e-8 Identity = 60/232 (25.86%), Postives = 102/232 (43.97%), Query Frame = 3 Query: 135 DEKMIIENKCQFDVQYLGSVHIETPNDYVKCCEXXXXXXXXXXXXXXXXXXSTFSLILSEKLTTDIKIDQTLRDIAICASHPLIPYAFFYTFRDQEFHSFKLCGFISMREVSDRIINALLIALKFYAEKQNESLHN---LSNYQKLEQIEHDKAFKQISLRERFQDPQSSIVI-------------SNSKISCSKTCSDLKSIPRPKPG-----KKNSFDLFPILNQNNLFK 767 DE I E C F V+YLG++ + C E +K L KK K +L +S +L +S+ ++ + +DQT+ ++ CA F Y RD + F++++E +R+ +A+ A EK+ + L +F+ +L ER DPQS+IV+ + S + + +IPRP ++ S +FP L +N+ FK Sbjct: 33 DEVKIKEGFCSFQVKYLGNIEVYESRGMQVCEEAIKALRKSKKPQKAVLSVSGDALRVSDDVSQHLIVDQTIEKVSFCAPDRNHEKGFAYICRDGATRRWMCHAFLAVKESGERLSHAVGCAFAICLEKKQRRERDALQLEASDDRPTFARVGSFRPATLAERLLDPQSTIVVDPVPKPNNISSTLPTTITRVSSPVNHIGAIPRPHASPSIIERQGSLRIFPKLQENSPFK 264
BLAST of SMED30017216 vs. TrEMBL
Match: A0A430QHQ1 (Numb OS=Schistosoma bovis OX=6184 GN=DC041_0005017 PE=4 SV=1) HSP 1 Score: 67.781 bits (164), Expect = 2.235e-8 Identity = 60/232 (25.86%), Postives = 102/232 (43.97%), Query Frame = 3 Query: 135 DEKMIIENKCQFDVQYLGSVHIETPNDYVKCCEXXXXXXXXXXXXXXXXXXSTFSLILSEKLTTDIKIDQTLRDIAICASHPLIPYAFFYTFRDQEFHSFKLCGFISMREVSDRIINALLIALKFYAEKQNESLHN---LSNYQKLEQIEHDKAFKQISLRERFQDPQSSIVI-------------SNSKISCSKTCSDLKSIPRPKPG-----KKNSFDLFPILNQNNLFK 767 DE I E C F V+YLG++ + C E +K L KK K +L +S +L +S+ ++ + +DQT+ ++ CA F Y RD + F++++E +R+ +A+ A EK+ + L +F+ +L ER DPQS+IV+ + S + + +IPRP ++ S +FP L +N+ FK Sbjct: 33 DEVKIKEGFCSFQVKYLGNIEVYESRGMQVCEEAIKALRKSKKPQKAVLSVSGDALRVSDDVSQHLIVDQTIEKVSFCAPDRNHEKGFAYICRDGATRRWMCHAFLAVKESGERLSHAVGCAFAICLEKKQRRERDALQLEASDDRPTFARVGSFRPATLAERLLDPQSTIVVDPVPKPNNISSTLPTTITRVSSPVNHIGAIPRPHASPSIIERQGSLRIFPKLQENSPFK 264
BLAST of SMED30017216 vs. TrEMBL
Match: A0A183KB88 (PID domain-containing protein OS=Schistosoma curassoni OX=6186 GN=SCUD_LOCUS12276 PE=4 SV=1) HSP 1 Score: 67.781 bits (164), Expect = 2.337e-8 Identity = 60/232 (25.86%), Postives = 102/232 (43.97%), Query Frame = 3 Query: 135 DEKMIIENKCQFDVQYLGSVHIETPNDYVKCCEXXXXXXXXXXXXXXXXXXSTFSLILSEKLTTDIKIDQTLRDIAICASHPLIPYAFFYTFRDQEFHSFKLCGFISMREVSDRIINALLIALKFYAEKQNESLHN---LSNYQKLEQIEHDKAFKQISLRERFQDPQSSIVI-------------SNSKISCSKTCSDLKSIPRPKPG-----KKNSFDLFPILNQNNLFK 767 DE I E C F V+YLG++ + C E +K L KK K +L +S +L +S+ ++ + +DQT+ ++ CA F Y RD + F++++E +R+ +A+ A EK+ + L +F+ +L ER DPQS+IV+ + S + + +IPRP ++ S +FP L +N+ FK Sbjct: 33 DEVKIKEGFCSFQVKYLGNIEVYESRGMQVCEEAIKALRKSKKPQKAVLSVSGDALRVSDDVSQHLIVDQTIEKVSFCAPDRNHEKGFAYICRDGATRRWMCHAFLAVKESGERLSHAVGCAFAICLEKKQRRERDALQLEASDDRPTFARVGSFRPATLAERLLDPQSTIVVDPVPKPNNISSTLPTTITRVSSPVNHIGAIPRPHASPSIIERQGSLRIFPKLQENSPFK 264
BLAST of SMED30017216 vs. TrEMBL
Match: A0A3Q0KF97 (Cell polarity protein OS=Schistosoma mansoni OX=6183 PE=4 SV=1) HSP 1 Score: 66.6254 bits (161), Expect = 4.135e-8 Identity = 60/232 (25.86%), Postives = 102/232 (43.97%), Query Frame = 3 Query: 135 DEKMIIENKCQFDVQYLGSVHIETPNDYVKCCEXXXXXXXXXXXXXXXXXXSTFSLILSEKLTTDIKIDQTLRDIAICASHPLIPYAFFYTFRDQEFHSFKLCGFISMREVSDRIINALLIALKFYAEKQNESLHN---LSNYQKLEQIEHDKAFKQISLRERFQDPQSSIVI-------------SNSKISCSKTCSDLKSIPRPKPG-----KKNSFDLFPILNQNNLFK 767 DE I E C F V+YLG++ + C E +K L KK K +L +S +L +S+ ++ + +DQT+ ++ CA F Y RD + F++++E +R+ +A+ A EK+ + L +F+ +L ER DPQS+IV+ + S + + +IPRP ++ S +FP L +N+ FK Sbjct: 33 DEVKIKEGFCSFQVKYLGNIEVYESRGMQVCEEAIKALRKSKKPQKAVLSVSGDALRVSDDVSQHLIVDQTIEKVSFCAPDRNHEKGFAYICRDGATRRWMCHAFLAVKESGERLSHAVGCAFAICLEKKQRRERDALQLEASDDRPTFARVGSFRPATLAERLLDPQSTIVVDPVPKSNNTSSTSPTTITRVSSPVNHIGAIPRPHASPSIIERQGSLRIFPKLQENSPFK 264
BLAST of SMED30017216 vs. TrEMBL
Match: T1FXM1 (PID domain-containing protein OS=Helobdella robusta OX=6412 GN=20213569 PE=4 SV=1) HSP 1 Score: 63.929 bits (154), Expect = 4.462e-8 Identity = 43/184 (23.37%), Postives = 87/184 (47.28%), Query Frame = 3 Query: 135 DEKMIIENKCQFDVQYLGSVHIETPNDYVKCCEXXXXXXXXXXXXXXXXXXSTFSLILSEKLTTDIKIDQTLRDIAICASHPLIPYAFFYTFRDQEFHSFKLCGFISMREVSDRIINALLIALKFYAEKQNESLH---------NLSNYQKLEQIEHDKAFKQISLRERFQDPQSSIVISNSKI 659 DE+ + E C F V+YLG + + + ++ CE + +L ++ +L + ++++ + +DQT+ ++ CA F Y RD + GF++++E +R+ +A+ A EK+ + N +++ +L +F+Q ++ ER DPQS+I+ S I Sbjct: 30 DERKVREGSCSFQVKYLGCIEV-FESRGIQVCEDAVKALKNSGHHMAVLYVTGDALRVVDEISKGLIVDQTIEKVSFCAPDRNHEKGFAYICRDGTTRRWMCHGFLAVKESGERLSHAVGCAFAICLEKKQQREKEKVTVTYNDNGTSFSRL------GSFRQATMTERLTDPQSAILAGRSLI 206
BLAST of SMED30017216 vs. Planmine SMEST
Match: SMESG000078082.1 (SMESG000078082.1) HSP 1 Score: 66.2402 bits (160), Expect = 1.697e-11 Identity = 60/232 (25.86%), Postives = 107/232 (46.12%), Query Frame = 3 Query: 135 DEKMIIENKCQFDVQYLGSVHIETPNDYVKCCEXXXXXXXXXXXXXXX-XXXSTFSLILSEKLTTDIKIDQTLRDIAICASHPLIPYAFFYTFRDQEFHSFKLCGFISMREVSDRIINALLIALKFYAEKQNESLHNLSNYQKLEQIE---HDKAFKQISLRERFQDPQSSIVISN-----------SKISCSKTCSDLKSIPRPKPG------KKNSFDLFPILNQNNLFK 767 DE+ + E C F V+YLG + + C E LK L KK L +S ++ +S++++ + +DQT+ ++ C+ F Y RD + F++++E +R+ +A+ A EK+ + ++ LE +F+Q SL ER QDPQS+I+ + IS + T + + +PRP ++ S +FP L +++ FK Sbjct: 32 DERKVREGCCSFQVKYLGYIEVFDSRGMQVCEEALKALRRPKKKTIRAILYVSGDTIRVSDEISKGLIVDQTIEKVSFCSPDRNHKKGFAYICRDGTTRRWMCHAFLAVKETGERLSHAVGCAFAICLEKKQKRESEVAQSTILENKALQGKSGSFRQASLTERLQDPQSAIIAEPLASSPPHPPAINAISPNHTRASV--VPRPHASVTFFSERQTSLRMFPKLQESSPFK 261
BLAST of SMED30017216 vs. Planmine SMEST
Match: SMESG000078082.1 (SMESG000078082.1) HSP 1 Score: 65.855 bits (159), Expect = 2.055e-11 Identity = 60/232 (25.86%), Postives = 107/232 (46.12%), Query Frame = 3 Query: 135 DEKMIIENKCQFDVQYLGSVHIETPNDYVKCCEXXXXXXXXXXXXXXX-XXXSTFSLILSEKLTTDIKIDQTLRDIAICASHPLIPYAFFYTFRDQEFHSFKLCGFISMREVSDRIINALLIALKFYAEKQNESLHNLSNYQKLEQIE---HDKAFKQISLRERFQDPQSSIVISN-----------SKISCSKTCSDLKSIPRPKPG------KKNSFDLFPILNQNNLFK 767 DE+ + E C F V+YLG + + C E LK L KK L +S ++ +S++++ + +DQT+ ++ C+ F Y RD + F++++E +R+ +A+ A EK+ + ++ LE +F+Q SL ER QDPQS+I+ + IS + T + + +PRP ++ S +FP L +++ FK Sbjct: 32 DERKVREGCCSFQVKYLGYIEVFDSRGMQVCEEALKALRRPKKKTIRAILYVSGDTIRVSDEISKGLIVDQTIEKVSFCSPDRNHKKGFAYICRDGTTRRWMCHAFLAVKETGERLSHAVGCAFAICLEKKQKRESEVAQSTILENKALQGKSGSFRQASLTERLQDPQSAIIAEPLASSPPHPPAINAISPNHTRASV--VPRPHASVTFFSERQTSLRMFPKLQESSPFK 261
BLAST of SMED30017216 vs. Planmine SMEST
Match: SMESG000033358.1 (SMESG000033358.1) HSP 1 Score: 64.3142 bits (155), Expect = 6.762e-11 Identity = 65/234 (27.78%), Postives = 108/234 (46.15%), Query Frame = 3 Query: 135 DEKMIIENKCQFDVQYLGSVHIETPNDYVKCCEXXXXXXXXXXXXXXXXX---XSTFSLILSEKLTTDIKIDQTLRDIAICASHPLIPYAFFYTFRDQEFHSFKLCGFISMREVSDRIINALLIALKFYAEKQNESL---------HNLSNYQKLEQIEHDKAFKQISLRERFQDPQSSIVI-----SNSKISCSKTCSDLKSIPRPKPG-----KKNSFDLFPILN-QNNLFK 767 DEK + E C F V+YLGS+ + C E +K L+ K K +S +L ++E+++ + +DQ + ++ CA F Y RD + GF +++E +R+ +A+ A EK+ + N +++ +L +FKQ ++ ER DPQS I+ S++ S + + SIPRP ++NS +FP L QNN FK Sbjct: 33 DEKKVREGCCSFQVKYLGSIEVFESRGMPVCEEAMKQLLKYKSKKKSKRAILYVSGDALRVTEEISKGLIVDQVIEKVSFCAPDRNHKRGFAYICRDATTRRWLCHGFKAVKESGERLSHAVGCAFAVCLEKKQQREKDSVDVTFNENKTSFTRL------GSFKQATITERRLDPQSVIIAEPVSGSSNANSTNNSVPTPSSIPRPHASQSVLDRQNSMKIFPKLQEQNNPFK 260 The following BLAST results are available for this feature:
BLAST of SMED30017216 vs. Ensembl Human
Analysis Date: 2016-08-08 (Schmidtea mediterranea smed_20140614 BLASTX Human e!99) Total hits: 0
BLAST of SMED30017216 vs. Ensembl Celegans
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Celegan e!99) Total hits: 0
BLAST of SMED30017216 vs. Ensembl Fly
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Drosophila e!99) Total hits: 0
BLAST of SMED30017216 vs. Ensembl Zebrafish
Analysis Date: 2016-08-08 (Schmidtea mediterranea smed_20140614 BLASTX Zebrafish e!99) Total hits: 0
BLAST of SMED30017216 vs. Ensembl Xenopus
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Xenopus e!99) Total hits: 0
BLAST of SMED30017216 vs. Ensembl Mouse
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Mouse e!99) Total hits: 0
BLAST of SMED30017216 vs. UniProt/SwissProt
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI UniProt) Total hits: 0
BLAST of SMED30017216 vs. TrEMBL
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI TrEMBL) Total hits: 5
BLAST of SMED30017216 vs. Ensembl Cavefish
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Cavefish e!99) Total hits: 0
BLAST of SMED30017216 vs. Ensembl Sea Lamprey
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Sea Lamprey e!99) Total hits: 0
BLAST of SMED30017216 vs. Ensembl Yeast
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Yeast e!Fungi46) Total hits: 0
BLAST of SMED30017216 vs. Ensembl Nematostella
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Nematostella e!Metazoa46) Total hits: 0
BLAST of SMED30017216 vs. Ensembl Medaka
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Medaka e!99) Total hits: 0
BLAST of SMED30017216 vs. Planmine SMEST
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Planmine SMEST) Total hits: 3
Analyses
This transcript is derived from or has results from the following analyses Sequences
The following sequences are available for this feature:
transcript sequence >SMED30017216 ID=SMED30017216|Name=SMED30017216|organism=Schmidtea mediterranea sexual|type=transcript|length=1238bpback to top protein sequence of SMED30017216-orf-1 >SMED30017216-orf-1 ID=SMED30017216-orf-1|Name=SMED30017216-orf-1|organism=Schmidtea mediterranea sexual|type=polypeptide|length=359bp MSCSTEKISSLSNSISKKWESDEKMIIENKCQFDVQYLGSVHIETPNDYVback 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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