SMED30029428
Overview
Neoblast Clusters
Zeng et. al., 2018▻ Overview▻ Neoblast 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
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., 2020SMED30029428 has been reported as being expressed in these anatomical structures and/or regions. Read more about PAGEPAGE Curations: 8
Alignments
SMED30029428 aligns in the following genomic locations:
Homology
BLAST of SMED30029428 vs. Ensembl Human
Match: COA6 (cytochrome c oxidase assembly factor 6 [Source:HGNC Symbol;Acc:HGNC:18025]) HSP 1 Score: 53.1434 bits (126), Expect = 3.931e-9 Identity = 23/59 (38.98%), Postives = 36/59 (61.02%), Query Frame = -1 Query: 287 PSKEERKKCWESRDEFWHCLDNNNEESEKCLNERKLYEKYCSHQWVNWCT*CRLFITFR 463 PS +ER+ CW +RDE+W CLD N E++ +C R +E C QW+ + R ++ F+ Sbjct: 4 PSMKERQVCWGARDEYWKCLDENLEDASQCKKLRSSFESSCPQQWIKYFDKRRDYLKFK 62
BLAST of SMED30029428 vs. Ensembl Human
Match: COA6 (cytochrome c oxidase assembly factor 6 [Source:HGNC Symbol;Acc:HGNC:18025]) HSP 1 Score: 53.1434 bits (126), Expect = 3.931e-9 Identity = 23/59 (38.98%), Postives = 36/59 (61.02%), Query Frame = -1 Query: 287 PSKEERKKCWESRDEFWHCLDNNNEESEKCLNERKLYEKYCSHQWVNWCT*CRLFITFR 463 PS +ER+ CW +RDE+W CLD N E++ +C R +E C QW+ + R ++ F+ Sbjct: 4 PSMKERQVCWGARDEYWKCLDENLEDASQCKKLRSSFESSCPQQWIKYFDKRRDYLKFK 62
BLAST of SMED30029428 vs. Ensembl Human
Match: COA6 (cytochrome c oxidase assembly factor 6 [Source:HGNC Symbol;Acc:HGNC:18025]) HSP 1 Score: 53.9138 bits (128), Expect = 5.059e-9 Identity = 23/59 (38.98%), Postives = 36/59 (61.02%), Query Frame = -1 Query: 287 PSKEERKKCWESRDEFWHCLDNNNEESEKCLNERKLYEKYCSHQWVNWCT*CRLFITFR 463 PS +ER+ CW +RDE+W CLD N E++ +C R +E C QW+ + R ++ F+ Sbjct: 50 PSMKERQVCWGARDEYWKCLDENLEDASQCKKLRSSFESSCPQQWIKYFDKRRDYLKFK 108
BLAST of SMED30029428 vs. Ensembl Human
Match: COA6 (cytochrome c oxidase assembly factor 6 [Source:HGNC Symbol;Acc:HGNC:18025]) HSP 1 Score: 53.5286 bits (127), Expect = 1.196e-8 Identity = 23/59 (38.98%), Postives = 36/59 (61.02%), Query Frame = -1 Query: 287 PSKEERKKCWESRDEFWHCLDNNNEESEKCLNERKLYEKYCSHQWVNWCT*CRLFITFR 463 PS +ER+ CW +RDE+W CLD N E++ +C R +E C QW+ + R ++ F+ Sbjct: 80 PSMKERQVCWGARDEYWKCLDENLEDASQCKKLRSSFESSCPQQWIKYFDKRRDYLKFK 138
BLAST of SMED30029428 vs. Ensembl Zebrafish
Match: coa6 (cytochrome c oxidase assembly factor 6 [Source:ZFIN;Acc:ZDB-GENE-070705-152]) HSP 1 Score: 50.0618 bits (118), Expect = 3.283e-8 Identity = 23/66 (34.85%), Postives = 37/66 (56.06%), Query Frame = -1 Query: 266 PSKEERKKCWESRDEFWHCLDNNNEESEKCLNERKLYEKYCSHQWVNWCT*CRLFITFRFFILTEN 463 P+ +RK CW++RDE W CLD N + + C ++ +E C QWV + + R F+ ++ I E Sbjct: 4 PNASQRKACWDARDELWKCLDVNKDLTSACEKHQREFEANCPAQWVKYFSKRRDFLKYKEKIEKEG 69
BLAST of SMED30029428 vs. Ensembl Zebrafish
Match: coa6 (cytochrome c oxidase assembly factor 6 [Source:ZFIN;Acc:ZDB-GENE-070705-152]) HSP 1 Score: 50.0618 bits (118), Expect = 3.283e-8 Identity = 23/66 (34.85%), Postives = 37/66 (56.06%), Query Frame = -1 Query: 266 PSKEERKKCWESRDEFWHCLDNNNEESEKCLNERKLYEKYCSHQWVNWCT*CRLFITFRFFILTEN 463 P+ +RK CW++RDE W CLD N + + C ++ +E C QWV + + R F+ ++ I E Sbjct: 4 PNASQRKACWDARDELWKCLDVNKDLTSACEKHQREFEANCPAQWVKYFSKRRDFLKYKEKIEKEG 69
BLAST of SMED30029428 vs. Ensembl Xenopus
Match: ptgir (prostaglandin I2 receptor [Source:Xenbase;Acc:XB-GENE-982059]) HSP 1 Score: 57.7658 bits (138), Expect = 6.339e-11 Identity = 23/60 (38.33%), Postives = 40/60 (66.67%), Query Frame = -1 Query: 287 PPSKEERKKCWESRDEFWHCLDNNNEESEKCLNERKLYEKYCSHQWVNWCT*CRLFITFR 466 P+ +ER+ CW++RDE+W CLD NNE++ KC N R+ ++ C QW+ + R ++ ++ Sbjct: 3 APTAKERQACWDARDEYWQCLDANNEDASKCQNLRQSFKNNCPQQWMKYFDKRRDYLKYK 62
BLAST of SMED30029428 vs. Ensembl Xenopus
Match: ptgir (prostaglandin I2 receptor [Source:Xenbase;Acc:XB-GENE-982059]) HSP 1 Score: 56.9954 bits (136), Expect = 2.391e-10 Identity = 22/49 (44.90%), Postives = 35/49 (71.43%), Query Frame = -1 Query: 320 PPSKEERKKCWESRDEFWHCLDNNNEESEKCLNERKLYEKYCSHQWVNW 466 P+ +ER+ CW++RDE+W CLD NNE++ KC N R+ ++ C QW+ + Sbjct: 30 APTAKERQACWDARDEYWQCLDANNEDASKCQNLRQSFKNNCPQQWMKY 78
BLAST of SMED30029428 vs. Ensembl Mouse
Match: Coa6 (cytochrome c oxidase assembly factor 6 [Source:MGI Symbol;Acc:MGI:1915142]) HSP 1 Score: 53.9138 bits (128), Expect = 1.410e-9 Identity = 22/59 (37.29%), Postives = 36/59 (61.02%), Query Frame = -1 Query: 287 PSKEERKKCWESRDEFWHCLDNNNEESEKCLNERKLYEKYCSHQWVNWCT*CRLFITFR 463 PS +ER+ CW +RD +W CLD+N E++ +C R +E C QW+ + R ++ F+ Sbjct: 4 PSMKERQACWGARDLYWRCLDDNAEDAARCQKLRSSFEASCPQQWIKYFDKRRDYLKFK 62
BLAST of SMED30029428 vs. Ensembl Mouse
Match: Coa6 (cytochrome c oxidase assembly factor 6 [Source:MGI Symbol;Acc:MGI:1915142]) HSP 1 Score: 53.9138 bits (128), Expect = 1.410e-9 Identity = 22/59 (37.29%), Postives = 36/59 (61.02%), Query Frame = -1 Query: 287 PSKEERKKCWESRDEFWHCLDNNNEESEKCLNERKLYEKYCSHQWVNWCT*CRLFITFR 463 PS +ER+ CW +RD +W CLD+N E++ +C R +E C QW+ + R ++ F+ Sbjct: 4 PSMKERQACWGARDLYWRCLDDNAEDAARCQKLRSSFEASCPQQWIKYFDKRRDYLKFK 62
BLAST of SMED30029428 vs. UniProt/SwissProt
Match: sp|Q2M2S5|COA6_BOVIN (Cytochrome c oxidase assembly factor 6 homolog OS=Bos taurus OX=9913 GN=COA6 PE=3 SV=1) HSP 1 Score: 55.8398 bits (133), Expect = 2.184e-9 Identity = 23/59 (38.98%), Postives = 36/59 (61.02%), Query Frame = -1 Query: 287 PSKEERKKCWESRDEFWHCLDNNNEESEKCLNERKLYEKYCSHQWVNWCT*CRLFITFR 463 P+ +ER+ CW +RDE+W CLD N E++ KC R +E C QW+ + R ++ F+ Sbjct: 4 PTMKERQACWGARDEYWKCLDENTEDASKCKKLRSSFESSCPQQWIKYFDKRRDYLKFK 62
BLAST of SMED30029428 vs. UniProt/SwissProt
Match: sp|Q8BGD8|COA6_MOUSE (Cytochrome c oxidase assembly factor 6 homolog OS=Mus musculus OX=10090 GN=Coa6 PE=1 SV=1) HSP 1 Score: 53.9138 bits (128), Expect = 9.866e-9 Identity = 22/59 (37.29%), Postives = 36/59 (61.02%), Query Frame = -1 Query: 287 PSKEERKKCWESRDEFWHCLDNNNEESEKCLNERKLYEKYCSHQWVNWCT*CRLFITFR 463 PS +ER+ CW +RD +W CLD+N E++ +C R +E C QW+ + R ++ F+ Sbjct: 4 PSMKERQACWGARDLYWRCLDDNAEDAARCQKLRSSFEASCPQQWIKYFDKRRDYLKFK 62
BLAST of SMED30029428 vs. UniProt/SwissProt
Match: sp|Q5JTJ3|COA6_HUMAN (Cytochrome c oxidase assembly factor 6 homolog OS=Homo sapiens OX=9606 GN=COA6 PE=1 SV=1) HSP 1 Score: 53.9138 bits (128), Expect = 2.429e-8 Identity = 23/59 (38.98%), Postives = 36/59 (61.02%), Query Frame = -1 Query: 287 PSKEERKKCWESRDEFWHCLDNNNEESEKCLNERKLYEKYCSHQWVNWCT*CRLFITFR 463 PS +ER+ CW +RDE+W CLD N E++ +C R +E C QW+ + R ++ F+ Sbjct: 50 PSMKERQVCWGARDEYWKCLDENLEDASQCKKLRSSFESSCPQQWIKYFDKRRDYLKFK 108
BLAST of SMED30029428 vs. TrEMBL
Match: A0A091IF86 (Cytochrome c oxidase assembly factor 6 (Fragment) OS=Calypte anna OX=9244 GN=N300_13220 PE=4 SV=1) HSP 1 Score: 65.855 bits (159), Expect = 1.136e-10 Identity = 30/68 (44.12%), Postives = 42/68 (61.76%), Query Frame = -1 Query: 260 PSKEERKKCWESRDEFWHCLDNNNEESEKCLNERKLYEKYCSHQWVNWCT*CRLFITFRFFILTENVH 463 P+ EERK CW +RDEFWHCLD++ E++ KC R +E C QWV + R F+ ++ + TE H Sbjct: 7 PTMEERKACWGARDEFWHCLDSHAEDAAKCEKLRHSFESLCPQQWVKYFDRRRDFLKYKKKLETEGFH 74
BLAST of SMED30029428 vs. TrEMBL
Match: A0A218VBN2 (Cytochrome c oxidase assembly factor 6 OS=Lonchura striata domestica OX=299123 GN=COA6 PE=4 SV=1) HSP 1 Score: 64.3142 bits (155), Expect = 3.140e-10 Identity = 28/74 (37.84%), Postives = 43/74 (58.11%), Query Frame = -1 Query: 242 PSKEERKKCWESRDEFWHCLDNNNEESEKCLNERKLYEKYCSHQWVNWCT*CRLFITFRFFILTENVHLITSEN 463 P+ EERK CW +RDEFW CLD++ +++ KC R+ +E C QWV + R F+ ++ + TE H + Sbjct: 4 PTMEERKACWGARDEFWQCLDSHGDDAAKCEKLRRAFESRCPQQWVKYFDKRRDFLKYKKKLETEGYHPPEAAG 77
BLAST of SMED30029428 vs. TrEMBL
Match: A0A131YAZ4 (Cytochrome c oxidase assembly factor 6 OS=Rhipicephalus appendiculatus OX=34631 PE=4 SV=1) HSP 1 Score: 63.929 bits (154), Expect = 5.845e-10 Identity = 29/78 (37.18%), Postives = 46/78 (58.97%), Query Frame = -1 Query: 230 PSKEERKKCWESRDEFWHCLDNNNEESEKCLNERKLYEKYCSHQWVNWCT*CRLFITFRFFILTENVHLITSENLIKK 463 P+KE+R+KCW+SRD +W CLD+N E++++C + LYE +C QWV R ++ F+ I + + N K Sbjct: 4 PNKEQRQKCWDSRDRYWECLDSNAEDAKRCAEMKSLYETHCPSQWVKHFDRKREYLKFKDKIEKDGYDPLDDSNARAK 81
BLAST of SMED30029428 vs. TrEMBL
Match: C9W1I0 (Cytochrome c oxidase subunit VIb/COX12 OS=Rhipicephalus sanguineus OX=34632 PE=2 SV=1) HSP 1 Score: 63.5438 bits (153), Expect = 8.347e-10 Identity = 29/78 (37.18%), Postives = 46/78 (58.97%), Query Frame = -1 Query: 230 PSKEERKKCWESRDEFWHCLDNNNEESEKCLNERKLYEKYCSHQWVNWCT*CRLFITFRFFILTENVHLITSENLIKK 463 P+KE+R+KCW+SRD +W CLD+N E++++C + LYE +C QWV R ++ F+ I + + N K Sbjct: 4 PNKEQRQKCWDSRDRYWECLDSNAEDAKRCAEMKSLYETHCPSQWVKHFDRKREYLKFKDKIEKDGYDPLDDTNARAK 81
BLAST of SMED30029428 vs. TrEMBL
Match: L7M5M3 (Putative cytochrome c oxidase subunit vib/cox12 OS=Rhipicephalus pulchellus OX=72859 PE=2 SV=1) HSP 1 Score: 63.1586 bits (152), Expect = 1.040e-9 Identity = 29/78 (37.18%), Postives = 46/78 (58.97%), Query Frame = -1 Query: 230 PSKEERKKCWESRDEFWHCLDNNNEESEKCLNERKLYEKYCSHQWVNWCT*CRLFITFRFFILTENVHLITSENLIKK 463 P+KE+R+KCW+SRD +W CLD+N E++++C + LYE +C QWV R ++ F+ I + + N K Sbjct: 4 PNKEQRQKCWDSRDRYWECLDSNAEDAKRCAEMKSLYETHCPSQWVKHFDRKREYLKFKDKIEKDGYDPLDDTNTRAK 81
BLAST of SMED30029428 vs. Ensembl Cavefish
Match: coa6 (cytochrome c oxidase assembly factor 6 homolog [Source:NCBI gene;Acc:103022513]) HSP 1 Score: 50.8322 bits (120), Expect = 1.720e-8 Identity = 23/66 (34.85%), Postives = 37/66 (56.06%), Query Frame = -1 Query: 266 PSKEERKKCWESRDEFWHCLDNNNEESEKCLNERKLYEKYCSHQWVNWCT*CRLFITFRFFILTEN 463 P+ +ER+ CW +RDEFW CLD+N ++ C + +E C QWV + R ++ ++ I E Sbjct: 4 PNSQERRACWGARDEFWKCLDHNRDDVAACEKYKTDFEMLCPAQWVKYFNKRRDYLKYKEKIDKEG 69
BLAST of SMED30029428 vs. Ensembl Nematostella
Match: EDO28917 (Predicted protein [Source:UniProtKB/TrEMBL;Acc:A7T547]) HSP 1 Score: 55.8398 bits (133), Expect = 6.584e-11 Identity = 25/69 (36.23%), Postives = 39/69 (56.52%), Query Frame = -1 Query: 257 PSKEERKKCWESRDEFWHCLDNNNEESEKCLNERKLYEKYCSHQWVNWCT*CRLFITFRFFILTENVHL 463 P+ EER+KC ++RD ++ C+D N ES C + LY+K C WV + R + T++ + TE L Sbjct: 4 PTTEERRKCHQTRDAYFKCVDENGSESALCKEAKALYDKSCPASWVKYFARKRAYDTYKAKLNTEGFKL 72
BLAST of SMED30029428 vs. Ensembl Nematostella
Match: EDO40270 (Predicted protein [Source:UniProtKB/TrEMBL;Acc:A7S7P0]) HSP 1 Score: 55.8398 bits (133), Expect = 9.146e-10 Identity = 25/69 (36.23%), Postives = 39/69 (56.52%), Query Frame = -1 Query: 257 PSKEERKKCWESRDEFWHCLDNNNEESEKCLNERKLYEKYCSHQWVNWCT*CRLFITFRFFILTENVHL 463 P+ EER+KC ++RD ++ C+D N ES C + LY+K C WV + R + T++ + TE L Sbjct: 143 PTTEERRKCHQTRDAYFKCVDENGSESALCKEAKALYDKSCPASWVKYFARKRAYDTYKAKLNTEGFKL 211
BLAST of SMED30029428 vs. Ensembl Medaka
Match: coa6 (cytochrome c oxidase assembly factor 6 homolog [Source:NCBI gene;Acc:101169596]) HSP 1 Score: 54.299 bits (129), Expect = 8.895e-10 Identity = 23/66 (34.85%), Postives = 40/66 (60.61%), Query Frame = -1 Query: 266 PSKEERKKCWESRDEFWHCLDNNNEESEKCLNERKLYEKYCSHQWVNWCT*CRLFITFRFFILTEN 463 P+ ER+ CW++RD W CLD+N++ +E C ++ ++ C QWV + + R F+ ++ I TE Sbjct: 4 PNSAERRVCWDARDLLWKCLDDNHDSAEACQKQQSHFQDKCPAQWVRYFSKRRDFLKYKERIQTEG 69
BLAST of SMED30029428 vs. Planmine SMEST
Match: SMESG000019958.1 (SMESG000019958.1) HSP 1 Score: 107.457 bits (267), Expect = 1.633e-30 Identity = 54/65 (83.08%), Postives = 55/65 (84.62%), Query Frame = -1 Query: 281 MGDPPSKEERKKCWESRDEFWHCLDNNNEESEKCLNERKLYEKYCSHQWVNWCT*CRLFITFRFF 475 MGDPP+KEERKKCWESRDEFWHCLDNNNEESEKCLNERKLYEKYCSHQWV R F FR F Sbjct: 1 MGDPPTKEERKKCWESRDEFWHCLDNNNEESEKCLNERKLYEKYCSHQWVLHFDRKRAFDNFRKF 65 HSP 2 Score: 43.8986 bits (102), Expect = 2.950e-6 Identity = 21/21 (100.00%), Postives = 21/21 (100.00%), Query Frame = -3 Query: 225 VLHFDRKRAFDNFRKFDKKVL 287 VLHFDRKRAFDNFRKFDKKVL Sbjct: 50 VLHFDRKRAFDNFRKFDKKVL 70
BLAST of SMED30029428 vs. Planmine SMEST
Match: SMESG000019957.1 (SMESG000019957.1) HSP 1 Score: 50.447 bits (119), Expect = 1.258e-8 Identity = 26/50 (52.00%), Postives = 33/50 (66.00%), Query Frame = -1 Query: 326 MGDPPSKEERKKCWESRDEFWHCLDNNNEESEKCLNERKLYEKYCSHQWV 475 M P +K ERK CW RD FW+CLD+ +ES C NERK +E+ C +WV Sbjct: 1 MPKPLNKLERKTCWFYRDRFWNCLDSKEDESN-CKNERKQFEESCPQRWV 49 The following BLAST results are available for this feature:
BLAST of SMED30029428 vs. Ensembl Human
Analysis Date: 2016-08-08 (Schmidtea mediterranea smed_20140614 BLASTX Human e!99) Total hits: 4
BLAST of SMED30029428 vs. Ensembl Celegans
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Celegan e!99) Total hits: 0
BLAST of SMED30029428 vs. Ensembl Fly
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Drosophila e!99) Total hits: 0
BLAST of SMED30029428 vs. Ensembl Zebrafish
Analysis Date: 2016-08-08 (Schmidtea mediterranea smed_20140614 BLASTX Zebrafish e!99) Total hits: 2
BLAST of SMED30029428 vs. Ensembl Xenopus
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Xenopus e!99) Total hits: 2
BLAST of SMED30029428 vs. Ensembl Mouse
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Mouse e!99) Total hits: 2
BLAST of SMED30029428 vs. UniProt/SwissProt
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI UniProt) Total hits: 3
BLAST of SMED30029428 vs. TrEMBL
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI TrEMBL) Total hits: 5
BLAST of SMED30029428 vs. Ensembl Cavefish
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Cavefish e!99) Total hits: 1
BLAST of SMED30029428 vs. Ensembl Sea Lamprey
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Sea Lamprey e!99) Total hits: 0
BLAST of SMED30029428 vs. Ensembl Yeast
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Yeast e!Fungi46) Total hits: 0
BLAST of SMED30029428 vs. Ensembl Nematostella
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Nematostella e!Metazoa46) Total hits: 2
BLAST of SMED30029428 vs. Ensembl Medaka
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Medaka e!99) Total hits: 1
BLAST of SMED30029428 vs. Planmine SMEST
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Planmine SMEST) Total hits: 2
Analyses
This transcript is derived from or has results from the following analyses Sequences
The following sequences are available for this feature:
transcript sequence >SMED30029428 ID=SMED30029428|Name=SMED30029428|organism=Schmidtea mediterranea sexual|type=transcript|length=637bpback 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
|