SMED30029603
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., 2020SMED30029603 has been reported as being expressed in these anatomical structures and/or regions. Read more about PAGEPAGE Curations: 14
Alignments
SMED30029603 aligns in the following genomic locations:
Homology
BLAST of SMED30029603 vs. Ensembl Mouse
Match: Qrich2 (glutamine rich 2 [Source:MGI Symbol;Acc:MGI:2684912]) HSP 1 Score: 48.521 bits (114), Expect = 9.023e-6 Identity = 43/122 (35.25%), Postives = 51/122 (41.80%), Query Frame = 2 Query: 305 GHVQPGVIHGGYPSTGMPGYSPGMSNYTPGMPNQHGSVYQPGMVYPAAGQTGMGYPSAAQPGMGYPPVGQPGMGYPPVGQPGIGYPPAGQPGM------NCSNTQPGMSYPSAPPGGVAYPS 652 G VQPG+ G G+ PGM QPG++ P Q G+ P A QPG+ P QPG+ P QPG P A QPG QPGM P A P G+ P Sbjct: 1339 GLVQPGMEQLGEERRGL--LQPGMD--------------QPGLLQPGTDQPGLLQPGADQPGLLQPGADQPGLLQPGADQPGFLQPGADQPGFLQPGAARLDRIQPGMVEPGAGPQGLGQPD 1444
BLAST of SMED30029603 vs. UniProt/SwissProt
Match: sp|Q25434|FP1_MYTCO (Adhesive plaque matrix protein OS=Mytilus coruscus OX=42192 GN=FP1 PE=2 SV=1) HSP 1 Score: 50.8322 bits (120), Expect = 9.095e-6 Identity = 26/73 (35.62%), Postives = 41/73 (56.16%), Query Frame = 2 Query: 407 HGSVYQPGMVYPAAGQTGMGYPSAAQPGMGYPPVGQPGMGYPPVGQPGIGYPPAGQPGMNC-SNTQPGMSYPS 622 + S Y+P + YP + Y S+ +P + YPP +P + YPP +P I YPP +P ++ +P +SYPS Sbjct: 798 YASSYKPKIRYPPTYKPKPSYASSYKPKITYPPTYKPKISYPPTYKPKITYPPTYKPKISYPPAYKPKISYPS 870
BLAST of SMED30029603 vs. TrEMBL
Match: A0A3Q3KG26 (Uncharacterized protein OS=Monopterus albus OX=43700 PE=4 SV=1) HSP 1 Score: 58.5362 bits (140), Expect = 1.513e-6 Identity = 28/65 (43.08%), Postives = 42/65 (64.62%), Query Frame = -1 Query: 424 YDIPG*VLEQF-IPGCPAGGYPIPGCPTGGYPIPGCPTGGYPIPGCAAEGYPIPVCPAAGYTIPG 615 YD+PG + +PGC +G Y +PGC +G Y +PGC +G Y +PGC++ Y +P C + Y +PG Sbjct: 11 YDVPGCSSGTYDVPGCSSGTYDVPGCSSGTYDVPGCSSGTYDVPGCSSGTYDVPGCSSGTYDVPG 75 HSP 2 Score: 58.5362 bits (140), Expect = 1.513e-6 Identity = 28/65 (43.08%), Postives = 42/65 (64.62%), Query Frame = -1 Query: 424 YDIPG*VLEQF-IPGCPAGGYPIPGCPTGGYPIPGCPTGGYPIPGCAAEGYPIPVCPAAGYTIPG 615 YD+PG + +PGC +G Y +PGC +G Y +PGC +G Y +PGC++ Y +P C + Y +PG Sbjct: 21 YDVPGCSSGTYDVPGCSSGTYDVPGCSSGTYDVPGCSSGTYDVPGCSSGTYDVPGCSSGTYDVPG 85 HSP 3 Score: 58.5362 bits (140), Expect = 1.513e-6 Identity = 28/65 (43.08%), Postives = 42/65 (64.62%), Query Frame = -1 Query: 424 YDIPG*VLEQF-IPGCPAGGYPIPGCPTGGYPIPGCPTGGYPIPGCAAEGYPIPVCPAAGYTIPG 615 YD+PG + +PGC +G Y +PGC +G Y +PGC +G Y +PGC++ Y +P C + Y +PG Sbjct: 31 YDVPGCSSGTYDVPGCSSGTYDVPGCSSGTYDVPGCSSGTYDVPGCSSGTYDVPGCSSGTYDVPG 95 HSP 4 Score: 58.5362 bits (140), Expect = 1.513e-6 Identity = 28/65 (43.08%), Postives = 42/65 (64.62%), Query Frame = -1 Query: 424 YDIPG*VLEQF-IPGCPAGGYPIPGCPTGGYPIPGCPTGGYPIPGCAAEGYPIPVCPAAGYTIPG 615 YD+PG + +PGC +G Y +PGC +G Y +PGC +G Y +PGC++ Y +P C + Y +PG Sbjct: 41 YDVPGCSSGTYDVPGCSSGTYDVPGCSSGTYDVPGCSSGTYDVPGCSSGTYDVPGCSSGTYDVPG 105 HSP 5 Score: 58.5362 bits (140), Expect = 1.513e-6 Identity = 28/65 (43.08%), Postives = 42/65 (64.62%), Query Frame = -1 Query: 424 YDIPG*VLEQF-IPGCPAGGYPIPGCPTGGYPIPGCPTGGYPIPGCAAEGYPIPVCPAAGYTIPG 615 YD+PG + +PGC +G Y +PGC +G Y +PGC +G Y +PGC++ Y +P C + Y +PG Sbjct: 51 YDVPGCSSGTYDVPGCSSGTYDVPGCSSGTYDVPGCSSGTYDVPGCSSGTYDVPGCSSGTYDVPG 115 HSP 6 Score: 58.5362 bits (140), Expect = 1.513e-6 Identity = 28/65 (43.08%), Postives = 42/65 (64.62%), Query Frame = -1 Query: 424 YDIPG*VLEQF-IPGCPAGGYPIPGCPTGGYPIPGCPTGGYPIPGCAAEGYPIPVCPAAGYTIPG 615 YD+PG + +PGC +G Y +PGC +G Y +PGC +G Y +PGC++ Y +P C + Y +PG Sbjct: 61 YDVPGCSSGTYDVPGCSSGTYDVPGCSSGTYDVPGCSSGTYDVPGCSSGTYDVPGCSSGTYDVPG 125 HSP 7 Score: 58.5362 bits (140), Expect = 1.513e-6 Identity = 28/65 (43.08%), Postives = 42/65 (64.62%), Query Frame = -1 Query: 424 YDIPG*VLEQF-IPGCPAGGYPIPGCPTGGYPIPGCPTGGYPIPGCAAEGYPIPVCPAAGYTIPG 615 YD+PG + +PGC +G Y +PGC +G Y +PGC +G Y +PGC++ Y +P C + Y +PG Sbjct: 71 YDVPGCSSGTYDVPGCSSGTYDVPGCSSGTYDVPGCSSGTYDVPGCSSGTYDVPGCSSGTYDVPG 135 HSP 8 Score: 58.5362 bits (140), Expect = 1.513e-6 Identity = 28/65 (43.08%), Postives = 42/65 (64.62%), Query Frame = -1 Query: 424 YDIPG*VLEQF-IPGCPAGGYPIPGCPTGGYPIPGCPTGGYPIPGCAAEGYPIPVCPAAGYTIPG 615 YD+PG + +PGC +G Y +PGC +G Y +PGC +G Y +PGC++ Y +P C + Y +PG Sbjct: 81 YDVPGCSSGTYDVPGCSSGTYDVPGCSSGTYDVPGCSSGTYDVPGCSSGTYDVPGCSSGTYDVPG 145 HSP 9 Score: 58.5362 bits (140), Expect = 1.513e-6 Identity = 28/65 (43.08%), Postives = 42/65 (64.62%), Query Frame = -1 Query: 424 YDIPG*VLEQF-IPGCPAGGYPIPGCPTGGYPIPGCPTGGYPIPGCAAEGYPIPVCPAAGYTIPG 615 YD+PG + +PGC +G Y +PGC +G Y +PGC +G Y +PGC++ Y +P C + Y +PG Sbjct: 91 YDVPGCSSGTYDVPGCSSGTYDVPGCSSGTYDVPGCSSGTYDVPGCSSGTYDVPGCSSGTYDVPG 155 HSP 10 Score: 58.5362 bits (140), Expect = 1.513e-6 Identity = 28/65 (43.08%), Postives = 42/65 (64.62%), Query Frame = -1 Query: 424 YDIPG*VLEQF-IPGCPAGGYPIPGCPTGGYPIPGCPTGGYPIPGCAAEGYPIPVCPAAGYTIPG 615 YD+PG + +PGC +G Y +PGC +G Y +PGC +G Y +PGC++ Y +P C + Y +PG Sbjct: 101 YDVPGCSSGTYDVPGCSSGTYDVPGCSSGTYDVPGCSSGTYDVPGCSSGTYDVPGCSSGTYDVPG 165 HSP 11 Score: 58.5362 bits (140), Expect = 1.513e-6 Identity = 28/65 (43.08%), Postives = 42/65 (64.62%), Query Frame = -1 Query: 424 YDIPG*VLEQF-IPGCPAGGYPIPGCPTGGYPIPGCPTGGYPIPGCAAEGYPIPVCPAAGYTIPG 615 YD+PG + +PGC +G Y +PGC +G Y +PGC +G Y +PGC++ Y +P C + Y +PG Sbjct: 111 YDVPGCSSGTYDVPGCSSGTYDVPGCSSGTYDVPGCSSGTYDVPGCSSGTYDVPGCSSGTYDVPG 175 HSP 12 Score: 58.5362 bits (140), Expect = 1.513e-6 Identity = 28/65 (43.08%), Postives = 42/65 (64.62%), Query Frame = -1 Query: 424 YDIPG*VLEQF-IPGCPAGGYPIPGCPTGGYPIPGCPTGGYPIPGCAAEGYPIPVCPAAGYTIPG 615 YD+PG + +PGC +G Y +PGC +G Y +PGC +G Y +PGC++ Y +P C + Y +PG Sbjct: 121 YDVPGCSSGTYDVPGCSSGTYDVPGCSSGTYDVPGCSSGTYDVPGCSSGTYDVPGCSSGTYDVPG 185
BLAST of SMED30029603 vs. TrEMBL
Match: A0A2T6C4A6 (Uncharacterized protein DUF4397 OS=Melghirimyces profundicolus OX=1242148 GN=C8P63_1047 PE=4 SV=1) HSP 1 Score: 60.077 bits (144), Expect = 1.515e-6 Identity = 36/67 (53.73%), Postives = 43/67 (64.18%), Query Frame = 2 Query: 422 QPGMVYPAAGQTGMGYPSAAQPGMGYPPVGQPGMGYPPVGQPGIGYPPAGQPGMNCSNT-QPGMSYP 619 QPGM +P GQ GMG+P QPGMG+P GQP MG+P GQP +G+P GQP M QP M +P Sbjct: 33 QPGMGFPGFGQPGMGFPGFGQPGMGFPGFGQPDMGFPGFGQPDMGFPGFGQPDMGFPGFGQPDMGFP 99
BLAST of SMED30029603 vs. TrEMBL
Match: A0A1C6V5H1 (Histidine kinase OS=Micromonospora chersina OX=47854 GN=GA0070603_3236 PE=4 SV=1) HSP 1 Score: 60.4622 bits (145), Expect = 2.277e-6 Identity = 26/53 (49.06%), Postives = 35/53 (66.04%), Query Frame = -1 Query: 424 IPGCPAGGYPIPGCPTGGYPIPGCPTGGYPIPGCAAEGYPIPVCPAAGYTIPG 582 + G PA GYP+ G P+ GYP+ G P+ GYP+ G A+GYP+ PA GY + G Sbjct: 848 VSGSPASGYPVSGAPSSGYPVSGAPSAGYPVSGSPAQGYPVSGSPAQGYPVSG 900
BLAST of SMED30029603 vs. TrEMBL
Match: A0A5F5Y508 (Uncharacterized protein OS=Felis catus OX=9685 GN=QRICH2 PE=4 SV=1) HSP 1 Score: 59.3066 bits (142), Expect = 5.296e-6 Identity = 59/149 (39.60%), Postives = 72/149 (48.32%), Query Frame = 2 Query: 260 GGHIYPGQPNTFHVT-GHVQPGVIHGGYPSTGMPGY-SPGMSNYTPGMPN--QHGSVY----QPGMVYPAAGQTGMGYPSAAQPGMGYPPVGQPGMGYPPVGQPGIGYPPAGQPGMNCSNTQPGMSYPSAPPGGVAYP-SGPTSGYNPG 679 GG + PG V G QPG++ P G PG PGM P Q G V QPG+V P AGQ G+ +QPG+ P +GQP + P GQPG G P QPGM+ Q G+ YP A GG+A P +G PG Sbjct: 1058 GGLVQPGMDQHVLVQPGAAQPGLVQ---PGAGQPGLVQPGMDQRGLAQPGAGQPGLVQPGAGQPGLVQPGAGQPGLVQSGVSQPGLVQPQMGQPALVQPGAGQPGAGQPGLVQPGMD----QRGLVYPGADQGGLAQPGAGQLDLVQPG 1199
BLAST of SMED30029603 vs. Ensembl Cavefish
Match: ENSAMXT00000040031.1 (pep primary_assembly:Astyanax_mexicanus-2.0:17:18801069:18809124:-1 gene:ENSAMXG00000041443.1 transcript:ENSAMXT00000040031.1 gene_biotype:protein_coding transcript_biotype:protein_coding) HSP 1 Score: 48.521 bits (114), Expect = 3.893e-6 Identity = 19/57 (33.33%), Postives = 25/57 (43.86%), Query Frame = -1 Query: 424 LEQFIPGCPAGGYPIPGCPTGGYPIPGCPTGGYPIPGCAAEGYPIPVCPAAGYTIPG 594 F+P PA P+P P P+P P P+P A P+P PAA +P Sbjct: 23 ASDFVPAAPAASDPVPAAPAASDPVPAAPAASDPVPAAPAASDPVPAAPAASDPVPA 79
BLAST of SMED30029603 vs. Ensembl Nematostella
Match: EDO41408 (Predicted protein [Source:UniProtKB/TrEMBL;Acc:A7S4G4]) HSP 1 Score: 48.521 bits (114), Expect = 1.284e-6 Identity = 20/49 (40.82%), Postives = 25/49 (51.02%), Query Frame = -1 Query: 436 IPGCPAGGYPIPGCPTGGYPIPGCPTGGYPIPGCAAEGYPIPVCPAAGY 582 + C GYP+ C GYP+ C GYP+ C +GYPI C GY Sbjct: 4 VSACVCKGYPVSACVCKGYPVSACVCKGYPVSACVCKGYPISTCVCKGY 52 HSP 2 Score: 48.1358 bits (113), Expect = 1.539e-6 Identity = 21/49 (42.86%), Postives = 25/49 (51.02%), Query Frame = -1 Query: 436 IPGCPAGGYPIPGCPTGGYPIPGCPTGGYPIPGCAAEGYPIPVCPAAGY 582 + C GYP+ C GYP+ C GYPI C +GYPI C GY Sbjct: 14 VSACVCKGYPVSACVCKGYPVSACVCKGYPISTCVCKGYPISACVCKGY 62
BLAST of SMED30029603 vs. Planmine SMEST
Match: SMESG000071278.1 (SMESG000071278.1) HSP 1 Score: 102.064 bits (253), Expect = 7.620e-27 Identity = 49/71 (69.01%), Postives = 50/71 (70.42%), Query Frame = 3 Query: 294 FMLLDMYNQASFMGGTRQPECPVIHRECLITHQGCPINMGRFINLEWYIQQRDKLEWGIPQQRNLEWGIPQ 506 F + GG P ECLITHQGCPINMGRFINLEWYIQQRDKLEWGIPQQRNLEWGIPQ Sbjct: 58 FHVTGHVQPGVIHGGYPSTGMPGYSPECLITHQGCPINMGRFINLEWYIQQRDKLEWGIPQQRNLEWGIPQ 128 HSP 2 Score: 83.9593 bits (206), Expect = 7.162e-20 Identity = 52/106 (49.06%), Postives = 57/106 (53.77%), Query Frame = 2 Query: 185 GNIRITKEFKK*KNNPRLY*FLF*HGGHIYPGQPNTFHVTGHVQPGVIHGGYPSTGMPGYSPGMSNYTPGMPNQHGSVYQPGMVYPAAGQTGMGYPSAAQPGMGYP 502 GN + KE K+ K +L + HGGHIYPGQPNTFHVTGHVQPGVIHGGYPSTGMPGYSP G P G + G P G P Sbjct: 25 GNHSMKKEMKRQK---KLMKKMAKHGGHIYPGQPNTFHVTGHVQPGVIHGGYPSTGMPGYSPECLITHQGCPINMGRFINLEWYIQQRDKLEWGIPQQRNLEWGIP 127
BLAST of SMED30029603 vs. Planmine SMEST
Match: SMESG000071344.1 (SMESG000071344.1) HSP 1 Score: 65.4698 bits (158), Expect = 6.244e-13 Identity = 55/127 (43.31%), Postives = 67/127 (52.76%), Query Frame = 2 Query: 350 GMPGYSPGMSNYTPGMPN---------QHGSVYQPGMVYPAAGQTGMGYPSAAQPGMGYPPVGQPGMGYPPVGQPGIGYPPAGQPGMNCSNTQPGMSYPSAPPGGVAYPSGPTSGYNPGVPPANYPH 703 G+P YSPGMSNY PGMP + S Y PG+ P Y S A P + Q YPP + G+ P GQPG+ CS +PG+ YPSAPP + YPS P+S Y PG P NYP+ Sbjct: 27 GVPNYSPGMSNYRPGMPGYLPGVQNCPSNSSQYTPGV--PNYSSAVPNY-SPAVPNYSHAVHNQHEAFYPPTVEAGMISCPVGQPGIMCSENEPGIPYPSAPPIIMDYPSYPSSCYTPGT-PNNYPY 149 The following BLAST results are available for this feature:
BLAST of SMED30029603 vs. Ensembl Human
Analysis Date: 2016-08-08 (Schmidtea mediterranea smed_20140614 BLASTX Human e!99) Total hits: 0
BLAST of SMED30029603 vs. Ensembl Celegans
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Celegan e!99) Total hits: 0
BLAST of SMED30029603 vs. Ensembl Fly
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Drosophila e!99) Total hits: 0
BLAST of SMED30029603 vs. Ensembl Zebrafish
Analysis Date: 2016-08-08 (Schmidtea mediterranea smed_20140614 BLASTX Zebrafish e!99) Total hits: 0
BLAST of SMED30029603 vs. Ensembl Xenopus
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Xenopus e!99) Total hits: 0
BLAST of SMED30029603 vs. Ensembl Mouse
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Mouse e!99) Total hits: 1
BLAST of SMED30029603 vs. UniProt/SwissProt
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI UniProt) Total hits: 1
BLAST of SMED30029603 vs. TrEMBL
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI TrEMBL) Total hits: 4
BLAST of SMED30029603 vs. Ensembl Cavefish
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Cavefish e!99) Total hits: 1
BLAST of SMED30029603 vs. Ensembl Sea Lamprey
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Sea Lamprey e!99) Total hits: 0
BLAST of SMED30029603 vs. Ensembl Yeast
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Yeast e!Fungi46) Total hits: 0
BLAST of SMED30029603 vs. Ensembl Nematostella
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Nematostella e!Metazoa46) Total hits: 1
BLAST of SMED30029603 vs. Ensembl Medaka
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Medaka e!99) Total hits: 0
BLAST of SMED30029603 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 >SMED30029603 ID=SMED30029603|Name=SMED30029603|organism=Schmidtea mediterranea sexual|type=transcript|length=891bpback to top protein sequence of SMED30029603-orf-1 >SMED30029603-orf-1 ID=SMED30029603-orf-1|Name=SMED30029603-orf-1|organism=Schmidtea mediterranea sexual|type=polypeptide|length=118bp MPGYSPGMSNYTPGMPNQHGSVYQPGMVYPAAGQTGMGYPSAAQPGMGYPback to top Annotated Terms
The following terms have been associated with this transcript:
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