SMED30000682
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., 2020SMED30000682 has been reported as being expressed in these anatomical structures and/or regions. Read more about PAGEPAGE Curations: 12
Alignments
SMED30000682 aligns in the following genomic locations:
Homology
BLAST of SMED30000682 vs. Ensembl Human
Match: C9orf116 (chromosome 9 open reading frame 116 [Source:HGNC Symbol;Acc:HGNC:28435]) HSP 1 Score: 47.3654 bits (111), Expect = 2.325e-7 Identity = 20/60 (33.33%), Postives = 34/60 (56.67%), Query Frame = -3 Query: 27 FRTTSSDYGRLKPNIHTMANVYYTKSQNFTKELGPCGMYRNHSLNM*LQHHFHLLSHRCL 206 +RT++ YG P +H M V+Y S F+++L GM+RN++LN+ L+ C+ Sbjct: 56 YRTSNQAYGSRAPTVHEMPKVFYPNSNKFSQQLAAGGMFRNNTLNVYLEKSIVTGPDNCI 115
BLAST of SMED30000682 vs. Ensembl Fly
Match: CG34107 (gene:FBgn0083943 transcript:FBtr0110787) HSP 1 Score: 44.669 bits (104), Expect = 8.618e-7 Identity = 22/58 (37.93%), Postives = 34/58 (58.62%), Query Frame = -3 Query: 48 NVNPCFRTTSSDYGRLKPNIHTMANVYYTKSQNFTKELGPCGMYRNHSLNM*LQHHFH 221 + N +RT +S+YG PN +T+ +Y Q+F+ E+ GMYRN SLN + F+ Sbjct: 57 DSNTMYRTCNSEYGYYAPNAYTIPKRFYPLPQSFSNEVVRFGMYRNFSLNTHMDRTFY 114
BLAST of SMED30000682 vs. Ensembl Xenopus
Match: tbc1d7 (TBC1 domain family member 7 [Source:Xenbase;Acc:XB-GENE-489046]) HSP 1 Score: 53.5286 bits (127), Expect = 1.580e-9 Identity = 23/45 (51.11%), Postives = 31/45 (68.89%), Query Frame = -3 Query: 72 FRTTSSDYGRLKPNIHTMANVYYTKSQNFTKELGPCGMYRNHSLN 206 F+T+SS+YG L+P T ++ SQ F++ LG CGMYRNHS N Sbjct: 117 FKTSSSEYGALRPTYETAPCSHHPVSQRFSQHLGQCGMYRNHSFN 161
BLAST of SMED30000682 vs. Ensembl Xenopus
Match: ENSXETT00000032208.1 (chromosome unknown C9orf116 homolog [Source:NCBI gene;Acc:101733379]) HSP 1 Score: 43.8986 bits (102), Expect = 3.462e-6 Identity = 26/81 (32.10%), Postives = 38/81 (46.91%), Query Frame = -3 Query: 72 HFKRITFYRIFFTF--KIMSSESVKIEERINV-NPCFRTTSSDYGRLKPNIHTMANVYYTKSQNFTKELGPCGMYRNHSLN 305 H + FYR+ + K E+ + R NP +RT++ YG P +H M + S F++ CGMYRNH N Sbjct: 15 HPQTCDFYRVSESLPPKFNQPETWRRGYRPKTDNPLYRTSNQIYGSRPPTVHEMPTTFNGISDKFSETAVKCGMYRNHGFN 95
BLAST of SMED30000682 vs. UniProt/SwissProt
Match: sp|Q5BN46|CI116_HUMAN (UPF0691 protein C9orf116 OS=Homo sapiens OX=9606 GN=C9orf116 PE=1 SV=1) HSP 1 Score: 47.3654 bits (111), Expect = 1.117e-6 Identity = 20/60 (33.33%), Postives = 34/60 (56.67%), Query Frame = -3 Query: 27 FRTTSSDYGRLKPNIHTMANVYYTKSQNFTKELGPCGMYRNHSLNM*LQHHFHLLSHRCL 206 +RT++ YG P +H M V+Y S F+++L GM+RN++LN+ L+ C+ Sbjct: 56 YRTSNQAYGSRAPTVHEMPKVFYPNSNKFSQQLAAGGMFRNNTLNVYLEKSIVTGPDNCI 115
BLAST of SMED30000682 vs. TrEMBL
Match: A0A1S8WNS5 (Uncharacterized protein OS=Opisthorchis viverrini OX=6198 GN=X801_08080 PE=4 SV=1) HSP 1 Score: 71.633 bits (174), Expect = 2.328e-14 Identity = 29/49 (59.18%), Postives = 38/49 (77.55%), Query Frame = -3 Query: 72 VNPCFRTTSSDYGRLKPNIHTMANVYYTKSQNFTKELGPCGMYRNHSLN 218 +NP +RT++S+YGRLKPN+HTM+ VY+ + F K PCG YRNHSLN Sbjct: 9 INPMYRTSNSEYGRLKPNVHTMSVVYHQRKAEFQKRFAPCGNYRNHSLN 57
BLAST of SMED30000682 vs. TrEMBL
Match: A0A3Q0KUW2 (Uncharacterized protein OS=Schistosoma mansoni OX=6183 PE=4 SV=1) HSP 1 Score: 72.7886 bits (177), Expect = 3.481e-14 Identity = 36/81 (44.44%), Postives = 50/81 (61.73%), Query Frame = -3 Query: 51 FYRI--FFTFKIMSSESVKIEERINVNPCFRTTSSDYGRLKPNIHTMANVYYTKSQNFTKELGPCGMYRNHSLNM*LQHHF 287 +YRI ++ + + +R +NP +RTT+S+YGRLKPN+HTM VYY K+Q F+K G YRNHSLN H + Sbjct: 34 YYRIDKRLPYRFNNPDKFGGYDRPKLNPLYRTTNSEYGRLKPNVHTMNVVYYNKNQEFSKRYMKAGNYRNHSLNTATDHKY 114
BLAST of SMED30000682 vs. TrEMBL
Match: A0A5K4F8I0 (Uncharacterized protein OS=Schistosoma mansoni OX=6183 PE=4 SV=1) HSP 1 Score: 70.8626 bits (172), Expect = 5.629e-14 Identity = 29/46 (63.04%), Postives = 36/46 (78.26%), Query Frame = -3 Query: 72 CFRTTSSDYGRLKPNIHTMANVYYTKSQNFTKELGPCGMYRNHSLN 209 F+TTSSDYG+ PN+HTM NVY+ +F++ LG CGMYRNHSLN Sbjct: 18 LFKTTSSDYGKFAPNVHTMPNVYFPLKGDFSQHLGKCGMYRNHSLN 63
BLAST of SMED30000682 vs. TrEMBL
Match: A0A1I8IJ88 (Uncharacterized protein OS=Macrostomum lignano OX=282301 PE=4 SV=1) HSP 1 Score: 71.2478 bits (173), Expect = 9.632e-14 Identity = 28/49 (57.14%), Postives = 39/49 (79.59%), Query Frame = -3 Query: 72 VNPCFRTTSSDYGRLKPNIHTMANVYYTKSQNFTKELGPCGMYRNHSLN 218 V+P +RTT+SDYG++ P +HTM ++ SQ F++ELG CGMYRNHS+N Sbjct: 49 VHPMYRTTASDYGKMSPTVHTMPTTFHPVSQTFSEELGQCGMYRNHSMN 97
BLAST of SMED30000682 vs. TrEMBL
Match: A0A267EIF5 (Uncharacterized protein (Fragment) OS=Macrostomum lignano OX=282301 GN=BOX15_Mlig001436g3 PE=4 SV=1) HSP 1 Score: 70.8626 bits (172), Expect = 1.529e-13 Identity = 28/49 (57.14%), Postives = 39/49 (79.59%), Query Frame = -3 Query: 72 VNPCFRTTSSDYGRLKPNIHTMANVYYTKSQNFTKELGPCGMYRNHSLN 218 V+P +RTT+SDYG++ P +HTM ++ SQ F++ELG CGMYRNHS+N Sbjct: 54 VHPMYRTTASDYGKMSPTVHTMPTTFHPVSQTFSEELGQCGMYRNHSMN 102
BLAST of SMED30000682 vs. Ensembl Nematostella
Match: EDO42553 (Predicted protein [Source:UniProtKB/TrEMBL;Acc:A7S180]) HSP 1 Score: 61.6178 bits (148), Expect = 8.129e-14 Identity = 26/48 (54.17%), Postives = 33/48 (68.75%), Query Frame = -3 Query: 72 NPCFRTTSSDYGRLKPNIHTMANVYYTKSQNFTKELGPCGMYRNHSLN 215 NP + T+S +YG +P +HTM ++ K Q FT LG CGMYRNHSLN Sbjct: 59 NPMYMTSSQEYGNRRPTVHTMPTSFHAKCQKFTDHLGKCGMYRNHSLN 106
BLAST of SMED30000682 vs. Ensembl Medaka
Match: ENSORLT00000019378.2 (pep primary_assembly:ASM223467v1:6:27927387:27931296:1 gene:ENSORLG00000015479.2 transcript:ENSORLT00000019378.2 gene_biotype:protein_coding transcript_biotype:protein_coding) HSP 1 Score: 46.2098 bits (108), Expect = 2.312e-7 Identity = 22/45 (48.89%), Postives = 28/45 (62.22%), Query Frame = -3 Query: 72 FRTTSSDYGRLKPNIHTMANVYYTKSQNFTKELGPCGMYRNHSLN 206 +RTTS DYG L P + Y+ KSQ F++ L GMYRN+S N Sbjct: 58 YRTTSRDYGLLPPTSESAPCTYHPKSQTFSEHLSKAGMYRNNSFN 102
BLAST of SMED30000682 vs. Planmine SMEST
Match: SMESG000032075.1 (SMESG000032075.1) HSP 1 Score: 56.225 bits (134), Expect = 2.943e-11 Identity = 23/50 (46.00%), Postives = 37/50 (74.00%), Query Frame = -3 Query: 69 VNPCFRTTSSDYGRLKPNIHTMANVYYTKSQNFTKELGPCGMYRNHSLNM 218 NP +RTT+ +YGR+ PNIHTM ++ +++ FTK GP G Y+++S+N+ Sbjct: 77 TNPMYRTTNHEYGRIPPNIHTMPVIFRSRNNFFTKRYGPSGNYKDNSMNI 126
BLAST of SMED30000682 vs. Planmine SMEST
Match: SMESG000032075.1 (SMESG000032075.1) HSP 1 Score: 56.225 bits (134), Expect = 3.195e-11 Identity = 23/50 (46.00%), Postives = 37/50 (74.00%), Query Frame = -3 Query: 69 VNPCFRTTSSDYGRLKPNIHTMANVYYTKSQNFTKELGPCGMYRNHSLNM 218 NP +RTT+ +YGR+ PNIHTM ++ +++ FTK GP G Y+++S+N+ Sbjct: 80 TNPMYRTTNHEYGRIPPNIHTMPVIFRSRNNFFTKRYGPSGNYKDNSMNI 129
BLAST of SMED30000682 vs. Planmine SMEST
Match: SMESG000032541.1 (SMESG000032541.1) HSP 1 Score: 46.2098 bits (108), Expect = 4.894e-7 Identity = 19/46 (41.30%), Postives = 31/46 (67.39%), Query Frame = -3 Query: 69 FRTTSSDYGRLKPNIHTMANVYYTKSQNFTKELGPCGMYRNHSLNM 206 ++TT+S+YG+ +PN+HTM VY + F+K G G ++HS N+ Sbjct: 176 YQTTNSEYGKHRPNVHTMPTVYKRQDHGFSKRYGRYGPPKDHSFNI 221 The following BLAST results are available for this feature:
BLAST of SMED30000682 vs. Ensembl Human
Analysis Date: 2016-08-08 (Schmidtea mediterranea smed_20140614 BLASTX Human e!99) Total hits: 1
BLAST of SMED30000682 vs. Ensembl Celegans
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Celegan e!99) Total hits: 0
BLAST of SMED30000682 vs. Ensembl Fly
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Drosophila e!99) Total hits: 1
BLAST of SMED30000682 vs. Ensembl Zebrafish
Analysis Date: 2016-08-08 (Schmidtea mediterranea smed_20140614 BLASTX Zebrafish e!99) Total hits: 0
BLAST of SMED30000682 vs. Ensembl Xenopus
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Xenopus e!99) Total hits: 2
BLAST of SMED30000682 vs. Ensembl Mouse
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Mouse e!99) Total hits: 0
BLAST of SMED30000682 vs. UniProt/SwissProt
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI UniProt) Total hits: 1
BLAST of SMED30000682 vs. TrEMBL
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI TrEMBL) Total hits: 5
BLAST of SMED30000682 vs. Ensembl Cavefish
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Cavefish e!99) Total hits: 0
BLAST of SMED30000682 vs. Ensembl Sea Lamprey
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Sea Lamprey e!99) Total hits: 0
BLAST of SMED30000682 vs. Ensembl Yeast
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Yeast e!Fungi46) Total hits: 0
BLAST of SMED30000682 vs. Ensembl Nematostella
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Nematostella e!Metazoa46) Total hits: 1
BLAST of SMED30000682 vs. Ensembl Medaka
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Medaka e!99) Total hits: 1
BLAST of SMED30000682 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 >SMED30000682 ID=SMED30000682|Name=SMED30000682|organism=Schmidtea mediterranea sexual|type=transcript|length=328bpback 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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