SMED30011561
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., 2020SMED30011561 has been reported as being expressed in these anatomical structures and/or regions. Read more about PAGEPAGE Curations: 7
Homology
BLAST of SMED30011561 vs. TrEMBL
Match: G7YIX3 (Uncharacterized protein OS=Clonorchis sinensis OX=79923 GN=CLF_109072 PE=4 SV=1) HSP 1 Score: 76.6406 bits (187), Expect = 1.000e-10 Identity = 57/175 (32.57%), Postives = 84/175 (48.00%), Query Frame = 1 Query: 808 LYVEKGRTIE--VTAKTNINISS----------NTVLKFDIFTMKGTNEEPVYGDINGHQSN----PNQNLCFIQAIEE--KTSAIYVKSENNFISMLVPFKTNPSSFSVIFPFLNFKCPTTSKKLVLLSISVCESSNV-LASTKFQLVCCTSPNRDMKRHFEKFTSKPSKNKIP 1275 L+ E+GR +E ++ + N SS + L+F F G+ PV G Q P+Q LCFIQ + + + S Y F M + + ++FPFLN +CPT +K V + +SV +S N L T+FQ+VCCTSP RD +R ++ S K P Sbjct: 247 LFAERGRVLETQISYRMATNRSSEHTDRRPLCQDIKLRFLPFNRCGSVVTPVLGFRGPMQKKAYNMPDQ-LCFIQLLGDNVQDSPNYATDSGGFHYMEIRMLDYCDIYQLVFPFLNSQCPTAYRKDVWIRVSVIDSKNKELCQTEFQVVCCTSPVRDCRRLLNRYPSTVKKAPHP 420
BLAST of SMED30011561 vs. TrEMBL
Match: A0A419QEW8 (RNA-directed DNA polymerase from mobile element jockey OS=Clonorchis sinensis OX=79923 GN=pol PE=4 SV=1) HSP 1 Score: 73.9442 bits (180), Expect = 1.204e-9 Identity = 57/175 (32.57%), Postives = 84/175 (48.00%), Query Frame = 1 Query: 808 LYVEKGRTIE--VTAKTNINISS----------NTVLKFDIFTMKGTNEEPVYGDINGHQSN----PNQNLCFIQAIEE--KTSAIYVKSENNFISMLVPFKTNPSSFSVIFPFLNFKCPTTSKKLVLLSISVCESSNV-LASTKFQLVCCTSPNRDMKRHFEKFTSKPSKNKIP 1275 L+ E+GR +E ++ + N SS + L+F F G+ PV G Q P+Q LCFIQ + + + S Y F M + + ++FPFLN +CPT +K V + +SV +S N L T+FQ+VCCTSP RD +R ++ S K P Sbjct: 247 LFAERGRVLETQISYRMATNRSSEHTDRRPLCQDIKLRFLPFNRCGSVVTPVLGFRGPMQKKAYNMPDQ-LCFIQLLGDNVQDSPNYATDSGGFHYMEIRMLDYCDIYQLVFPFLNSQCPTAYRKDVWIRVSVIDSKNKELCQTEFQVVCCTSPVRDCRRLLNRYPSTVKKAPHP 420
BLAST of SMED30011561 vs. TrEMBL
Match: A0A4S2MKD1 (Uncharacterized protein OS=Opisthorchis felineus OX=147828 GN=CRM22_000308 PE=4 SV=1) HSP 1 Score: 72.4034 bits (176), Expect = 1.974e-9 Identity = 53/175 (30.29%), Postives = 79/175 (45.14%), Query Frame = 1 Query: 808 LYVEKGRTIEVTAKTNIN------------ISSNTVLKFDIFTMKGTNEEPVYGDINGHQSN----PNQNLCFIQAIEE--KTSAIYVKSENNFISMLVPFKTNPSSFSVIFPFLNFKCPTTSKKLVLLSISVCESSNV-LASTKFQLVCCTSPNRDMKRHFEKFTSKPSKNKIP 1275 L+ E+GR +E + + + L+F F G+ PV G Q P+Q LCFIQ + + + S Y + F M + + ++FPFLN +CPT +K V + +SV N L T+FQ+VCCTSP RD +R ++ S K P Sbjct: 247 LFAERGRVLETQISYRMATKRPSEHTDRRPLCQDIKLRFMPFNRCGSVVTPVLGFRGPMQKKAYNMPDQ-LCFIQLLADNVQDSPNYATDSSGFHYMEIRMLDYCDIYQLVFPFLNSQCPTAYRKDVWIRVSVINDKNKELCQTEFQVVCCTSPVRDCRRLLNRYPSTVKKAPHP 420
BLAST of SMED30011561 vs. TrEMBL
Match: A0A183MHL1 (Uncharacterized protein OS=Schistosoma margrebowiei OX=48269 GN=SMRZ_LOCUS15536 PE=4 SV=1) HSP 1 Score: 71.633 bits (174), Expect = 3.482e-9 Identity = 43/127 (33.86%), Postives = 71/127 (55.91%), Query Frame = 1 Query: 880 LKFDIFTMKGTNEEPVYGDINGHQSNPN-----QNLCFIQAIEEKTSAIYVKSENNFISMLVPFKTNPSSFSVIFPFLNFKCPTTSKKLVLLSISVC-ESSNVLASTKFQLVCCTSPNRDMKRHFEK 1242 L+F FT+ G P G N PN + LCFIQA++ + Y + ++ M + F + ++FPFLN KCP+T KK V +++++ E+ L+ST+F++V C SP RD +R+ ++ Sbjct: 232 LRFKPFTIFGGICTPAIG-YNDPIQIPNILSKQEQLCFIQAVQNDNNVTYKLMNDGYLVMDIDFNNFCDIYHLVFPFLNSKCPSTWKKDVHITVTLIDENDKELSSTEFEVVSCASPIRDARRYQQR 357
BLAST of SMED30011561 vs. TrEMBL
Match: A0A5J4NRK8 (Uncharacterized protein OS=Paragonimus westermani OX=34504 GN=DEA37_0007158 PE=4 SV=1) HSP 1 Score: 70.0922 bits (170), Expect = 1.050e-8 Identity = 61/215 (28.37%), Postives = 96/215 (44.65%), Query Frame = 1 Query: 646 NRTDNNIYPQSIYQNKEIWLNVGFATPNSFFYKDADKPSKAVTVTHLPNHNYAVLYVEKGRTIEVTA---------KTNINISSNTV-LKFDIFTMKGTNEEPVYGDINGHQSN---PNQNLCFIQAIEEK--TSAIYVKSENNFISMLVPFKTNPSSFSVIFPFLNFKCPTTSKKLVLLSISVCE-SSNVLASTKFQLVCCTSPNRDMKRHFEK 1242 N +D I S N+ L V F + + K K + L + + L+VE+GR +E N ++ N L+F +T G +P G N Q P + LCF+Q E + T Y N ++ + + + ++FPF N +CPTT +K V + ISV + + + L ST FQ+V C +P RD KR ++ Sbjct: 192 NHSDYLIDFSSACSNRTAQLQVTFLPAEANTEEKETKFGKVAKIAKLCD-GTSKLFVERGRLVETCVTLTEFSHLTDENASLRDNGYRLRFIPYTSFGGVCKPAIGYHNQIQKAHYVPTEQLCFVQLFEARLDTWHQYQTDGNGYLFLETVLTSRCGIYQLVFPFHNSQCPTTCRKDVHIRISVVQPNGSELCSTNFQVVSCATPLRDFKRFCQR 405
BLAST of SMED30011561 vs. Planmine SMEST
Match: SMESG000066396.1 (SMESG000066396.1) HSP 1 Score: 735.717 bits (1898), Expect = 0.000e+0 Identity = 360/362 (99.45%), Postives = 360/362 (99.45%), Query Frame = 1 Query: 382 MNDDYFRKIDSDIIGQIKLPSFITFNPSSSQFTLGDYVPENFYIYQDINQYHPDFGQTYEDDSANQCSLPSNSSMSTPDVLQSFQPNPNRTDNNIYPQSIYQNKEIWLNVGFATPNSFFYKDADKPSKAVTVTHLPNHNYAVLYVEKGRTIEVTAKTNINISSNTVLKFDIFTMKGTNEEPVYGDINGHQSNPNQNLCFIQAIEEKTSAIYVKSENNFISMLVPFKTNPSSFSVIFPFLNFKCPTTSKKLVLLSISVCESSNVLASTKFQLVCCTSPNRDMKRHFEKFTSKPSKNKIPSKREKIIIEGKSLQCEPVVNKHNENNEKINGNPQYVIMTENYEIWKILNIVHQQLMEHFDSNKK 1467 MNDDYFRKIDSDIIGQIKLPSFITFNPSSSQFTLGDYVPENFYIYQDINQYHPDFGQTYEDDSANQCSLPSNSSMSTPDVLQSFQPN NRTDNNIYPQSIY NKEIWLNVGFATPNSFFYKDADKPSKAVTVTHLPNHNYAVLYVEKGRTIEVTAKTNINISSNTVLKFDIFTMKGTNEEPVYGDINGHQSNPNQNLCFIQAIEEKTSAIYVKSENNFISMLVPFKTNPSSFSVIFPFLNFKCPTTSKKLVLLSISVCESSNVLASTKFQLVCCTSPNRDMKRHFEKFTSKPSKNKIPSKREKIIIEGKSLQCEPVVNKHNENNEKINGNPQYVIMTENYEIWKILNIVHQQLMEHFDSNKK Sbjct: 1 MNDDYFRKIDSDIIGQIKLPSFITFNPSSSQFTLGDYVPENFYIYQDINQYHPDFGQTYEDDSANQCSLPSNSSMSTPDVLQSFQPNTNRTDNNIYPQSIYPNKEIWLNVGFATPNSFFYKDADKPSKAVTVTHLPNHNYAVLYVEKGRTIEVTAKTNINISSNTVLKFDIFTMKGTNEEPVYGDINGHQSNPNQNLCFIQAIEEKTSAIYVKSENNFISMLVPFKTNPSSFSVIFPFLNFKCPTTSKKLVLLSISVCESSNVLASTKFQLVCCTSPNRDMKRHFEKFTSKPSKNKIPSKREKIIIEGKSLQCEPVVNKHNENNEKINGNPQYVIMTENYEIWKILNIVHQQLMEHFDSNKK 362 The following BLAST results are available for this feature:
BLAST of SMED30011561 vs. Ensembl Human
Analysis Date: 2016-08-08 (Schmidtea mediterranea smed_20140614 BLASTX Human e!99) Total hits: 0
BLAST of SMED30011561 vs. Ensembl Celegans
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Celegan e!99) Total hits: 0
BLAST of SMED30011561 vs. Ensembl Fly
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Drosophila e!99) Total hits: 0
BLAST of SMED30011561 vs. Ensembl Zebrafish
Analysis Date: 2016-08-08 (Schmidtea mediterranea smed_20140614 BLASTX Zebrafish e!99) Total hits: 0
BLAST of SMED30011561 vs. Ensembl Xenopus
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Xenopus e!99) Total hits: 0
BLAST of SMED30011561 vs. Ensembl Mouse
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Mouse e!99) Total hits: 0
BLAST of SMED30011561 vs. UniProt/SwissProt
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI UniProt) Total hits: 0
BLAST of SMED30011561 vs. TrEMBL
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI TrEMBL) Total hits: 5
BLAST of SMED30011561 vs. Ensembl Cavefish
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Cavefish e!99) Total hits: 0
BLAST of SMED30011561 vs. Ensembl Sea Lamprey
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Sea Lamprey e!99) Total hits: 0
BLAST of SMED30011561 vs. Ensembl Yeast
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Yeast e!Fungi46) Total hits: 0
BLAST of SMED30011561 vs. Ensembl Nematostella
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Nematostella e!Metazoa46) Total hits: 0
BLAST of SMED30011561 vs. Ensembl Medaka
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Medaka e!99) Total hits: 0
BLAST of SMED30011561 vs. Planmine SMEST
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Planmine SMEST) Total hits: 1
Analyses
This transcript is derived from or has results from the following analyses Sequences
The following sequences are available for this feature:
transcript sequence >SMED30011561 ID=SMED30011561|Name=SMED30011561|organism=Schmidtea mediterranea sexual|type=transcript|length=2063bpback to top protein sequence of SMED30011561-orf-1 >SMED30011561-orf-1 ID=SMED30011561-orf-1|Name=SMED30011561-orf-1|organism=Schmidtea mediterranea sexual|type=polypeptide|length=363bp MNDDYFRKIDSDIIGQIKLPSFITFNPSSSQFTLGDYVPENFYIYQDINQback 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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