GCR148
Overview
Neoblast Clusters
Zeng et. al., 2018▻ Overview▻ 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 AppSub-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., 2020SMED30024905 has been reported as being expressed in these anatomical structures and/or regions. Read more about PAGEPAGE Curations: 5
Homology
BLAST of GCR148 vs. TrEMBL
Match: A0A193KUE9 (GCR146 OS=Schmidtea mediterranea OX=79327 GN=gcr146 PE=2 SV=1) HSP 1 Score: 70.4774 bits (171), Expect = 1.581e-10 Identity = 54/221 (24.43%), Postives = 108/221 (48.87%), Query Frame = 2 Query: 8 GDSILFVGFRYLFICLFLSLNIVLLAFLFKHQMASKTATLLIKFQTXXXXXXXXXXXXXXXKEELPFRTKSEAYGLFYCYFTFTDTLVYVLINSSIFLMVSLSVDRFICIVFPLFYRRKCNKCVYIYIIPSILCGIVVFVPYCYFTEI---EIRETNSTEMDLNYIFSCTLSKSLIATLIYLIMYAISPVTIILLLNILSIKCLIQSLKNINKSVKSRKRM 661 GD+ +F GFR + +NI FK ++ S+ LI+ Q+++ I+++ +E F +++ Y +FYCY + ++ S+++M +S DRFICIVFPL+Y++ + ++I ++ C +V C + I I + N+T++ + CT ++ +I + + P+ + N +S + L ++ K + KR+ Sbjct: 10 GDNEIFFGFRASLLIFLCIINIYFFIVSFKFKITSRNGLTLIRCQSVVSFILIVIYFFDYFRENEKFSNENKIYSIFYCYIWYFSIFYWIFSTISVYIMALISFDRFICIVFPLYYKKLTVRFIFILLLIMSFCVSIV----CVVSTILYVNIAKNNNTDL-----YFCTSKITISGAIINTCFHGLIPIISLAGFNAMSARNLARNSKTQLLRLDDIKRL 221
BLAST of GCR148 vs. TrEMBL
Match: A0A193KUN8 (GCR148 OS=Schmidtea mediterranea OX=79327 GN=gcr148 PE=2 SV=1) HSP 1 Score: 62.3882 bits (150), Expect = 9.198e-8 Identity = 61/243 (25.10%), Postives = 118/243 (48.56%), Query Frame = 2 Query: 8 GDSILFVGFRYLFICLFLSLNIVLLAFLFKHQMASKTATLLIKFQTXXXXXXXXXXXXXXXKEELPFRTKSEAYGLFYCYFTFTDTLVYVLINSSIFLMVSLSVDRFICIVFPLFYRRKCNKCVYIYIIPSIL----CGIVVFVPYCYFTEIEIRETNSTEMDLNYIFSCTLSKSLIATLIYLIMYAISPVTIILLLNILSIKCLIQSLKNI---NKSVK--SRKRMITKFTIANIFSNFFYT 709 GD+ +F G R + N+ FK ++ S LI+ Q+++ ++LI + KE F ++++ Y +FYCY + ++ SI+ M+ +S DRF+CIVFPL+Y++ + I +I G+V+ + I++ N+T + CT +L +I L + + P+ + L N++S + L+++ K + ++K RK + +F+I+ FY+ Sbjct: 10 GDNEIFFGLRSGLVIFLFFTNLFFFIVSFKIKITSTNGLALIRCQSVVSFVLLITYVLDFFKETEIFPSENKFYSIFYCYILHFSFIYWIFCAISIYTMILISFDRFVCIVFPLYYKKLTKRFTIISLISISSFVFSYGLVISM-----NNIKLEIINNTGNQNKQPYICTTKFTLTDIIINLCVQGMIPLISLALFNVMSARSLLRNSKTQLLRSDAIKRLKRKNLFYRFSISTFIMTLFYS 247
BLAST of GCR148 vs. Planmine SMEST
Match: SMESG000000478.1 (SMESG000000478.1) HSP 1 Score: 155.606 bits (392), Expect = 5.873e-46 Identity = 101/231 (43.72%), Postives = 151/231 (65.37%), Query Frame = 2 Query: 5 LGDSILFVGFRYLFICLFLSLNIVLLAFLFKHQMASKTATLLIKFQTXXXXXXXXXXXXXXXKEELPFRTKSEAYGLFYCYFTFTDTLVYVLINSSIFLMVSLSVDRFICIVFPLFYRRKCNKCVYIYIIPSILCGIVVFVPYCYFTEIEIRETNSTEMDLNYIFSCTLSKSLIATLIYLIMYAISPVTIILLLNILSIKCLIQSLKN-INKS----VKSRKRMITKFTIA 682 LGDS+ F+ RY + +F +N++LL F+ KH++ASK A+ LIK +T D+IVL+ + KE F++ +Y FYCYF F + L + ++ SI+LM+SLS+DRF+CIV P +Y+R VY YII SI+ G++ +F +I++ N T L +SC L KS+ T++Y++ YAI PV +I++LNILSIK L+ SLKN +N S V SRK++I +FT+A Sbjct: 8 LGDSLAFILIRYAIVLIFFIINLILLIFISKHKIASKNASSLIKTETCFDLIVLLCLVFSMFKEHPVFQSHDVSYVRFYCYFIFGNQLFWSMLTISIYLMISLSIDRFVCIVLPFYYKRVKRITVYFYIISSIVFGLLFGFVNLFFIKIKVIRKNETNRQLKVNYSCPLPKSVTNTIVYILTYAIGPVIVIVILNILSIKSLVHSLKNKVNSSTNPIVFSRKKVIMRFTVA 238
BLAST of GCR148 vs. Planmine SMEST
Match: SMESG000056470.1 (SMESG000056470.1) HSP 1 Score: 54.6842 bits (130), Expect = 1.098e-8 Identity = 56/232 (24.14%), Postives = 107/232 (46.12%), Query Frame = 2 Query: 8 GDSILFVGFRYLFICLFLSLNIVLLAFLFKHQMASKTATLLIKFQTXXXXXXXXXXXXXXXKEELPFRTKSEAYGLFYCYFTFTDTLVYVLINSSIFLMVSLSVDRFICIVFPLFYRRKCNKCVYIYIIPSILCGIVVFVPYCYF-----TEIEIRETNSTEMDLNYIFSCTLSKSLIATL------IYLIMYAISPVTIILLLNILSIKCLIQSLKNINKSVKSRKRMITK 670 D+ F FR + + N+ L+ FL ++ SK ++ L+KFQ+ +D++ I + + + +GL YC F + T +++ + S + ++ S+DRFI I+FP YR K +Y + G++V V +C T R ++ + Y+ T S T ++LI + P+ ++++NI I CL + + I+ KR +++ Sbjct: 10 SDTEAFFSFRVCLVVIGFIFNVFLILFLRHERIGSKKSSFLVKFQSSVDLVGSIGVLMAMFSNDSSITDLDYIFGLIYCKFLYVKTTLWLCLEISTYTLLLTSIDRFIAILFPFKYREI--KLLYYQL------GLLVAVVFCVLFISPVTFETYRREYLSKSNGTYVTKVTCSYQSRDTFWVTYSYLWLIFSFLLPLLCLMIINIKIISCLTKFNETISSQSNEIKRKLSR 233 The following BLAST results are available for this feature:
BLAST of GCR148 vs. Ensembl Human
Analysis Date: 2016-08-08 (Schmidtea mediterranea smed_20140614 BLASTX Human e!99) Total hits: 0
BLAST of GCR148 vs. Ensembl Celegans
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Celegan e!99) Total hits: 0
BLAST of GCR148 vs. Ensembl Fly
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Drosophila e!99) Total hits: 0
BLAST of GCR148 vs. Ensembl Zebrafish
Analysis Date: 2016-08-08 (Schmidtea mediterranea smed_20140614 BLASTX Zebrafish e!99) Total hits: 0
BLAST of GCR148 vs. Ensembl Xenopus
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Xenopus e!99) Total hits: 0
BLAST of GCR148 vs. Ensembl Mouse
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Mouse e!99) Total hits: 0
BLAST of GCR148 vs. UniProt/SwissProt
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI UniProt) Total hits: 0
BLAST of GCR148 vs. TrEMBL
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI TrEMBL) Total hits: 2
BLAST of GCR148 vs. Ensembl Cavefish
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Cavefish e!99) Total hits: 0
BLAST of GCR148 vs. Ensembl Sea Lamprey
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Sea Lamprey e!99) Total hits: 0
BLAST of GCR148 vs. Ensembl Yeast
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Yeast e!Fungi46) Total hits: 0
BLAST of GCR148 vs. Ensembl Nematostella
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Nematostella e!Metazoa46) Total hits: 0
BLAST of GCR148 vs. Ensembl Medaka
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Medaka e!99) Total hits: 0
BLAST of GCR148 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 >SMED30024905 ID=SMED30024905|Name=GCR148|organism=Schmidtea mediterranea sexual|type=transcript|length=713bpback to top protein sequence of SMED30024905-orf-1 >SMED30024905-orf-1 ID=SMED30024905-orf-1|Name=SMED30024905-orf-1|organism=Schmidtea mediterranea sexual|type=polypeptide|length=237bp TLGDSILFVGFRYLFICLFLSLNIVLLAFLFKHQMASKTATLLIKFQTIIback 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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