RRM domain-containing protein
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., 2020SMED30014012 has been reported as being expressed in these anatomical structures and/or regions. Read more about PAGEPAGE Curations: 6
Homology
BLAST of RRM domain-containing protein vs. Ensembl Celegans
Match: Y57G11C.9 (pep chromosome:WBcel235:IV:14787168:14790843:1 gene:WBGene00013307.1 transcript:Y57G11C.9a.1 gene_biotype:protein_coding transcript_biotype:protein_coding gene_symbol:Y57G11C.9) HSP 1 Score: 67.781 bits (164), Expect = 5.173e-12 Identity = 28/87 (32.18%), Postives = 52/87 (59.77%), Query Frame = 3 Query: 156 NIPTSRHSIFIRGFPASMNSKSVKAFFVDETRSNVLIDFVSYTDEHKKLCIAIRFESHQIAKEMYNKFNNREILGHVVEFSWFKDMK 416 +P S+H+IFIRG ++++ +K + + E + DFV + K+ +A+RFE+ AKE +++RE +G + SWF+D++ Sbjct: 44 QVPQSKHTIFIRGLHGDISTEEIKEY-IGEKVGKISFDFVKVAQDKSKIFVAVRFENRDEAKEFMETYSDREFMGCRCDLSWFRDIR 129
BLAST of RRM domain-containing protein vs. Ensembl Celegans
Match: Y57G11C.9 (pep chromosome:WBcel235:IV:14787168:14790843:1 gene:WBGene00013307.1 transcript:Y57G11C.9b.1 gene_biotype:protein_coding transcript_biotype:protein_coding gene_symbol:Y57G11C.9) HSP 1 Score: 67.0106 bits (162), Expect = 8.158e-12 Identity = 28/87 (32.18%), Postives = 52/87 (59.77%), Query Frame = 3 Query: 156 NIPTSRHSIFIRGFPASMNSKSVKAFFVDETRSNVLIDFVSYTDEHKKLCIAIRFESHQIAKEMYNKFNNREILGHVVEFSWFKDMK 416 +P S+H+IFIRG ++++ +K + + E + DFV + K+ +A+RFE+ AKE +++RE +G + SWF+D++ Sbjct: 44 QVPQSKHTIFIRGLHGDISTEEIKEY-IGEKVGKISFDFVKVAQDKSKIFVAVRFENRDEAKEFMETYSDREFMGCRCDLSWFRDIR 129
BLAST of RRM domain-containing protein vs. TrEMBL
Match: A0A564ZDM5 (RRM domain-containing protein OS=Hymenolepis diminuta OX=6216 GN=WMSIL1_LOCUS15109 PE=4 SV=1) HSP 1 Score: 105.916 bits (263), Expect = 3.423e-21 Identity = 44/94 (46.81%), Postives = 64/94 (68.09%), Query Frame = 3 Query: 159 IPTSRHSIFIRGFPASMNSKSVKAFFVDETRSNVLIDFVSYTDEHKKLCIAIRFESHQIAKEMYNKFNNREILGHVVEFSWFKDMKAVKGRYNE 440 +P SRH+IFIRG P S N SVK F ET + ++F S +D+ K +AIRF+SH++A+EM ++N +E+LGH VE +WFK++K + R E Sbjct: 16 VPPSRHTIFIRGLPGSTNVDSVKNHFCQETDTKCTVEFFSTSDDKVKFSVAIRFKSHELAREMLERYNGKELLGHPVEVTWFKNLKKARARAYE 109
BLAST of RRM domain-containing protein vs. TrEMBL
Match: A0A158QG00 (RRM domain-containing protein OS=Hymenolepis diminuta OX=6216 GN=HDID_LOCUS9788 PE=4 SV=1) HSP 1 Score: 105.916 bits (263), Expect = 3.462e-21 Identity = 44/94 (46.81%), Postives = 64/94 (68.09%), Query Frame = 3 Query: 159 IPTSRHSIFIRGFPASMNSKSVKAFFVDETRSNVLIDFVSYTDEHKKLCIAIRFESHQIAKEMYNKFNNREILGHVVEFSWFKDMKAVKGRYNE 440 +P SRH+IFIRG P S N SVK F ET + ++F S +D+ K +AIRF+SH++A+EM ++N +E+LGH VE +WFK++K + R E Sbjct: 16 VPPSRHTIFIRGLPGSTNVDSVKNHFCQETDTKCTVEFFSTSDDKVKFSVAIRFKSHELAREMLERYNGKELLGHPVEVTWFKNLKKARARAYE 109
BLAST of RRM domain-containing protein vs. TrEMBL
Match: A0A564ZDI9 (RRM domain-containing protein OS=Hymenolepis diminuta OX=6216 GN=WMSIL1_LOCUS15109 PE=4 SV=1) HSP 1 Score: 105.916 bits (263), Expect = 5.118e-21 Identity = 44/94 (46.81%), Postives = 64/94 (68.09%), Query Frame = 3 Query: 159 IPTSRHSIFIRGFPASMNSKSVKAFFVDETRSNVLIDFVSYTDEHKKLCIAIRFESHQIAKEMYNKFNNREILGHVVEFSWFKDMKAVKGRYNE 440 +P SRH+IFIRG P S N SVK F ET + ++F S +D+ K +AIRF+SH++A+EM ++N +E+LGH VE +WFK++K + R E Sbjct: 16 VPPSRHTIFIRGLPGSTNVDSVKNHFCQETDTKCTVEFFSTSDDKVKFSVAIRFKSHELAREMLERYNGKELLGHPVEVTWFKNLKKARARAYE 109
BLAST of RRM domain-containing protein vs. TrEMBL
Match: A0A564ZDY2 (RRM domain-containing protein OS=Hymenolepis diminuta OX=6216 GN=WMSIL1_LOCUS15109 PE=4 SV=1) HSP 1 Score: 105.531 bits (262), Expect = 6.675e-21 Identity = 44/94 (46.81%), Postives = 64/94 (68.09%), Query Frame = 3 Query: 159 IPTSRHSIFIRGFPASMNSKSVKAFFVDETRSNVLIDFVSYTDEHKKLCIAIRFESHQIAKEMYNKFNNREILGHVVEFSWFKDMKAVKGRYNE 440 +P SRH+IFIRG P S N SVK F ET + ++F S +D+ K +AIRF+SH++A+EM ++N +E+LGH VE +WFK++K + R E Sbjct: 16 VPPSRHTIFIRGLPGSTNVDSVKNHFCQETDTKCTVEFFSTSDDKVKFSVAIRFKSHELAREMLERYNGKELLGHPVEVTWFKNLKKARARAYE 109
BLAST of RRM domain-containing protein vs. TrEMBL
Match: E2IXF9 (Secondary spermatocytes accumulation 1 protein (Fragment) OS=Schmidtea mediterranea OX=79327 GN=spac-1 PE=2 SV=1) HSP 1 Score: 103.219 bits (256), Expect = 8.459e-21 Identity = 44/89 (49.44%), Postives = 69/89 (77.53%), Query Frame = 3 Query: 159 IPTSRHSIFIRGFPASMNSKSVKAFFVDETRSNVLIDFVSYTDEHKKLCIAIRFESHQIAKEMYNKFNNREILGHVVEFSWFKDMKAVK 425 + SRHSIFIRGFP++M+ ++V++FF E++ N IDF SY+++ KKL IA+RFESH+ A ++ F+++E+LGH +E SWFKD++ + Sbjct: 19 VTPSRHSIFIRGFPSNMSMENVRSFFKTESKENCKIDFFSYSEDRKKLFIALRFESHEKAVDIIENFDSKEVLGHSIEVSWFKDLRKAR 107
BLAST of RRM domain-containing protein vs. Planmine SMEST
Match: SMESG000064851.1 (SMESG000064851.1) HSP 1 Score: 587.415 bits (1513), Expect = 0.000e+0 Identity = 373/373 (100.00%), Postives = 373/373 (100.00%), Query Frame = 3 Query: 69 MSVSRNYFSDRGRDRQGFNYRRNDRSFGGNIPTSRHSIFIRGFPASMNSKSVKAFFVDETRSNVLIDFVSYTDEHKKLCIAIRFESHQIAKEMYNKFNNREILGHVVEFSWFKDMKAVKGRYNEXXXXXXXXXXXXXXXFTEXXXXXXXXXXXXXXKQRYRDSFEKKKEYKXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXPTRLIRXXXXXXXXXXXXSDSYTSRDHSRDRSRYKSDDNSDQARKPHRSESKKPKEQPAPSVKQDPVVSVEKKPELTLATDDPDPVSIDLPSNVESDECIKIKSKSTELLDNYSKEIENYLNIINAFIGKNPDLEAPLVASLKDILNEVGEKYVYQFLKYIENVPAEIVAS 1187 MSVSRNYFSDRGRDRQGFNYRRNDRSFGGNIPTSRHSIFIRGFPASMNSKSVKAFFVDETRSNVLIDFVSYTDEHKKLCIAIRFESHQIAKEMYNKFNNREILGHVVEFSWFKDMKAVKGRYNERRFRDRPYPNRRPRRFTERSGRSGSRNFRSRSKQRYRDSFEKKKEYKSRSHSRDSASSSSFSKSRSGSESVSASSSASPTRLIRNINKHKYKKKNNSDSYTSRDHSRDRSRYKSDDNSDQARKPHRSESKKPKEQPAPSVKQDPVVSVEKKPELTLATDDPDPVSIDLPSNVESDECIKIKSKSTELLDNYSKEIENYLNIINAFIGKNPDLEAPLVASLKDILNEVGEKYVYQFLKYIENVPAEIVAS Sbjct: 1 MSVSRNYFSDRGRDRQGFNYRRNDRSFGGNIPTSRHSIFIRGFPASMNSKSVKAFFVDETRSNVLIDFVSYTDEHKKLCIAIRFESHQIAKEMYNKFNNREILGHVVEFSWFKDMKAVKGRYNERRFRDRPYPNRRPRRFTERSGRSGSRNFRSRSKQRYRDSFEKKKEYKSRSHSRDSASSSSFSKSRSGSESVSASSSASPTRLIRNINKHKYKKKNNSDSYTSRDHSRDRSRYKSDDNSDQARKPHRSESKKPKEQPAPSVKQDPVVSVEKKPELTLATDDPDPVSIDLPSNVESDECIKIKSKSTELLDNYSKEIENYLNIINAFIGKNPDLEAPLVASLKDILNEVGEKYVYQFLKYIENVPAEIVAS 373
BLAST of RRM domain-containing protein vs. Planmine SMEST
Match: SMESG000038824.1 (SMESG000038824.1) HSP 1 Score: 109.768 bits (273), Expect = 2.367e-26 Identity = 47/91 (51.65%), Postives = 66/91 (72.53%), Query Frame = 3 Query: 159 IPTSRHSIFIRGFPASMNSKSVKAFFVDETRSNVLIDFVSYTDEHKKLCIAIRFESHQIAKEMYNKFNNREILGHVVEFSWFKDMKAVKGR 431 +P SRH+IFIRGF +++ ++ FF + ++SN +DF SY DE +KL IA+RFESH IAK+M +FNN EI G+ VE +WFKD+K + R Sbjct: 29 VPPSRHAIFIRGFANDVDTHKIRDFFQEASKSNCGVDFTSYNDEQRKLSIALRFESHDIAKDMLLRFNNTEIFGYRVEVTWFKDLKKARDR 119
BLAST of RRM domain-containing protein vs. Planmine SMEST
Match: SMESG000038824.1 (SMESG000038824.1) HSP 1 Score: 109.768 bits (273), Expect = 3.713e-26 Identity = 47/91 (51.65%), Postives = 66/91 (72.53%), Query Frame = 3 Query: 159 IPTSRHSIFIRGFPASMNSKSVKAFFVDETRSNVLIDFVSYTDEHKKLCIAIRFESHQIAKEMYNKFNNREILGHVVEFSWFKDMKAVKGR 431 +P SRH+IFIRGF +++ ++ FF + ++SN +DF SY DE +KL IA+RFESH IAK+M +FNN EI G+ VE +WFKD+K + R Sbjct: 29 VPPSRHAIFIRGFANDVDTHKIRDFFQEASKSNCGVDFTSYNDEQRKLSIALRFESHDIAKDMLLRFNNTEIFGYRVEVTWFKDLKKARDR 119
BLAST of RRM domain-containing protein vs. Planmine SMEST
Match: SMESG000038824.1 (SMESG000038824.1) HSP 1 Score: 109.768 bits (273), Expect = 4.127e-26 Identity = 47/91 (51.65%), Postives = 66/91 (72.53%), Query Frame = 3 Query: 159 IPTSRHSIFIRGFPASMNSKSVKAFFVDETRSNVLIDFVSYTDEHKKLCIAIRFESHQIAKEMYNKFNNREILGHVVEFSWFKDMKAVKGR 431 +P SRH+IFIRGF +++ ++ FF + ++SN +DF SY DE +KL IA+RFESH IAK+M +FNN EI G+ VE +WFKD+K + R Sbjct: 29 VPPSRHAIFIRGFANDVDTHKIRDFFQEASKSNCGVDFTSYNDEQRKLSIALRFESHDIAKDMLLRFNNTEIFGYRVEVTWFKDLKKARDR 119
BLAST of RRM domain-containing protein vs. Planmine SMEST
Match: SMESG000002926.1 (SMESG000002926.1) HSP 1 Score: 103.605 bits (257), Expect = 6.705e-24 Identity = 44/89 (49.44%), Postives = 69/89 (77.53%), Query Frame = 3 Query: 159 IPTSRHSIFIRGFPASMNSKSVKAFFVDETRSNVLIDFVSYTDEHKKLCIAIRFESHQIAKEMYNKFNNREILGHVVEFSWFKDMKAVK 425 + SRHSIFIRGFP++M+ ++V++FF E++ N IDF SY+++ KKL IA+RFESH+ A ++ F+++E+LGH +E SWFKD++ + Sbjct: 19 VTPSRHSIFIRGFPSNMSMENVRSFFKTESKENCKIDFFSYSEDRKKLFIALRFESHEKAVDIIENFDSKEVLGHSIEVSWFKDLRKAR 107 The following BLAST results are available for this feature:
BLAST of RRM domain-containing protein vs. Ensembl Human
Analysis Date: 2016-08-08 (Schmidtea mediterranea smed_20140614 BLASTX Human e!99) Total hits: 0
BLAST of RRM domain-containing protein vs. Ensembl Celegans
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Celegan e!99) Total hits: 2
BLAST of RRM domain-containing protein vs. Ensembl Fly
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Drosophila e!99) Total hits: 0
BLAST of RRM domain-containing protein vs. Ensembl Zebrafish
Analysis Date: 2016-08-08 (Schmidtea mediterranea smed_20140614 BLASTX Zebrafish e!99) Total hits: 0
BLAST of RRM domain-containing protein vs. Ensembl Xenopus
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Xenopus e!99) Total hits: 0
BLAST of RRM domain-containing protein vs. Ensembl Mouse
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Mouse e!99) Total hits: 0
BLAST of RRM domain-containing protein vs. UniProt/SwissProt
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI UniProt) Total hits: 0
BLAST of RRM domain-containing protein vs. TrEMBL
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI TrEMBL) Total hits: 5
BLAST of RRM domain-containing protein vs. Ensembl Cavefish
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Cavefish e!99) Total hits: 0
BLAST of RRM domain-containing protein vs. Ensembl Sea Lamprey
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Sea Lamprey e!99) Total hits: 0
BLAST of RRM domain-containing protein vs. Ensembl Yeast
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Yeast e!Fungi46) Total hits: 0
BLAST of RRM domain-containing protein vs. Ensembl Nematostella
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Nematostella e!Metazoa46) Total hits: 0
BLAST of RRM domain-containing protein vs. Ensembl Medaka
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Medaka e!99) Total hits: 0
BLAST of RRM domain-containing protein vs. Planmine SMEST
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Planmine SMEST) Total hits: 5
Analyses
This transcript is derived from or has results from the following analyses Sequences
The following sequences are available for this feature:
transcript sequence >SMED30014012 ID=SMED30014012|Name=RRM domain-containing protein|organism=Schmidtea mediterranea sexual|type=transcript|length=1219bpback to top protein sequence of SMED30014012-orf-1 >SMED30014012-orf-1 ID=SMED30014012-orf-1|Name=SMED30014012-orf-1|organism=Schmidtea mediterranea sexual|type=polypeptide|length=374bp MSVSRNYFSDRGRDRQGFNYRRNDRSFGGNIPTSRHSIFIRGFPASMNSKback 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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