serine/arginine repetitive matrix protein 1 isoform X3
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., 2020SMED30032051 has been reported as being expressed in these anatomical structures and/or regions. Read more about PAGEPAGE Curations: 8
Homology
BLAST of serine/arginine repetitive matrix protein 1 isoform X3 vs. TrEMBL
Match: A0A3S1CEZ4 (EF-hand domain-containing protein (Fragment) OS=Elysia chlorotica OX=188477 GN=EGW08_001373 PE=4 SV=1) HSP 1 Score: 68.5514 bits (166), Expect = 3.502e-8 Identity = 40/103 (38.83%), Postives = 59/103 (57.28%), Query Frame = 1 Query: 901 IDNINRQSDSAFNSHFDYEAAYQQSERFNR--PYGRINEYIMGGIPVKFSERYDIQGELQYLKSIILPVKARELYVGRGIQLPSNHATKIPRGKY-LDDNLVG 1200 +D +N++ + FDY A + + R P+ + IMGG ++F ER+DI E+Q LKSI +P A++L+ GRGI LP NH + PR + DDN G Sbjct: 201 LDGMNQRE--RLQAGFDYMEAMRGTRRRREMVPHRAQLDLIMGGKQIEFEERFDITREIQKLKSIAMPKHAKDLFHGRGIHLPQNHLSLHPRHQAPADDNEFG 301
BLAST of serine/arginine repetitive matrix protein 1 isoform X3 vs. TrEMBL
Match: A0A1S3K3U9 (uncharacterized protein LOC106178443 isoform X6 OS=Lingula unguis OX=7574 GN=LOC106178443 PE=4 SV=1) HSP 1 Score: 67.0106 bits (162), Expect = 8.673e-8 Identity = 67/246 (27.24%), Postives = 107/246 (43.50%), Query Frame = 1 Query: 907 NINRQSD-SAFNSHFDYEAAYQQSERFNR--PYGRINEYIMGGIPVKFSERYDIQGELQYLKSIILPVKARELYVGRGIQLPSNHATKIPRGKYLDD---NLVGKSVINSELKIFTP-----------------GGGSLTINTTT----------------PND--GESTQENQVNFIKPSTPEKLQSLEVQKL---NTNEIFENLFNNTDKDTDGFMESQTVKRIILENSNLSVNWKEFLTTVLD 1512 N+NR+S + DY + + +R P+ + +MGG +F+ER I EL LKSI+LP AR+LY GRGI+LP+ HA+ PR D ++ S +S + TP G S T+ + P D G+ T E+ K +TP L+ +++ + E E +F N D D DG ++ V +++ + LS + ++ V D Sbjct: 201 NLNRESQRERHQAEKDYVESMRGLKRKREVLPHRAPLDLLMGGKRAEFNERESITDELNRLKSIVLPANARDLYHGRGIKLPAQHASVSPRRPMPPDEAMRVLDPSRHSSSIAPRTPRVPVHSDDDDLHDHDHNRGPSRTLPRPSLEVQQTDEDKMEVDPPPEDTTGQKTPESGPAAHKSTTPNPLKGVDLTSAVPQDQREELEVVFKNLDTDNDGHLKYNEVTKVLPQ--GLSNAQQRYIKQVYD 444
BLAST of serine/arginine repetitive matrix protein 1 isoform X3 vs. TrEMBL
Match: A0A1S3K3I6 (uncharacterized protein LOC106178443 isoform X5 OS=Lingula unguis OX=7574 GN=LOC106178443 PE=4 SV=1) HSP 1 Score: 67.0106 bits (162), Expect = 1.091e-7 Identity = 65/260 (25.00%), Postives = 106/260 (40.77%), Query Frame = 1 Query: 907 NINRQSD-SAFNSHFDYEAAYQQSERFNR--PYGRINEYIMGGIPVKFSERYDIQGELQYLKSIILPVKARELYVGRGIQLPSNHATKIPR-----GKYLDDNLVGKSVINSELKIFTPGGGSLTINTTTP-----------------------------------------------NDGESTQENQVNFIKPSTPEKLQSLEVQKL---NTNEIFENLFNNTDKDTDGFMESQTVKRIILENSNLSVNWKEFLTTVLD 1512 N+NR+S + DY + + +R P+ + +MGG +F+ER I EL LKSI+LP AR+LY GRGI+LP+ HA+ PR + + D L+ + N + + P S +I TP G+ T E+ K +TP L+ +++ + E E +F N D D DG ++ V +++ + LS + ++ V D Sbjct: 201 NLNRESQRERHQAEKDYVESMRGLKRKREVLPHRAPLDLLMGGKRAEFNERESITDELNRLKSIVLPANARDLYHGRGIKLPAQHASVSPRRPMPPDEAMIDTLLAERRRNLFMGVLDPSRHSSSIAPRTPRVPVHSDDDDLHDHDHNRGPSRTLPRPSLEVQQTDEDKMEVDPPPEDTTGQKTPESGPAAHKSTTPNPLKGVDLTSAVPQDQREELEVVFKNLDTDNDGHLKYNEVTKVLPQ--GLSNAQQRYIKQVYD 458
BLAST of serine/arginine repetitive matrix protein 1 isoform X3 vs. TrEMBL
Match: A0A2C9KLS1 (Uncharacterized protein OS=Biomphalaria glabrata OX=6526 GN=106078796 PE=4 SV=1) HSP 1 Score: 66.2402 bits (160), Expect = 1.715e-7 Identity = 29/60 (48.33%), Postives = 42/60 (70.00%), Query Frame = 1 Query: 1009 EYIMGGIPVKFSERYDIQGELQYLKSIILPVKARELYVGRGIQLPSNHATKIPRGKYLDD 1188 + IMGG ++F ER+DI E+Q LK+I +P A++L+ GRGI+LPSNH + PR +D Sbjct: 140 DLIMGGKQIEFEERFDINREIQKLKAIAMPTHAKDLFHGRGIRLPSNHMSLHPRHPLPND 199
BLAST of serine/arginine repetitive matrix protein 1 isoform X3 vs. TrEMBL
Match: A0A2C9KLS9 (Uncharacterized protein OS=Biomphalaria glabrata OX=6526 GN=106078796 PE=4 SV=1) HSP 1 Score: 66.2402 bits (160), Expect = 1.721e-7 Identity = 28/54 (51.85%), Postives = 40/54 (74.07%), Query Frame = 1 Query: 1009 EYIMGGIPVKFSERYDIQGELQYLKSIILPVKARELYVGRGIQLPSNHATKIPR 1170 + IMGG ++F ER+DI E+Q LK+I +P A++L+ GRGI+LPSNH + PR Sbjct: 84 DLIMGGKQIEFEERFDINREIQKLKAIAMPTHAKDLFHGRGIRLPSNHMSLHPR 137
BLAST of serine/arginine repetitive matrix protein 1 isoform X3 vs. Planmine SMEST
Match: SMESG000018884.1 (SMESG000018884.1) HSP 1 Score: 1096.26 bits (2834), Expect = 0.000e+0 Identity = 568/577 (98.44%), Postives = 570/577 (98.79%), Query Frame = 1 Query: 133 MATNDKSFNYGLPNRXXXXXXXXXXXXXXXXXXXXXXXFDLCNPVPVTYQRNAFQPSTVSKVIDIPKRLIDGFVDPDSLENQPQRQIILHTGRYAFINNTQVHKNQNERLLAEEDYLKKVKFLKKMSDSRLRMRSQNLILEGENLLSSHQVEKQEPLPFSQNKVKHFFSNIDSLSDLIPPAPTVIETSRMMEREFEFPDSSQPVSMAVQRIRLKDRNTGLETMSSAPVTSDLRSQGNMNLFRQSSSLRFAREKLPPIDNINRQSDSAFNSHFDYEAAYQQSERFNRPYGRINEYIMGGIPVKFSERYDIQGELQYLKSIILPVKARELYVGRGIQLPSNHATKIPRGKYLDDNLVGKSVINSELKIFTPGGGSLTINTTTPNDGESTQENQVNFIKPSTPEKLQSLEVQKLNTNEIFENLFNNTDKDTDGFMESQTVKRIILENSNLSVNWKEFLTTVLDSLNLINENQLKIILETLDYNLKFSVDFPVFEIADAKIFVPVLLNETFQSEDLFTNDQIIHLIGNSSQISLTKQQIDESYEEFLHSISQTEISSHENIQKHHLLLFVPYLLKSFLNKK 1863 MATNDKSFNYGLPNRFPKLPKKFPLIKKSKISKYASKSFDLCNPVPVTYQRNAFQPSTVSKVIDIPKRLIDGFVDPDSLENQPQRQIILHTGRYAFINNTQVHKNQNERLLAEEDYLKKVKFLKKMSDSRLRMRSQNLILEGENLLSSHQVEKQEPLPFSQNKVKHFFSNIDSLSDLIPPAPTVIETSRMMERE EFPDSSQPVSMAVQRIRLKDRNTGLETMSSAPVTSDLRSQGNMNLFRQSSSLRFAREKLPPIDNINRQSDSAFNSHFDYEAAYQQSERFNRPYGRINEYIMGGIPVKFSERYDIQ ELQYLKSIILPVKARELYVGRGIQLPSNHATKIPRGKYLDDNLVGKSVINSELKIFTPGGGSLTINTTTPNDGESTQENQVNF KPSTPEKLQSLEVQKLNTNEIFENL NNTDKDTDGFMESQTVKRIILEN NLSVNWKEFLTTVLDSLNLINENQLKIILETLDYN KFSVDFPVFEIADAKIFVPVLLNETFQSEDLFTNDQII LIGNSSQISLTKQQIDESYEEFLHSISQTEI+S+ENIQKHHLLLFVPYLLKSFLNKK Sbjct: 1 MATNDKSFNYGLPNRFPKLPKKFPLIKKSKISKYASKSFDLCNPVPVTYQRNAFQPSTVSKVIDIPKRLIDGFVDPDSLENQPQRQIILHTGRYAFINNTQVHKNQNERLLAEEDYLKKVKFLKKMSDSRLRMRSQNLILEGENLLSSHQVEKQEPLPFSQNKVKHFFSNIDSLSDLIPPAPTVIETSRMMERELEFPDSSQPVSMAVQRIRLKDRNTGLETMSSAPVTSDLRSQGNMNLFRQSSSLRFAREKLPPIDNINRQSDSAFNSHFDYEAAYQQSERFNRPYGRINEYIMGGIPVKFSERYDIQEELQYLKSIILPVKARELYVGRGIQLPSNHATKIPRGKYLDDNLVGKSVINSELKIFTPGGGSLTINTTTPNDGESTQENQVNFTKPSTPEKLQSLEVQKLNTNEIFENLCNNTDKDTDGFMESQTVKRIILENPNLSVNWKEFLTTVLDSLNLINENQLKIILETLDYNHKFSVDFPVFEIADAKIFVPVLLNETFQSEDLFTNDQIIQLIGNSSQISLTKQQIDESYEEFLHSISQTEINSYENIQKHHLLLFVPYLLKSFLNKK 577 The following BLAST results are available for this feature:
BLAST of serine/arginine repetitive matrix protein 1 isoform X3 vs. Ensembl Human
Analysis Date: 2016-08-08 (Schmidtea mediterranea smed_20140614 BLASTX Human e!99) Total hits: 0
BLAST of serine/arginine repetitive matrix protein 1 isoform X3 vs. Ensembl Celegans
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Celegan e!99) Total hits: 0
BLAST of serine/arginine repetitive matrix protein 1 isoform X3 vs. Ensembl Fly
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Drosophila e!99) Total hits: 0
BLAST of serine/arginine repetitive matrix protein 1 isoform X3 vs. Ensembl Zebrafish
Analysis Date: 2016-08-08 (Schmidtea mediterranea smed_20140614 BLASTX Zebrafish e!99) Total hits: 0
BLAST of serine/arginine repetitive matrix protein 1 isoform X3 vs. Ensembl Xenopus
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Xenopus e!99) Total hits: 0
BLAST of serine/arginine repetitive matrix protein 1 isoform X3 vs. Ensembl Mouse
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Mouse e!99) Total hits: 0
BLAST of serine/arginine repetitive matrix protein 1 isoform X3 vs. UniProt/SwissProt
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI UniProt) Total hits: 0
BLAST of serine/arginine repetitive matrix protein 1 isoform X3 vs. TrEMBL
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI TrEMBL) Total hits: 5
BLAST of serine/arginine repetitive matrix protein 1 isoform X3 vs. Ensembl Cavefish
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Cavefish e!99) Total hits: 0
BLAST of serine/arginine repetitive matrix protein 1 isoform X3 vs. Ensembl Sea Lamprey
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Sea Lamprey e!99) Total hits: 0
BLAST of serine/arginine repetitive matrix protein 1 isoform X3 vs. Ensembl Yeast
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Yeast e!Fungi46) Total hits: 0
BLAST of serine/arginine repetitive matrix protein 1 isoform X3 vs. Ensembl Nematostella
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Nematostella e!Metazoa46) Total hits: 0
BLAST of serine/arginine repetitive matrix protein 1 isoform X3 vs. Ensembl Medaka
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Medaka e!99) Total hits: 0
BLAST of serine/arginine repetitive matrix protein 1 isoform X3 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 >SMED30032051 ID=SMED30032051|Name=serine/arginine repetitive matrix protein 1 isoform X3|organism=Schmidtea mediterranea sexual|type=transcript|length=2071bpback to top protein sequence of SMED30032051-orf-1 >SMED30032051-orf-1 ID=SMED30032051-orf-1|Name=SMED30032051-orf-1|organism=Schmidtea mediterranea sexual|type=polypeptide|length=578bp MATNDKSFNYGLPNRFPKLPKKFPLIKKSKISKYASKSFDLCNPVPVTYQback to top Annotated Terms
The following terms have been associated with this transcript:
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