SpermatogenesisOnline 1.0

Tag Content
SG ID
SG00012453 
UniProt Accession
Theoretical PI
11.85  
Molecular Weight
34208 Da  
Genbank Nucleotide ID
Genbank Protein ID
Gene Name
Rnps1 
Gene Synonyms/Alias
 
Protein Name
RNA-binding protein with serine-rich domain 1 
Protein Synonyms/Alias
 
Organism
Mus musculus (Mouse) 
NCBI Taxonomy ID
10090 
Chromosome Location
chr:17;24551620-24562840;1
View in Ensembl genome browser  
Function in Stage
Uncertain 
Function in Cell Type
Uncertain 
Probability (GAS) of Function in Spermatogenesis
0.578513732 
The probability was calculated by GAS algorithm, ranging from 0 to 1. The closer it is to 1, the more possibly it functions in spermatogenesis.
Description
Temporarily unavailable 
Abstract of related literatures
1. This study describes comprehensive polling of transcription start and termination sites and analysis of previously unidentified full-length complementary DNAs derived from the mouse genome. We identify the 5' and 3' boundaries of 181,047 transcripts with extensive variation in transcripts arising from alternative promoter usage, splicing, and polyadenylation. There are 16,247 new mouse protein-coding transcripts, including 5154 encoding previously unidentified proteins. Genomic mapping of the transcriptome reveals transcriptional forests, with overlapping transcription on both strands, separated by deserts in which few transcripts are observed. The data provide a comprehensive platform for the comparative analysis of mammalian transcriptional regulation in differentiation and development. PMID: [16141072] 

2. The National Institutes of Health's Mammalian Gene Collection (MGC) project was designed to generate and sequence a publicly accessible cDNA resource containing a complete open reading frame (ORF) for every human and mouse gene. The project initially used a random strategy to select clones from a large number of cDNA libraries from diverse tissues. Candidate clones were chosen based on 5'-EST sequences, and then fully sequenced to high accuracy and analyzed by algorithms developed for this project. Currently, more than 11,000 human and 10,000 mouse genes are represented in MGC by at least one clone with a full ORF. The random selection approach is now reaching a saturation point, and a transition to protocols targeted at the missing transcripts is now required to complete the mouse and human collections. Comparison of the sequence of the MGC clones to reference genome sequences reveals that most cDNA clones are of very high sequence quality, although it is likely that some cDNAs may carry missense variants as a consequence of experimental artifact, such as PCR, cloning, or reverse transcriptase errors. Recently, a rat cDNA component was added to the project, and ongoing frog (Xenopus) and zebrafish (Danio) cDNA projects were expanded to take advantage of the high-throughput MGC pipeline. PMID: [15489334] 

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Function
Component of a splicing-dependent multiprotein exonjunction complex (EJC) deposited at splice junction on mRNAs. TheEJC is a dynamic structure consisting of a few core proteins andseveral more peripheral nuclear and cytoplasmic associated factorsthat join the complex only transiently either during EJC assemblyor during subsequent mRNA metabolism. Part of pre- and post-splicing multiprotein mRNP complexes. Enhances the formation ofthe ATP-dependent A complex of the spliceosome. Involved in bothconstitutive splicing and, in association with SRP54 andTRA2B/SFRS10, in distinctive modulation of alternative splicing ina substrate-dependent manner. Participates in mRNA 3'-endcleavage. Involved in UPF2-dependent nonsense-mediated decay (NMD)of mRNAs containing premature stop codons. Also mediates increaseof mRNA abundance and translational efficiency. Binds spliced mRNA20-25 nt upstream of exon-exon junctions (By similarity). 
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Subcellular Location
Nucleus (By similarity). Nucleus speckle (Bysimilarity). Cytoplasm (By similarity). Note=Nucleocytoplasmicshuttling protein. Colocalizes with the core EJC, ALYREF/THOC4,NXF1 and UAP56 in the nucleus and nuclear speckles (Bysimilarity). 
Tissue Specificity
 
Gene Ontology
GO IDGO termEvidence
GO:0005737 C:cytoplasm IEA:UniProtKB-SubCell.
GO:0016607 C:nuclear speck IEA:UniProtKB-SubCell.
GO:0000166 F:nucleotide binding IEA:InterPro.
GO:0003723 F:RNA binding IEA:UniProtKB-KW.
GO:0006397 P:mRNA processing IEA:UniProtKB-KW.
GO:0000184 P:nuclear-transcribed mRNA catabolic process, nonsense-mediated decay IEA:UniProtKB-KW.
GO:0008380 P:RNA splicing IEA:UniProtKB-KW.
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Interpro
IPR012677;    Nucleotide-bd_a/b_plait.
IPR000504;    RRM_dom.
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Pfam
PF00076;    RRM_1;    1.
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SMART
SM00360;    RRM;    1.
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PROSITE
PS50102;    RRM;    1.
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PRINTS
Created Date
18-Oct-2012 
Record Type
GAS predicted 
Sequence Annotation
CHAIN         1    305       RNA-binding protein with serine-rich
                             domain 1.
                             /FTId=PRO_0000081817.
DOMAIN      161    240       RRM.
REGION        1    220       Necessary for interaction with the
                             cleaved p110 isoform of CDC2L1 (By
                             similarity).
REGION        1    161       Necessary for interaction with SRP54,
                             nuclear localization and exon-skipping
                             (By similarity).
REGION       69    121       Necessary for interactions with UPF2 and
                             UPF3B and UPF2-dependent NMD (By
                             similarity).
REGION      156    242       Necessary for interaction with PNN and
                             exon-skipping (By similarity).
REGION      238    305       Necessary for interaction with TRA2B,
                             nuclear localization and exon-skipping
                             (By similarity).
COMPBIAS      7     64       Lys-rich.
COMPBIAS     67    141       Ser-rich.
COMPBIAS    128    154       Arg-rich.
COMPBIAS    241    298       Arg/Pro-rich.
MOD_RES      27     27       Phosphoserine (By similarity).
MOD_RES      53     53       Phosphoserine (By similarity).
MOD_RES     125    125       Phosphoserine (By similarity).
MOD_RES     155    155       Phosphoserine (By similarity).
MOD_RES     157    157       Phosphoserine (By similarity).
MOD_RES     205    205       Phosphotyrosine (By similarity).
MOD_RES     218    218       N6-acetyllysine (By similarity).
MOD_RES     251    251       Phosphoserine (By similarity).
MOD_RES     266    266       Phosphoserine (By similarity).
MOD_RES     287    287       Phosphoserine (By similarity).
MOD_RES     289    289       Phosphoserine (By similarity).
VAR_SEQ       2     24       Missing (in isoform 2).
                             /FTId=VSP_016244.
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Nucleotide Sequence
Length: bp   Go to nucleotide: FASTA
Protein Sequence
Length: 305 bp   Go to amino acid: FASTA
The verified Protein-Protein interaction information
UniProt
 Gene Symbol Ref Databases
Hoxd12BioGRID 
Foxe3BioGRID 
Foxe3BioGRID 
Other Protein-Protein interaction resources
String database  
View Microarray data
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