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C130026I21Rik RIKEN cDNA C130026I21 gene [ Mus musculus (house mouse) ]

Gene ID: 620078, updated on 8-Dec-2022

Summary

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Official Symbol
C130026I21Rikprovided by MGI
Official Full Name
RIKEN cDNA C130026I21 geneprovided by MGI
Primary source
MGI:MGI:3612702
See related
Ensembl:ENSMUSG00000052477 AllianceGenome:MGI:3612702
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Mus musculus
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
Also known as
4930565N07Rik
Summary
Predicted to enable DNA-binding transcription factor activity, RNA polymerase II-specific. Predicted to be involved in regulation of transcription by RNA polymerase II. Predicted to be located in fibrillar center and mitochondrion. Predicted to be active in nucleus. Orthologous to human SP140 (SP140 nuclear body protein). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Biased expression in bladder adult (RPKM 4.9), spleen adult (RPKM 1.8) and 5 other tissues See more
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Genomic context

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See C130026I21Rik in Genome Data Viewer
Location:
1; 1 C5
Exon count:
12
Annotation release Status Assembly Chr Location
109 current GRCm39 (GCF_000001635.27) 1 NC_000067.7 (85219007..85260602, complement)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 1 NC_000067.6 (85241286..85282883, complement)

Chromosome 1 - NC_000067.7Genomic Context describing neighboring genes Neighboring gene predicted gene, 38510 Neighboring gene predicted gene, 53253 Neighboring gene predicted gene, 53568 Neighboring gene predicted pseudogene 7609 Neighboring gene sp110 nuclear body protein-like Neighboring gene predicted gene, 53567 Neighboring gene component of Sp100-rs-like Neighboring gene predicted gene 7592 Neighboring gene predicted gene 7281

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • Project title: Mouse ENCODE transcriptome data
  • Description: RNA profiling data sets generated by the Mouse ENCODE project.
  • BioProject: PRJNA66167
  • Publication: PMID 25409824
  • Analysis date: n/a

Bibliography

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Related articles in PubMed

  1. Functional genomic landscape of cancer-intrinsic evasion of killing by T cells. Lawson KA, et al. Nature, 2020 Oct. PMID 32968282, Free PMC Article
  2. Antisense transcription in the mammalian transcriptome. Katayama S, et al. Science, 2005 Sep 2. PMID 16141073
  3. High-efficiency full-length cDNA cloning. Carninci P, et al. Methods Enzymol, 1999. PMID 10349636
  4. RIKEN integrated sequence analysis (RISA) system--384-format sequencing pipeline with 384 multicapillary sequencer. Shibata K, et al. Genome Res, 2000 Nov. PMID 11076861, Free PMC Article
  5. Normalization and subtraction of cap-trapper-selected cDNAs to prepare full-length cDNA libraries for rapid discovery of new genes. Carninci P, et al. Genome Res, 2000 Oct. PMID 11042159, Free PMC Article

See all (10) citations in PubMed

GeneRIFs: Gene References Into Functions

Interactions

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Products Interactant Other Gene Complex Source Pubs Description

General gene information

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Markers

Homology

Gene Ontology Provided by MGI

Function Evidence Code Pubs
enables DNA-binding transcription factor activity, RNA polymerase II-specific IBA
Inferred from Biological aspect of Ancestor
more info
 PubMed 
Process Evidence Code Pubs
involved_in regulation of transcription by RNA polymerase II IBA
Inferred from Biological aspect of Ancestor
more info
 PubMed 
Component Evidence Code Pubs
located_in fibrillar center ISO
Inferred from Sequence Orthology
more info
  
located_in mitochondrion ISO
Inferred from Sequence Orthology
more info
  
is_active_in nucleus IBA
Inferred from Biological aspect of Ancestor
more info
 PubMed 
located_in nucleus ISO
Inferred from Sequence Orthology
more info
  

General protein information

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Preferred Names
SP140 nuclear body protein family member

NCBI Reference Sequences (RefSeq)

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RefSeqs maintained independently of Annotated Genomes

These reference sequences exist independently of genome builds. Explain

These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

mRNA and Protein(s)

  1. NM_001037909.3 → NP_001032998.2  SP140 nuclear body protein family member isoform 2

    See identical proteins and their annotated locations for NP_001032998.2

    Status: VALIDATED

    Source sequence(s)
    AC123856, AK047983, AK163341
    Consensus CDS
    CCDS15109.1
    UniProtKB/TrEMBL
    Q3KNJ6, Q3TQS4, Q8C898
    Related
    ENSMUSP00000066587.9, ENSMUST00000064341.9
    Conserved Domains (1) summary
    pfam03172
    Location:25 → 119
    HSR; HSR domain

  2. NM_175219.3 → NP_780428.1  SP140 nuclear body protein family member isoform 1

    See identical proteins and their annotated locations for NP_780428.1

    Status: VALIDATED

    Source sequence(s)
    AC123856, AK047983, AK163341
    Consensus CDS
    CCDS35636.1
    UniProtKB/TrEMBL
    Q3TQS4, Q8C898
    Related
    ENSMUSP00000091224.6, ENSMUST00000093506.12
    Conserved Domains (1) summary
    pfam03172
    Location:25 → 119
    HSR; HSR domain

RefSeqs of Annotated Genomes: Mus musculus Annotation Release 109 details...Open this link in a new tab

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCm39 C57BL/6J

Genomic

  1. NC_000067.7 Reference GRCm39 C57BL/6J

    Range
    85219007..85260602 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_030255714.2 → XP_030111574.1  SP140 nuclear body protein family member isoform X3

    Conserved Domains (1) summary
    pfam03172
    Location:25 → 119
    HSR; HSR domain

  2. XM_030255713.2 → XP_030111573.1  SP140 nuclear body protein family member isoform X3

    Conserved Domains (1) summary
    pfam03172
    Location:25 → 119
    HSR; HSR domain

  3. XM_036152577.1 → XP_036008470.1  SP140 nuclear body protein family member isoform X5

    Conserved Domains (1) summary
    pfam03172
    Location:1 → 92
    HSR; HSR domain

  4. XM_036152576.1 → XP_036008469.1  SP140 nuclear body protein family member isoform X3

    Conserved Domains (1) summary
    pfam03172
    Location:25 → 119
    HSR; HSR domain

  5. XM_036152575.1 → XP_036008468.1  SP140 nuclear body protein family member isoform X3

    Conserved Domains (1) summary
    pfam03172
    Location:25 → 119
    HSR; HSR domain

  6. XM_036152578.1 → XP_036008471.1  SP140 nuclear body protein family member isoform X6

    Conserved Domains (1) summary
    pfam03172
    Location:25 → 119
    HSR; HSR domain

  7. XM_017321880.3 → XP_017177369.1  SP140 nuclear body protein family member isoform X3

    Conserved Domains (1) summary
    pfam03172
    Location:25 → 119
    HSR; HSR domain

  8. XM_006496512.5 → XP_006496575.1  SP140 nuclear body protein family member isoform X1

    Conserved Domains (1) summary
    pfam03172
    Location:39 → 133
    HSR; HSR domain

  9. XM_017321879.3 → XP_017177368.1  SP140 nuclear body protein family member isoform X2

    Conserved Domains (1) summary
    pfam03172
    Location:39 → 133
    HSR; HSR domain

  10. XM_006496519.5 → XP_006496582.1  SP140 nuclear body protein family member isoform X11

    Conserved Domains (1) summary
    pfam03172
    Location:39 → 133
    HSR; HSR domain

  11. XM_017321881.3 → XP_017177370.1  SP140 nuclear body protein family member isoform X4

    Conserved Domains (1) summary
    pfam03172
    Location:39 → 133
    HSR; HSR domain

  12. XM_017321884.3 → XP_017177373.1  SP140 nuclear body protein family member isoform X7

    Conserved Domains (1) summary
    pfam03172
    Location:39 → 133
    HSR; HSR domain

  13. XM_017321885.3 → XP_017177374.1  SP140 nuclear body protein family member isoform X9

    Conserved Domains (1) summary
    pfam03172
    Location:39 → 133
    HSR; HSR domain

  14. XM_036152583.1 → XP_036008476.1  SP140 nuclear body protein family member isoform X8

    UniProtKB/TrEMBL
    Q8C898
    Conserved Domains (1) summary
    pfam03172
    Location:25 → 119
    HSR; HSR domain

  15. XM_036152584.1 → XP_036008477.1  SP140 nuclear body protein family member isoform X10

    UniProtKB/TrEMBL
    Q3KNJ6
    Conserved Domains (1) summary
    pfam03172
    Location:25 → 119
    HSR; HSR domain
Nucleotide Protein Strain
Heading Accession and Version

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