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    Gtf2ird1 GTF2I repeat domain containing 1 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 246770, updated on 14-Nov-2024

    Summary

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    Symbol
    Gtf2ird1provided by RGD
    Full Name
    GTF2I repeat domain containing 1provided by RGD
    Primary source
    RGD:620856
    See related
    EnsemblRapid:ENSRNOG00000001478 AllianceGenome:RGD:620856
    Gene type
    protein coding
    RefSeq status
    PROVISIONAL
    Organism
    Rattus norvegicus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
    Also known as
    Gtf3
    Summary
    Predicted to enable DNA-binding transcription repressor activity, RNA polymerase II-specific and RNA polymerase II cis-regulatory region sequence-specific DNA binding activity. Predicted to be involved in negative regulation of transcription by RNA polymerase II. Predicted to act upstream of or within regulation of DNA-templated transcription and transition between slow and fast fiber. Predicted to be located in cytosol and nucleoplasm. Predicted to be active in nucleus. Orthologous to human GTF2IRD1 (GTF2I repeat domain containing 1). [provided by Alliance of Genome Resources, Nov 2024]
    Expression
    Biased expression in Thymus (RPKM 57.8), Adrenal (RPKM 57.8) and 9 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    See Gtf2ird1 in Genome Data Viewer
    Location:
    12q12
    Exon count:
    35
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 12 NC_086030.1 (27890594..27997506)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 12 NC_051347.1 (22254113..22361052)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 12 NC_005111.4 (25264052..25370947)

    Chromosome 12 - NC_086030.1Genomic Context describing neighboring genes Neighboring gene endogenous retrovirus group FRD member 1, envelope Neighboring gene CAP-GLY domain containing linker protein 2 Neighboring gene general transcription factor II I Neighboring gene neutrophil cytosolic factor 1

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
    • Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
    • BioProject: PRJNA238328
    • Publication: PMID 24510058
    • Analysis date: Mon Jun 6 17:44:12 2016

    Bibliography

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    Related articles in PubMed

    1. Differential levels of Alpha-1-inhibitor III, Immunoglobulin heavy chain variable region, and Hypertrophied skeletal muscle protein GTF3 in rat mammary tumorigenesis. Ganaie IA, et al. Biochimie, 2020 Jul. PMID 32325114
    2. Isolation and characterization of BEN, a member of the TFII-I family of DNA-binding proteins containing distinct helix-loop-helix domains. Bayarsaihan D, et al. Proc Natl Acad Sci U S A, 2000 Jun 20. PMID 10861001, Free PMC Article
    3. Identification of GTF2IRD1, a putative transcription factor within the Williams-Beuren syndrome deletion at 7q11.23. Franke Y, et al. Cytogenet Cell Genet, 1999. PMID 10575229
    4. Essential functions of the Williams-Beuren syndrome-associated TFII-I genes in embryonic development. Enkhmandakh B, et al. Proc Natl Acad Sci U S A, 2009 Jan 6. PMID 19109438, Free PMC Article
    5. Positional identification of Ncf1 as a gene that regulates arthritis severity in rats. Olofsson P, et al. Nat Genet, 2003 Jan. PMID 12461526

    See all (7) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. Differential levels of Alpha-1-inhibitor III, Immunoglobulin heavy chain variable region, and Hypertrophied skeletal muscle protein GTF3 in rat mammary tumorigenesis.
      Title: Differential levels of Alpha-1-inhibitor III, Immunoglobulin heavy chain variable region, and Hypertrophied skeletal muscle protein GTF3 in rat mammary tumorigenesis.
    Submit: New GeneRIF Correction

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables DNA-binding transcription factor activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables DNA-binding transcription factor activity ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables DNA-binding transcription factor activity NAS
    Non-traceable Author Statement
    more info
    		 PubMed 
    enables DNA-binding transcription repressor activity, RNA polymerase II-specific ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables RNA polymerase II cis-regulatory region sequence-specific DNA binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    Process Evidence Code Pubs
    involved_in negative regulation of transcription by RNA polymerase II ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in transcription by RNA polymerase II IEA
    Inferred from Electronic Annotation
    more info
    		  
    acts_upstream_of_or_within transition between slow and fast fiber ISO
    Inferred from Sequence Orthology
    more info
    		  
    Component Evidence Code Pubs
    located_in cytosol IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in cytosol ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in nucleoplasm IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in nucleoplasm ISO
    Inferred from Sequence Orthology
    more info
    		  
    is_active_in nucleus IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in nucleus ISO
    Inferred from Sequence Orthology
    more info
    		  

    General protein information

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    Preferred Names
    general transcription factor II-I repeat domain-containing protein 1
    Names
    general transcription factor II I repeat domain-containing 1
    general transcription factor II-I repeat domain-containing protein 1-like

    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_001001504.2 → NP_001001504.1  general transcription factor II-I repeat domain-containing protein 1

      See identical proteins and their annotated locations for NP_001001504.1

      Status: PROVISIONAL

      Source sequence(s)
      AF547389
      UniProtKB/TrEMBL
      A0A0G2KA15, A6J0J3, F1M710, Q78ZG1, Q80ST5
      Related
      ENSRNOP00000075217.2, ENSRNOT00000079392.3
      Conserved Domains (1) summary
      pfam02946
      Location:565 → 639
      GTF2I; GTF2I-like repeat

    RefSeqs of Annotated Genomes: GCF_036323735.1-RS_2024_02

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

    Reference GRCr8

    Genomic

    1. NC_086030.1 Reference GRCr8

      Range
      27890594..27997506
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_039089074.2 → XP_038945002.1  general transcription factor II-I repeat domain-containing protein 1 isoform X1

      UniProtKB/TrEMBL
      A6J0J8
      Conserved Domains (1) summary
      pfam02946
      Location:565 → 639
      GTF2I; GTF2I-like repeat

    2. XM_063271050.1 → XP_063127120.1  general transcription factor II-I repeat domain-containing protein 1 isoform X6

    3. XM_063271053.1 → XP_063127123.1  general transcription factor II-I repeat domain-containing protein 1 isoform X8

    4. XM_039089079.2 → XP_038945007.1  general transcription factor II-I repeat domain-containing protein 1 isoform X3

      UniProtKB/TrEMBL
      A6J0J8
      Conserved Domains (1) summary
      pfam02946
      Location:565 → 639
      GTF2I; GTF2I-like repeat

    5. XM_063271049.1 → XP_063127119.1  general transcription factor II-I repeat domain-containing protein 1 isoform X5

    6. XM_039089086.2 → XP_038945014.1  general transcription factor II-I repeat domain-containing protein 1 isoform X13

      UniProtKB/TrEMBL
      A0A8I6GKN8
      Conserved Domains (1) summary
      pfam02946
      Location:565 → 639
      GTF2I; GTF2I-like repeat

    7. XM_063271061.1 → XP_063127131.1  general transcription factor II-I repeat domain-containing protein 1 isoform X14

    8. XM_006249107.5 → XP_006249169.1  general transcription factor II-I repeat domain-containing protein 1 isoform X9

      See identical proteins and their annotated locations for XP_006249169.1

      UniProtKB/TrEMBL
      A0A0G2JVV8, A6J0J2, G3V664
      Related
      ENSRNOP00000069637.1, ENSRNOT00000087656.3
      Conserved Domains (1) summary
      pfam02946
      Location:565 → 639
      GTF2I; GTF2I-like repeat

    9. XM_063271056.1 → XP_063127126.1  general transcription factor II-I repeat domain-containing protein 1 isoform X10

    10. XM_063271052.1 → XP_063127122.1  general transcription factor II-I repeat domain-containing protein 1 isoform X7

      UniProtKB/TrEMBL
      A0A8I5ZN74
      Related
      ENSRNOP00000079734.1, ENSRNOT00000101585.2

    11. XM_063271062.1 → XP_063127132.1  general transcription factor II-I repeat domain-containing protein 1 isoform X15

      Related
      ENSRNOP00000093457.1, ENSRNOT00000112342.2

    12. XM_063271064.1 → XP_063127134.1  general transcription factor II-I repeat domain-containing protein 1 isoform X16

    13. XM_063271048.1 → XP_063127118.1  general transcription factor II-I repeat domain-containing protein 1 isoform X4

    14. XM_063271059.1 → XP_063127129.1  general transcription factor II-I repeat domain-containing protein 1 isoform X12

      UniProtKB/TrEMBL
      A6J0J4

    15. XM_063271058.1 → XP_063127128.1  general transcription factor II-I repeat domain-containing protein 1 isoform X11

      UniProtKB/TrEMBL
      A0A8I6A198
      Related
      ENSRNOP00000085931.1, ENSRNOT00000110226.2

    16. XM_063271065.1 → XP_063127135.1  general transcription factor II-I repeat domain-containing protein 1 isoform X17

      UniProtKB/TrEMBL
      A6J0J5

    17. XM_063271047.1 → XP_063127117.1  general transcription factor II-I repeat domain-containing protein 1 isoform X2

      UniProtKB/TrEMBL
      A0A0G2K5X2
      Related
      ENSRNOP00000073591.1, ENSRNOT00000085696.3

    18. XM_039089075.2 → XP_038945003.1  general transcription factor II-I repeat domain-containing protein 1 isoform X1

      UniProtKB/TrEMBL
      A6J0J8
      Conserved Domains (1) summary
      pfam02946
      Location:565 → 639
      GTF2I; GTF2I-like repeat

    19. XM_063271051.1 → XP_063127121.1  general transcription factor II-I repeat domain-containing protein 1 isoform X7

      UniProtKB/TrEMBL
      A0A8I5ZN74

    20. XM_063271057.1 → XP_063127127.1  general transcription factor II-I repeat domain-containing protein 1 isoform X10

    21. XM_063271054.1 → XP_063127124.1  general transcription factor II-I repeat domain-containing protein 1 isoform X9

      UniProtKB/TrEMBL
      A0A0G2JVV8, A6J0J2

    22. XM_063271063.1 → XP_063127133.1  general transcription factor II-I repeat domain-containing protein 1 isoform X15

    23. XM_063271066.1 → XP_063127136.1  general transcription factor II-I repeat domain-containing protein 1 isoform X17

      UniProtKB/TrEMBL
      A6J0J5

    24. XM_039089076.2 → XP_038945004.1  general transcription factor II-I repeat domain-containing protein 1 isoform X1

      UniProtKB/TrEMBL
      A6J0J8
      Conserved Domains (1) summary
      pfam02946
      Location:565 → 639
      GTF2I; GTF2I-like repeat

    25. XM_063271055.1 → XP_063127125.1  general transcription factor II-I repeat domain-containing protein 1 isoform X9

      UniProtKB/TrEMBL
      A0A0G2JVV8, A6J0J2

    26. XM_063271060.1 → XP_063127130.1  general transcription factor II-I repeat domain-containing protein 1 isoform X12

      UniProtKB/TrEMBL
      A6J0J4

    27. XM_039089077.2 → XP_038945005.1  general transcription factor II-I repeat domain-containing protein 1 isoform X1

      UniProtKB/TrEMBL
      A6J0J8
      Conserved Domains (1) summary
      pfam02946
      Location:565 → 639
      GTF2I; GTF2I-like repeat

    28. XM_039089093.2 → XP_038945021.1  general transcription factor II-I repeat domain-containing protein 1 isoform X18

      UniProtKB/TrEMBL
      Q8K3G2
      Conserved Domains (1) summary
      pfam02946
      Location:422 → 496
      GTF2I; GTF2I-like repeat

    29. XM_039089094.2 → XP_038945022.1  general transcription factor II-I repeat domain-containing protein 1 isoform X19

      UniProtKB/TrEMBL
      A6J0J7
      Conserved Domains (1) summary
      pfam02946
      Location:270 → 344
      GTF2I; GTF2I-like repeat
    Nucleotide Protein Strain
    Heading Accession and Version

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