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Trerf1 transcriptional regulating factor 1 [ Rattus norvegicus (Norway rat) ]

Gene ID: 316219, updated on 2-Nov-2024

Summary

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Official Symbol
Trerf1provided by RGD
Official Full Name
transcriptional regulating factor 1provided by RGD
Primary source
RGD:1307167
See related
EnsemblRapid:ENSRNOG00000022598 AllianceGenome:RGD:1307167
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Rattus norvegicus
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Summary
Predicted to enable nuclear progesterone receptor binding activity; transcription coactivator binding activity; and transcription coregulator activity. Predicted to be involved in cellular response to steroid hormone stimulus and regulation of DNA-templated transcription. Predicted to be located in cytosol; fibrillar center; and nucleoplasm. Predicted to be part of histone deacetylase complex and transcription regulator complex. Predicted to be active in nucleus. Orthologous to human TRERF1 (transcriptional regulating factor 1). [provided by Alliance of Genome Resources, Nov 2024]
Expression
Biased expression in Adrenal (RPKM 27.0), Testes (RPKM 25.5) and 9 other tissues See more
Orthologs
human mouse all
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Genomic context

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See Trerf1 in Genome Data Viewer
Location:
9q12
Exon count:
25
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCr8 (GCF_036323735.1) 9 NC_086027.1 (21131772..21355830, complement)
RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 9 NC_051344.1 (13631619..13858326, complement)
106 previous assembly Rnor_6.0 (GCF_000001895.5) 9 NC_005108.4 (15653230..15881695, complement)

Chromosome 9 - NC_086027.1Genomic Context describing neighboring genes Neighboring gene guanylate cyclase activator 1B Neighboring gene mitochondrial ribosomal protein S10 Neighboring gene U6 spliceosomal RNA Neighboring gene U6 spliceosomal RNA Neighboring gene ubiquitin protein ligase E3 component n-recognin 2 Neighboring gene U6 spliceosomal RNA

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 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. Direct binding of TReP-132 with TdT results in reduction of TdT activity. Fujisaki S, et al. Genes Cells, 2006 Jan. PMID 16371131
  2. A novel zinc finger protein TReP-132 interacts with CBP/p300 to regulate human CYP11A1 gene expression. Gizard F, et al. J Biol Chem, 2001 Sep 7. PMID 11349124
  3. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, et al. Brief Bioinform, 2011 Sep. PMID 21873635, Free PMC Article

GeneRIFs: Gene References Into Functions

General gene information

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Markers

Homology

Gene Ontology Provided by RGD

Function Evidence Code Pubs
enables nuclear progesterone receptor binding ISO
Inferred from Sequence Orthology
more info
  
enables nuclear receptor coactivator activity ISO
Inferred from Sequence Orthology
more info
  
enables transcription coactivator activity ISO
Inferred from Sequence Orthology
more info
  
enables transcription coactivator binding ISO
Inferred from Sequence Orthology
more info
  
enables transcription corepressor activity IBA
Inferred from Biological aspect of Ancestor
more info
  
Process Evidence Code Pubs
involved_in cellular response to progesterone stimulus ISO
Inferred from Sequence Orthology
more info
  
involved_in negative regulation of DNA-templated transcription IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in positive regulation of DNA-templated transcription ISO
Inferred from Sequence Orthology
more info
  
involved_in positive regulation of transcription by RNA polymerase II ISO
Inferred from Sequence Orthology
more info
  
involved_in progesterone receptor signaling pathway ISO
Inferred from Sequence Orthology
more info
  
involved_in regulation of transcription by RNA polymerase II IBA
Inferred from Biological aspect of Ancestor
more info
  
Component Evidence Code Pubs
located_in cytosol ISO
Inferred from Sequence Orthology
more info
  
located_in fibrillar center ISO
Inferred from Sequence Orthology
more info
  
part_of histone deacetylase complex IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in nucleoplasm ISO
Inferred from Sequence Orthology
more info
  
is_active_in nucleus ISO
Inferred from Sequence Orthology
more info
  
located_in nucleus ISO
Inferred from Sequence Orthology
more info
  
part_of transcription regulator complex IBA
Inferred from Biological aspect of Ancestor
more info
  

General protein information

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Preferred Names
transcriptional-regulating factor 1

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_001108199.2 → NP_001101669.1  transcriptional-regulating factor 1 isoform 5

    See identical proteins and their annotated locations for NP_001101669.1

    Status: VALIDATED

    Source sequence(s)
    JAXUCZ010000009
    UniProtKB/TrEMBL
    A0A8I6AN45, A6JIL1
    Conserved Domains (5) summary
    smart00717
    Location:811 → 856
    SANT; SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains
    sd00017
    Location:937 → 959
    ZF_C2H2; C2H2 Zn finger [structural motif]
    pfam01448
    Location:704 → 758
    ELM2; ELM2 domain
    pfam13912
    Location:520 → 540
    zf-C2H2_6; C2H2-type zinc finger
    cl21498
    Location:812 → 856
    SANT; 'SWI3, ADA2, N-CoR and TFIIIB' DNA-binding domains. Tandem copies of the domain bind telomeric DNA tandem repeatsas part of the capping complex. Binding is sequence dependent for repeats which contain the G/C rich motif [C2-3 A (CA)1-6]. The domain is ...

  2. NM_001432828.1 → NP_001419757.1  transcriptional-regulating factor 1 isoform 1

    Status: VALIDATED

    Source sequence(s)
    JAXUCZ010000009
    UniProtKB/TrEMBL
    A0A0G2K2H9

  3. NM_001432829.1 → NP_001419758.1  transcriptional-regulating factor 1 isoform 2

    Status: VALIDATED

    Source sequence(s)
    JAXUCZ010000009

  4. NM_001432830.1 → NP_001419759.1  transcriptional-regulating factor 1 isoform 3

    Status: VALIDATED

    Source sequence(s)
    JAXUCZ010000009

  5. NM_001432831.1 → NP_001419760.1  transcriptional-regulating factor 1 isoform 3

    Status: VALIDATED

    Source sequence(s)
    JAXUCZ010000009

  6. NM_001432832.1 → NP_001419761.1  transcriptional-regulating factor 1 isoform 4

    Status: VALIDATED

    Source sequence(s)
    JAXUCZ010000009

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_086027.1 Reference GRCr8

    Range
    21131772..21355830 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_039083499.2 → XP_038939427.1  transcriptional-regulating factor 1 isoform X1

    UniProtKB/TrEMBL
    A0A0G2K2H9, A0A8I6AN45
    Conserved Domains (5) summary
    PRK10263
    Location:219 → 390
    PRK10263; DNA translocase FtsK; Provisional
    sd00018
    Location:1129 → 1151
    ZF_C2H2; C2H2 Zn finger [structural motif]
    pfam01448
    Location:813 → 867
    ELM2; ELM2 domain
    pfam13912
    Location:520 → 540
    zf-C2H2_6; C2H2-type zinc finger
    cl21498
    Location:921 → 965
    SANT; 'SWI3, ADA2, N-CoR and TFIIIB' DNA-binding domains. Tandem copies of the domain bind telomeric DNA tandem repeatsas part of the capping complex. Binding is sequence dependent for repeats which contain the G/C rich motif [C2-3 A (CA)1-6]. The domain is ...

  2. XM_063267092.1 → XP_063123162.1  transcriptional-regulating factor 1 isoform X2

  3. XM_063267090.1 → XP_063123160.1  transcriptional-regulating factor 1 isoform X2

  4. XM_039083492.2 → XP_038939420.1  transcriptional-regulating factor 1 isoform X1

    UniProtKB/TrEMBL
    A0A0G2K2H9, A0A8I6AN45
    Conserved Domains (5) summary
    PRK10263
    Location:219 → 390
    PRK10263; DNA translocase FtsK; Provisional
    sd00018
    Location:1129 → 1151
    ZF_C2H2; C2H2 Zn finger [structural motif]
    pfam01448
    Location:813 → 867
    ELM2; ELM2 domain
    pfam13912
    Location:520 → 540
    zf-C2H2_6; C2H2-type zinc finger
    cl21498
    Location:921 → 965
    SANT; 'SWI3, ADA2, N-CoR and TFIIIB' DNA-binding domains. Tandem copies of the domain bind telomeric DNA tandem repeatsas part of the capping complex. Binding is sequence dependent for repeats which contain the G/C rich motif [C2-3 A (CA)1-6]. The domain is ...

  5. XM_063267088.1 → XP_063123158.1  transcriptional-regulating factor 1 isoform X1

    UniProtKB/TrEMBL
    A0A0G2K2H9

  6. XM_039083501.2 → XP_038939429.1  transcriptional-regulating factor 1 isoform X1

    UniProtKB/TrEMBL
    A0A0G2K2H9, A0A8I6AN45
    Related
    ENSRNOP00000072249.2, ENSRNOT00000088713.3
    Conserved Domains (5) summary
    PRK10263
    Location:219 → 390
    PRK10263; DNA translocase FtsK; Provisional
    sd00018
    Location:1129 → 1151
    ZF_C2H2; C2H2 Zn finger [structural motif]
    pfam01448
    Location:813 → 867
    ELM2; ELM2 domain
    pfam13912
    Location:520 → 540
    zf-C2H2_6; C2H2-type zinc finger
    cl21498
    Location:921 → 965
    SANT; 'SWI3, ADA2, N-CoR and TFIIIB' DNA-binding domains. Tandem copies of the domain bind telomeric DNA tandem repeatsas part of the capping complex. Binding is sequence dependent for repeats which contain the G/C rich motif [C2-3 A (CA)1-6]. The domain is ...

  7. XM_039083494.2 → XP_038939422.1  transcriptional-regulating factor 1 isoform X1

    UniProtKB/TrEMBL
    A0A0G2K2H9, A0A8I6AN45
    Conserved Domains (5) summary
    PRK10263
    Location:219 → 390
    PRK10263; DNA translocase FtsK; Provisional
    sd00018
    Location:1129 → 1151
    ZF_C2H2; C2H2 Zn finger [structural motif]
    pfam01448
    Location:813 → 867
    ELM2; ELM2 domain
    pfam13912
    Location:520 → 540
    zf-C2H2_6; C2H2-type zinc finger
    cl21498
    Location:921 → 965
    SANT; 'SWI3, ADA2, N-CoR and TFIIIB' DNA-binding domains. Tandem copies of the domain bind telomeric DNA tandem repeatsas part of the capping complex. Binding is sequence dependent for repeats which contain the G/C rich motif [C2-3 A (CA)1-6]. The domain is ...

  8. XM_039083500.2 → XP_038939428.1  transcriptional-regulating factor 1 isoform X1

    UniProtKB/TrEMBL
    A0A0G2K2H9, A0A8I6AN45
    Conserved Domains (5) summary
    PRK10263
    Location:219 → 390
    PRK10263; DNA translocase FtsK; Provisional
    sd00018
    Location:1129 → 1151
    ZF_C2H2; C2H2 Zn finger [structural motif]
    pfam01448
    Location:813 → 867
    ELM2; ELM2 domain
    pfam13912
    Location:520 → 540
    zf-C2H2_6; C2H2-type zinc finger
    cl21498
    Location:921 → 965
    SANT; 'SWI3, ADA2, N-CoR and TFIIIB' DNA-binding domains. Tandem copies of the domain bind telomeric DNA tandem repeatsas part of the capping complex. Binding is sequence dependent for repeats which contain the G/C rich motif [C2-3 A (CA)1-6]. The domain is ...

  9. XM_039083493.2 → XP_038939421.1  transcriptional-regulating factor 1 isoform X1

    UniProtKB/TrEMBL
    A0A0G2K2H9, A0A8I6AN45
    Conserved Domains (5) summary
    PRK10263
    Location:219 → 390
    PRK10263; DNA translocase FtsK; Provisional
    sd00018
    Location:1129 → 1151
    ZF_C2H2; C2H2 Zn finger [structural motif]
    pfam01448
    Location:813 → 867
    ELM2; ELM2 domain
    pfam13912
    Location:520 → 540
    zf-C2H2_6; C2H2-type zinc finger
    cl21498
    Location:921 → 965
    SANT; 'SWI3, ADA2, N-CoR and TFIIIB' DNA-binding domains. Tandem copies of the domain bind telomeric DNA tandem repeatsas part of the capping complex. Binding is sequence dependent for repeats which contain the G/C rich motif [C2-3 A (CA)1-6]. The domain is ...

  10. XM_039083491.2 → XP_038939419.1  transcriptional-regulating factor 1 isoform X1

    Conserved Domains (5) summary
    PRK10263
    Location:219 → 390
    PRK10263; DNA translocase FtsK; Provisional
    sd00018
    Location:1129 → 1151
    ZF_C2H2; C2H2 Zn finger [structural motif]
    pfam01448
    Location:813 → 867
    ELM2; ELM2 domain
    pfam13912
    Location:520 → 540
    zf-C2H2_6; C2H2-type zinc finger
    cl21498
    Location:921 → 965
    SANT; 'SWI3, ADA2, N-CoR and TFIIIB' DNA-binding domains. Tandem copies of the domain bind telomeric DNA tandem repeatsas part of the capping complex. Binding is sequence dependent for repeats which contain the G/C rich motif [C2-3 A (CA)1-6]. The domain is ...

  11. XM_017596416.3 → XP_017451905.1  transcriptional-regulating factor 1 isoform X6

    Conserved Domains (5) summary
    smart00717
    Location:811 → 856
    SANT; SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains
    sd00017
    Location:937 → 959
    ZF_C2H2; C2H2 Zn finger [structural motif]
    pfam01448
    Location:704 → 758
    ELM2; ELM2 domain
    pfam13912
    Location:520 → 540
    zf-C2H2_6; C2H2-type zinc finger
    cl21498
    Location:812 → 856
    SANT; 'SWI3, ADA2, N-CoR and TFIIIB' DNA-binding domains. Tandem copies of the domain bind telomeric DNA tandem repeatsas part of the capping complex. Binding is sequence dependent for repeats which contain the G/C rich motif [C2-3 A (CA)1-6]. The domain is ...

  12. XM_017596415.3 → XP_017451904.1  transcriptional-regulating factor 1 isoform X5

    UniProtKB/TrEMBL
    A0A8I6AN45, D3ZYN9
    Related
    ENSRNOP00000032697.4, ENSRNOT00000035907.5

  13. XM_006244453.5 → XP_006244515.1  transcriptional-regulating factor 1 isoform X4

    UniProtKB/TrEMBL
    A0A8I6AN45
    Conserved Domains (5) summary
    smart00717
    Location:900 → 945
    SANT; SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains
    sd00017
    Location:1026 → 1048
    ZF_C2H2; C2H2 Zn finger [structural motif]
    pfam01448
    Location:793 → 847
    ELM2; ELM2 domain
    pfam13912
    Location:520 → 540
    zf-C2H2_6; C2H2-type zinc finger
    cl21498
    Location:901 → 945
    SANT; 'SWI3, ADA2, N-CoR and TFIIIB' DNA-binding domains. Tandem copies of the domain bind telomeric DNA tandem repeatsas part of the capping complex. Binding is sequence dependent for repeats which contain the G/C rich motif [C2-3 A (CA)1-6]. The domain is ...

  14. XM_039083503.2 → XP_038939431.1  transcriptional-regulating factor 1 isoform X3

    Conserved Domains (4) summary
    PRK10263
    Location:219 → 390
    PRK10263; DNA translocase FtsK; Provisional
    pfam01448
    Location:793 → 847
    ELM2; ELM2 domain
    pfam13912
    Location:520 → 540
    zf-C2H2_6; C2H2-type zinc finger
    cl21498
    Location:901 → 945
    SANT; 'SWI3, ADA2, N-CoR and TFIIIB' DNA-binding domains. Tandem copies of the domain bind telomeric DNA tandem repeatsas part of the capping complex. Binding is sequence dependent for repeats which contain the G/C rich motif [C2-3 A (CA)1-6]. The domain is ...

  15. XM_006244452.5 → XP_006244514.1  transcriptional-regulating factor 1 isoform X2

    See identical proteins and their annotated locations for XP_006244514.1

    UniProtKB/TrEMBL
    A0A8I6AN45
    Conserved Domains (5) summary
    smart00717
    Location:920 → 965
    SANT; SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains
    sd00017
    Location:1046 → 1068
    ZF_C2H2; C2H2 Zn finger [structural motif]
    pfam01448
    Location:813 → 867
    ELM2; ELM2 domain
    pfam13912
    Location:520 → 540
    zf-C2H2_6; C2H2-type zinc finger
    cl21498
    Location:921 → 965
    SANT; 'SWI3, ADA2, N-CoR and TFIIIB' DNA-binding domains. Tandem copies of the domain bind telomeric DNA tandem repeatsas part of the capping complex. Binding is sequence dependent for repeats which contain the G/C rich motif [C2-3 A (CA)1-6]. The domain is ...

  16. XM_039083498.2 → XP_038939426.1  transcriptional-regulating factor 1 isoform X1

    UniProtKB/TrEMBL
    A0A0G2K2H9, A0A8I6AN45
    Conserved Domains (5) summary
    PRK10263
    Location:219 → 390
    PRK10263; DNA translocase FtsK; Provisional
    sd00018
    Location:1129 → 1151
    ZF_C2H2; C2H2 Zn finger [structural motif]
    pfam01448
    Location:813 → 867
    ELM2; ELM2 domain
    pfam13912
    Location:520 → 540
    zf-C2H2_6; C2H2-type zinc finger
    cl21498
    Location:921 → 965
    SANT; 'SWI3, ADA2, N-CoR and TFIIIB' DNA-binding domains. Tandem copies of the domain bind telomeric DNA tandem repeatsas part of the capping complex. Binding is sequence dependent for repeats which contain the G/C rich motif [C2-3 A (CA)1-6]. The domain is ...

  17. XM_039083496.2 → XP_038939424.1  transcriptional-regulating factor 1 isoform X1

    UniProtKB/TrEMBL
    A0A0G2K2H9, A0A8I6AN45
    Conserved Domains (5) summary
    PRK10263
    Location:219 → 390
    PRK10263; DNA translocase FtsK; Provisional
    sd00018
    Location:1129 → 1151
    ZF_C2H2; C2H2 Zn finger [structural motif]
    pfam01448
    Location:813 → 867
    ELM2; ELM2 domain
    pfam13912
    Location:520 → 540
    zf-C2H2_6; C2H2-type zinc finger
    cl21498
    Location:921 → 965
    SANT; 'SWI3, ADA2, N-CoR and TFIIIB' DNA-binding domains. Tandem copies of the domain bind telomeric DNA tandem repeatsas part of the capping complex. Binding is sequence dependent for repeats which contain the G/C rich motif [C2-3 A (CA)1-6]. The domain is ...

  18. XM_063267089.1 → XP_063123159.1  transcriptional-regulating factor 1 isoform X1

    UniProtKB/TrEMBL
    A0A0G2K2H9

  19. XM_039083495.2 → XP_038939423.1  transcriptional-regulating factor 1 isoform X1

    UniProtKB/TrEMBL
    A0A0G2K2H9, A0A8I6AN45
    Conserved Domains (5) summary
    PRK10263
    Location:219 → 390
    PRK10263; DNA translocase FtsK; Provisional
    sd00018
    Location:1129 → 1151
    ZF_C2H2; C2H2 Zn finger [structural motif]
    pfam01448
    Location:813 → 867
    ELM2; ELM2 domain
    pfam13912
    Location:520 → 540
    zf-C2H2_6; C2H2-type zinc finger
    cl21498
    Location:921 → 965
    SANT; 'SWI3, ADA2, N-CoR and TFIIIB' DNA-binding domains. Tandem copies of the domain bind telomeric DNA tandem repeatsas part of the capping complex. Binding is sequence dependent for repeats which contain the G/C rich motif [C2-3 A (CA)1-6]. The domain is ...

  20. XM_063267091.1 → XP_063123161.1  transcriptional-regulating factor 1 isoform X2

  21. XM_039083497.2 → XP_038939425.1  transcriptional-regulating factor 1 isoform X1

    UniProtKB/TrEMBL
    A0A0G2K2H9, A0A8I6AN45
    Conserved Domains (5) summary
    PRK10263
    Location:219 → 390
    PRK10263; DNA translocase FtsK; Provisional
    sd00018
    Location:1129 → 1151
    ZF_C2H2; C2H2 Zn finger [structural motif]
    pfam01448
    Location:813 → 867
    ELM2; ELM2 domain
    pfam13912
    Location:520 → 540
    zf-C2H2_6; C2H2-type zinc finger
    cl21498
    Location:921 → 965
    SANT; 'SWI3, ADA2, N-CoR and TFIIIB' DNA-binding domains. Tandem copies of the domain bind telomeric DNA tandem repeatsas part of the capping complex. Binding is sequence dependent for repeats which contain the G/C rich motif [C2-3 A (CA)1-6]. The domain is ...

  22. XM_039083505.2 → XP_038939433.1  transcriptional-regulating factor 1 isoform X7

    Conserved Domains (4) summary
    sd00018
    Location:666 → 688
    ZF_C2H2; C2H2 Zn finger [structural motif]
    pfam01448
    Location:350 → 404
    ELM2; ELM2 domain
    pfam13912
    Location:57 → 77
    zf-C2H2_6; C2H2-type zinc finger
    cl21498
    Location:458 → 502
    SANT; 'SWI3, ADA2, N-CoR and TFIIIB' DNA-binding domains. Tandem copies of the domain bind telomeric DNA tandem repeatsas part of the capping complex. Binding is sequence dependent for repeats which contain the G/C rich motif [C2-3 A (CA)1-6]. The domain is ...
Nucleotide Protein Strain
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