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TRERF1 transcriptional regulating factor 1 [ Homo sapiens (human) ]

Gene ID: 55809, updated on 6-Nov-2022

Summary

Official Symbol
TRERF1provided by HGNC
Official Full Name
transcriptional regulating factor 1provided by HGNC
Primary source
HGNC:HGNC:18273
See related
Ensembl:ENSG00000124496 MIM:610322; AllianceGenome:HGNC:18273
Gene type
protein coding
RefSeq status
REVIEWED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as
RAPA; BCAR2; TREP132; TReP-132; HSA277276; dJ139D8.5
Summary
This gene encodes a zinc-finger transcriptional regulating protein which interacts with CBP/p300 to regulate the human gene CYP11A1. Alternative splicing results in multiple transcript variants encoding different isoforms. [provided by RefSeq, Jul 2014]
Expression
Ubiquitous expression in testis (RPKM 2.9), bone marrow (RPKM 2.6) and 24 other tissues See more
Orthologs
NEW
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Genomic context

See TRERF1 in Genome Data Viewer
Location:
6p21.1
Exon count:
21
Annotation release Status Assembly Chr Location
110 current GRCh38.p14 (GCF_000001405.40) 6 NC_000006.12 (42224931..42452224, complement)
110 current T2T-CHM13v2.0 (GCF_009914755.1) 6 NC_060930.1 (42053174..42280495, complement)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 6 NC_000006.11 (42192669..42419962, complement)

Chromosome 6 - NC_000006.12Genomic Context describing neighboring genes Neighboring gene CRISPRi-validated cis-regulatory element chr6.2920 Neighboring gene uncharacterized LOC105375061 Neighboring gene mitochondrial ribosomal protein S10 Neighboring gene uncharacterized LOC124901316 Neighboring gene small nucleolar RNA U3 Neighboring gene uncharacterized LOC107986596 Neighboring gene arf-GAP with GTPase, ANK repeat and PH domain-containing protein 2-like Neighboring gene ribosomal protein L36a pseudogene 5

Genomic regions, transcripts, and products

Expression

  • Project title: HPA RNA-seq normal tissues
  • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
  • BioProject: PRJEB4337
  • Publication: PMID 24309898
  • Analysis date: Wed Apr 4 07:08:55 2018

Bibliography

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Pathways from PubChem

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Clone Names

  • FLJ21198

Gene Ontology Provided by GOA

Function Evidence Code Pubs
enables DNA binding IEA
Inferred from Electronic Annotation
more info
 
enables metal ion binding IEA
Inferred from Electronic Annotation
more info
 
enables nuclear progesterone receptor binding IPI
Inferred from Physical Interaction
more info
PubMed 
enables nuclear receptor coactivator activity IDA
Inferred from Direct Assay
more info
PubMed 
enables protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
enables transcription coactivator activity IDA
Inferred from Direct Assay
more info
PubMed 
enables transcription coactivator binding IPI
Inferred from Physical Interaction
more info
PubMed 
enables transcription corepressor activity IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
Component Evidence Code Pubs
located_in cytosol IDA
Inferred from Direct Assay
more info
 
located_in fibrillar center IDA
Inferred from Direct Assay
more info
 
part_of histone deacetylase complex IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
located_in nucleoplasm IDA
Inferred from Direct Assay
more info
 
is_active_in nucleus IDA
Inferred from Direct Assay
more info
PubMed 
located_in nucleus IDA
Inferred from Direct Assay
more info
PubMed 
part_of transcription regulator complex IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 

General protein information

Preferred Names
transcriptional-regulating factor 1
Names
breast cancer anti-estrogen resistance 2
rapa-1
rapa-2
transcriptional regulating protein 132
zinc finger protein rapa
zinc finger transcription factor TReP-132

NCBI Reference Sequences (RefSeq)

NEW Try the new Transcript table

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_001297573.2NP_001284502.1  transcriptional-regulating factor 1 isoform 1

    See identical proteins and their annotated locations for NP_001284502.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (1) encodes isoform (1).
    Source sequence(s)
    AF297872, AL096814, AL450325, AM404182
    Consensus CDS
    CCDS75455.1
    UniProtKB/Swiss-Prot
    Q96PN7
    UniProtKB/TrEMBL
    Q05GC8
    Related
    ENSP00000439689.1, ENST00000541110.5
    Conserved Domains (5) summary
    smart00717
    Location:908953
    SANT; SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains
    sd00017
    Location:10351057
    ZF_C2H2; C2H2 Zn finger [structural motif]
    pfam01448
    Location:801855
    ELM2; ELM2 domain
    pfam13912
    Location:514534
    zf-C2H2_6; C2H2-type zinc finger
    cl21498
    Location:909953
    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_001391983.1NP_001378912.1  transcriptional-regulating factor 1 isoform 2

    Status: REVIEWED

    Source sequence(s)
    AL096814, AL138735, AL450325
    Consensus CDS
    CCDS4867.1
    UniProtKB/Swiss-Prot
    Q9NUN9
    Related
    ENSP00000512292.1, ENST00000695966.1
    Conserved Domains (4) summary
    sd00017
    Location:10151037
    ZF_C2H2; C2H2 Zn finger [structural motif]
    pfam01448
    Location:781835
    ELM2; ELM2 domain
    pfam13912
    Location:514534
    zf-C2H2_6; C2H2-type zinc finger
    cl21498
    Location:889933
    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 ...
  3. NM_001391984.1NP_001378913.1  transcriptional-regulating factor 1 isoform 3

    Status: REVIEWED

    Source sequence(s)
    AL096814, AL138735, AL450325
    Consensus CDS
    CCDS93924.1
    Conserved Domains (3) summary
    pfam01448
    Location:698752
    ELM2; ELM2 domain
    pfam13912
    Location:514534
    zf-C2H2_6; C2H2-type zinc finger
    cl21498
    Location:806850
    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 ...
  4. NM_001395490.1NP_001382419.1  transcriptional-regulating factor 1 isoform 4

    Status: REVIEWED

    Source sequence(s)
    AL096814, AL138735, AL450325
    Consensus CDS
    CCDS93925.1
    UniProtKB/TrEMBL
    A0A8Q3SI57
    Related
    ENSP00000512293.1, ENST00000695948.1
    Conserved Domains (2) summary
    sd00018
    Location:10981120
    ZF_C2H2; C2H2 Zn finger [structural motif]
    cl21498
    Location:889933
    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. NM_033502.4NP_277037.1  transcriptional-regulating factor 1 isoform 2

    See identical proteins and their annotated locations for NP_277037.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (2) uses an alternate in-frame splice donor site in the 5' coding region, compared to variant 1. Variant 2 encodes a shorter isoform (2), compared to isoform 1.
    Source sequence(s)
    AF297872, AL096814, AL450325, AM404182, AM404183
    Consensus CDS
    CCDS4867.1
    UniProtKB/Swiss-Prot
    Q96PN7, Q9NUN9
    UniProtKB/TrEMBL
    Q05GC8
    Related
    ENSP00000362013.4, ENST00000372922.8
    Conserved Domains (4) summary
    sd00017
    Location:10151037
    ZF_C2H2; C2H2 Zn finger [structural motif]
    pfam01448
    Location:781835
    ELM2; ELM2 domain
    pfam13912
    Location:514534
    zf-C2H2_6; C2H2-type zinc finger
    cl21498
    Location:889933
    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 ...

RefSeqs of Annotated Genomes: Homo sapiens Annotation Release 110 details...Open this link in a new tab

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

Reference GRCh38.p14 Primary Assembly

Genomic

  1. NC_000006.12 Reference GRCh38.p14 Primary Assembly

    Range
    42224931..42452224 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_047419067.1XP_047275023.1  transcriptional-regulating factor 1 isoform X6

  2. XM_047419061.1XP_047275017.1  transcriptional-regulating factor 1 isoform X5

  3. XM_047419048.1XP_047275004.1  transcriptional-regulating factor 1 isoform X4

    UniProtKB/Swiss-Prot
    Q9NUN9
  4. XM_047419044.1XP_047275000.1  transcriptional-regulating factor 1 isoform X3

    UniProtKB/TrEMBL
    A0A8Q3SI57
  5. XM_047419033.1XP_047274989.1  transcriptional-regulating factor 1 isoform X2

    UniProtKB/TrEMBL
    Q05GC8
  6. XM_047419028.1XP_047274984.1  transcriptional-regulating factor 1 isoform X1

  7. XM_047419066.1XP_047275022.1  transcriptional-regulating factor 1 isoform X6

  8. XM_047419062.1XP_047275018.1  transcriptional-regulating factor 1 isoform X5

  9. XM_047419053.1XP_047275009.1  transcriptional-regulating factor 1 isoform X4

    UniProtKB/Swiss-Prot
    Q9NUN9
  10. XM_047419041.1XP_047274997.1  transcriptional-regulating factor 1 isoform X3

    UniProtKB/TrEMBL
    A0A8Q3SI57
  11. XM_047419036.1XP_047274992.1  transcriptional-regulating factor 1 isoform X2

    UniProtKB/TrEMBL
    Q05GC8
  12. XM_047419031.1XP_047274987.1  transcriptional-regulating factor 1 isoform X1

  13. XM_047419055.1XP_047275011.1  transcriptional-regulating factor 1 isoform X4

    UniProtKB/Swiss-Prot
    Q9NUN9
  14. XM_047419068.1XP_047275024.1  transcriptional-regulating factor 1 isoform X6

  15. XM_047419060.1XP_047275016.1  transcriptional-regulating factor 1 isoform X5

  16. XM_047419046.1XP_047275002.1  transcriptional-regulating factor 1 isoform X3

    UniProtKB/TrEMBL
    A0A8Q3SI57
  17. XM_047419035.1XP_047274991.1  transcriptional-regulating factor 1 isoform X2

    UniProtKB/TrEMBL
    Q05GC8
  18. XM_047419029.1XP_047274985.1  transcriptional-regulating factor 1 isoform X1

  19. XM_047419065.1XP_047275021.1  transcriptional-regulating factor 1 isoform X6

    Related
    ENSP00000346285.2, ENST00000354325.2
  20. XM_047419051.1XP_047275007.1  transcriptional-regulating factor 1 isoform X4

    UniProtKB/Swiss-Prot
    Q9NUN9
  21. XM_047419047.1XP_047275003.1  transcriptional-regulating factor 1 isoform X3

    UniProtKB/TrEMBL
    A0A8Q3SI57
  22. XM_047419037.1XP_047274993.1  transcriptional-regulating factor 1 isoform X2

    UniProtKB/TrEMBL
    Q05GC8
  23. XM_017011054.2XP_016866543.1  transcriptional-regulating factor 1 isoform X6

    UniProtKB/Swiss-Prot
    Q96PN7
    Conserved Domains (5) summary
    smart00717
    Location:805850
    SANT; SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains
    sd00017
    Location:932954
    ZF_C2H2; C2H2 Zn finger [structural motif]
    pfam01448
    Location:698752
    ELM2; ELM2 domain
    pfam13912
    Location:514534
    zf-C2H2_6; C2H2-type zinc finger
    cl21498
    Location:806850
    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 ...
  24. XM_017011052.2XP_016866541.1  transcriptional-regulating factor 1 isoform X5

    UniProtKB/Swiss-Prot
    Q96PN7
    Conserved Domains (3) summary
    pfam01448
    Location:698752
    ELM2; ELM2 domain
    pfam13912
    Location:514534
    zf-C2H2_6; C2H2-type zinc finger
    cl21498
    Location:806850
    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 ...
  25. XM_017011049.2XP_016866538.1  transcriptional-regulating factor 1 isoform X4

    UniProtKB/Swiss-Prot
    Q96PN7, Q9NUN9
    Conserved Domains (4) summary
    sd00017
    Location:10151037
    ZF_C2H2; C2H2 Zn finger [structural motif]
    pfam01448
    Location:781835
    ELM2; ELM2 domain
    pfam13912
    Location:514534
    zf-C2H2_6; C2H2-type zinc finger
    cl21498
    Location:889933
    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 ...
  26. XM_017011048.2XP_016866537.1  transcriptional-regulating factor 1 isoform X2

    UniProtKB/TrEMBL
    Q05GC8
    Conserved Domains (5) summary
    smart00717
    Location:908953
    SANT; SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains
    sd00017
    Location:10351057
    ZF_C2H2; C2H2 Zn finger [structural motif]
    pfam01448
    Location:801855
    ELM2; ELM2 domain
    pfam13912
    Location:514534
    zf-C2H2_6; C2H2-type zinc finger
    cl21498
    Location:909953
    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 ...
  27. XM_017011046.2XP_016866535.1  transcriptional-regulating factor 1 isoform X1

    Conserved Domains (4) summary
    smart00717
    Location:908953
    SANT; SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains
    pfam01448
    Location:801855
    ELM2; ELM2 domain
    pfam13912
    Location:514534
    zf-C2H2_6; C2H2-type zinc finger
    cl21498
    Location:909953
    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 ...
  28. XM_047419063.1XP_047275019.1  transcriptional-regulating factor 1 isoform X6

  29. XM_047419057.1XP_047275013.1  transcriptional-regulating factor 1 isoform X5

  30. XM_047419050.1XP_047275006.1  transcriptional-regulating factor 1 isoform X4

    UniProtKB/Swiss-Prot
    Q9NUN9
  31. XM_047419039.1XP_047274995.1  transcriptional-regulating factor 1 isoform X3

    UniProtKB/TrEMBL
    A0A8Q3SI57
  32. XM_047419032.1XP_047274988.1  transcriptional-regulating factor 1 isoform X2

    UniProtKB/TrEMBL
    Q05GC8
  33. XM_047419026.1XP_047274982.1  transcriptional-regulating factor 1 isoform X1

  34. XM_047419054.1XP_047275010.1  transcriptional-regulating factor 1 isoform X4

    UniProtKB/Swiss-Prot
    Q9NUN9
  35. XM_047419045.1XP_047275001.1  transcriptional-regulating factor 1 isoform X3

    UniProtKB/TrEMBL
    A0A8Q3SI57
  36. XM_047419064.1XP_047275020.1  transcriptional-regulating factor 1 isoform X6

  37. XM_047419058.1XP_047275014.1  transcriptional-regulating factor 1 isoform X5

  38. XM_047419049.1XP_047275005.1  transcriptional-regulating factor 1 isoform X4

    UniProtKB/Swiss-Prot
    Q9NUN9
  39. XM_047419040.1XP_047274996.1  transcriptional-regulating factor 1 isoform X3

    UniProtKB/TrEMBL
    A0A8Q3SI57
  40. XM_047419034.1XP_047274990.1  transcriptional-regulating factor 1 isoform X2

    UniProtKB/TrEMBL
    Q05GC8
  41. XM_047419030.1XP_047274986.1  transcriptional-regulating factor 1 isoform X1

  42. XM_047419069.1XP_047275025.1  transcriptional-regulating factor 1 isoform X6

  43. XM_047419059.1XP_047275015.1  transcriptional-regulating factor 1 isoform X5

    Related
    ENSP00000339438.2, ENST00000340840.6
  44. XM_047419056.1XP_047275012.1  transcriptional-regulating factor 1 isoform X4

    UniProtKB/Swiss-Prot
    Q9NUN9
  45. XM_047419043.1XP_047274999.1  transcriptional-regulating factor 1 isoform X3

    UniProtKB/TrEMBL
    A0A8Q3SI57
  46. XM_047419038.1XP_047274994.1  transcriptional-regulating factor 1 isoform X2

    UniProtKB/TrEMBL
    Q05GC8
  47. XM_047419027.1XP_047274983.1  transcriptional-regulating factor 1 isoform X1

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060930.1 Alternate T2T-CHM13v2.0

    Range
    42053174..42280495 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Suppressed Reference Sequence(s)

The following Reference Sequences have been suppressed. Explain

  1. NM_018415.1: Suppressed sequence

    Description
    NM_018415.1: This RefSeq was permanently suppressed because currently there is insufficient support for the transcript and the protein.
  2. NM_033501.1: Suppressed sequence

    Description
    NM_033501.1: This RefSeq was permanently suppressed because currently there is insufficient support for the transcript and the protein.