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TTF1 transcription termination factor 1 [ Homo sapiens (human) ]

Gene ID: 7270, updated on 13-Mar-2020

Summary

Official Symbol
TTF1provided by HGNC
Official Full Name
transcription termination factor 1provided by HGNC
Primary source
HGNC:HGNC:12397
See related
Ensembl:ENSG00000125482 MIM:600777
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
TTF-1; TTF-I
Summary
This gene encodes a transcription termination factor that is localized to the nucleolus and plays a critical role in ribosomal gene transcription. The encoded protein mediates the termination of RNA polymerase I transcription by binding to Sal box terminator elements downstream of pre-rRNA coding regions. Alternatively spliced transcript variants encoding multiple isoforms have been observed for this gene. This gene shares the symbol/alias 'TFF1' with another gene, NK2 homeobox 1, also known as thyroid transcription factor 1, which plays a role in the regulation of thyroid-specific gene expression. [provided by RefSeq, Apr 2011]
Annotation information
Note: TTF1 (GeneID 7270) and NKX2-1 (GeneID 7080) loci share the TTF1 symbol/alias in common. TTF1 is a widely used alternative name for thyroid transcription factor 1 (NKX2-1) conflicting with the official symbol for transcription termination factor, RNA polymerase I (TTF1). [13 Feb 2013]
Expression
Ubiquitous expression in thyroid (RPKM 5.3), testis (RPKM 4.8) and 25 other tissues See more
Orthologs

Genomic context

See TTF1 in Genome Data Viewer
Location:
9q34.13
Exon count:
12
Annotation release Status Assembly Chr Location
109.20200228 current GRCh38.p13 (GCF_000001405.39) 9 NC_000009.12 (132375548..132406851, complement)
105 previous assembly GRCh37.p13 (GCF_000001405.25) 9 NC_000009.11 (135250935..135282238, complement)

Chromosome 9 - NC_000009.12Genomic Context describing neighboring genes Neighboring gene senataxin Neighboring gene Sharpr-MPRA regulatory region 6614 Neighboring gene uncharacterized LOC105376304 Neighboring gene cilia and flagella associated protein 77 Neighboring gene RNA, U5D small nuclear 2, pseudogene

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

Gene Ontology Provided by GOA

Function Evidence Code Pubs
DNA binding IEA
Inferred from Electronic Annotation
more info
 
chromatin binding IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
Process Evidence Code Pubs
DNA-templated transcription, termination NAS
Non-traceable Author Statement
more info
PubMed 
cellular protein metabolic process TAS
Traceable Author Statement
more info
 
negative regulation of DNA replication IEA
Inferred from Electronic Annotation
more info
 
termination of RNA polymerase I transcription IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
termination of RNA polymerase I transcription TAS
Traceable Author Statement
more info
 
Component Evidence Code Pubs
cytosol IDA
Inferred from Direct Assay
more info
 
nucleolus IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
nucleolus IDA
Inferred from Direct Assay
more info
 
nucleoplasm IDA
Inferred from Direct Assay
more info
 
nucleoplasm TAS
Traceable Author Statement
more info
 
nucleus NAS
Non-traceable Author Statement
more info
PubMed 
plasma membrane IDA
Inferred from Direct Assay
more info
 

General protein information

Preferred Names
transcription termination factor 1
Names
transcription termination factor, RNA polymerase I

NCBI Reference Sequences (RefSeq)

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_001205296.1NP_001192225.1  transcription termination factor 1 isoform 2

    Status: REVIEWED

    Description
    Transcript Variant: This variant (2) lacks an exon in the 5' coding region and initiates translation at a downstream, in-frame start codon, compared to variant 1. The encoded isoform (2) has a shorter N-terminus, compared to isoform 1.
    Source sequence(s)
    AL353701, BC127670, BP209178
    Consensus CDS
    CCDS75925.1
    UniProtKB/Swiss-Prot
    Q15361
    UniProtKB/TrEMBL
    A0A087WY09
    Related
    ENSP00000481441.1, ENST00000612514.4
    Conserved Domains (1) summary
    pfam13921
    Location:106162
    Myb_DNA-bind_6; Myb-like DNA-binding domain
  2. NM_007344.4NP_031370.2  transcription termination factor 1 isoform 1

    See identical proteins and their annotated locations for NP_031370.2

    Status: REVIEWED

    Description
    Transcript Variant: This variant (1) encodes the longer isoform (1).
    Source sequence(s)
    AL353701
    Consensus CDS
    CCDS6948.1
    UniProtKB/Swiss-Prot
    Q15361
    UniProtKB/TrEMBL
    A0A024R8C1
    Related
    ENSP00000333920.2, ENST00000334270.3
    Conserved Domains (1) summary
    pfam13921
    Location:621677
    Myb_DNA-bind_6; Myb-like DNA-binding domain

RNA

  1. NR_134525.2 RNA Sequence

    Status: REVIEWED

    Description
    Transcript Variant: This variant (3) uses an alternate splice site in an internal exon, compared to variant 1. This variant is represented as non-coding because the use of the 5'-most expected translational start codon, as used in variant 1, renders the transcript a candidate for nonsense-mediated mRNA decay (NMD).
    Source sequence(s)
    AL353701, BC143821, BG685121, BP209178, BU195816

RefSeqs of Annotated Genomes: Homo sapiens Updated Annotation Release 109.

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

Reference GRCh38.p13 Primary Assembly

Genomic

  1. NC_000009.12 Reference GRCh38.p13 Primary Assembly

    Range
    132375548..132406851 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_006717273.4XP_006717336.2  transcription termination factor 1 isoform X1

    See identical proteins and their annotated locations for XP_006717336.2

    UniProtKB/Swiss-Prot
    Q15361
    UniProtKB/TrEMBL
    A0A024R8C1
    Conserved Domains (1) summary
    pfam13921
    Location:621677
    Myb_DNA-bind_6; Myb-like DNA-binding domain
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