nfi-1 Nuclear factor I family protein [Caenorhabditis elegans] - Gene

Summary

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Gene symbol: nfi-1
Gene description: Nuclear factor I family protein
Locus tag: CELE_ZK1290.4
See related: AllianceGenome:WB:WBGene00003592
Gene type: protein coding
RefSeq status: REVIEWED
Organism: Caenorhabditis elegans (strain: Bristol N2)
Lineage: Eukaryota; Metazoa; Ecdysozoa; Nematoda; Chromadorea; Rhabditida; Rhabditina; Rhabditomorpha; Rhabditoidea; Rhabditidae; Peloderinae; Caenorhabditis
Summary: Enables RNA polymerase II transcription regulatory region sequence-specific DNA binding activity. Involved in several processes, including positive regulation of transcription by RNA polymerase II; regulation of oviposition; and regulation of pharyngeal pumping. Acts upstream of or within determination of adult lifespan. Predicted to be active in nucleus. Is expressed in several structures, including body wall musculature; egg-laying apparatus; intestine; neurons; and pharynx. Human ortholog(s) of this gene implicated in Marshall-Smith syndrome; NFIA-related disorder; and Sotos syndrome 2. Orthologous to several human genes including NFIA (nuclear factor I A); NFIB (nuclear factor I B); and NFIC (nuclear factor I C). [provided by Alliance of Genome Resources, Apr 2022]
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Genomic context

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See nfi-1 in Genome Data Viewer

Location:: chromosome: II

Exon count:: 15

Sequence:: Chromosome: II; NC_003280.10 (7538180..7543007)

Chromosome II - NC_003280.10 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:: NC_003280.10

Go to nucleotide: Graphics FASTA GenBank

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

These experiments provide a foundation for understanding how NFI-1 is recruited to unexpectedly few in vivo sites to perform its developmental functions, despite a vast over-representation of its binding motif.
Title: DNA-binding specificity and in vivo targets of Caenorhabditis elegans nuclear factor I.
We propose some relationships between the pharyngeal pumping and lifespan phenotypes and potential mechanisms of nfi-1 function
Title: Lifespan extension and increased pumping rate accompany pharyngeal muscle-specific expression of nfi-1 in C. elegans.
The phenotype of nfi-1 null worms indicates that NFI functions in multiple developmental and behavioral systems in C. elegans, likely regulating genes that function in motility, egg-laying, pharyngeal pumping and lifespan maintenance.
Title: nfi-I affects behavior and life-span in C. elegans but is not essential for DNA replication or survival.

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Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Markers

STS2-157 (e-PCR)
- UniSTS:241826

ZK1290.4 (e-PCR)
- UniSTS:312483

Homology

Orthologs from OrthoDB

Gene Ontology Provided by WormBase

Function	Evidence Code	Pubs
enables DNA binding	IEA Inferred from Electronic Annotation more info
enables DNA-binding transcription factor activity	IEA Inferred from Electronic Annotation more info
enables DNA-binding transcription factor activity, RNA polymerase II-specific	IBA Inferred from Biological aspect of Ancestor more info
enables RNA polymerase II cis-regulatory region sequence-specific DNA binding	IBA Inferred from Biological aspect of Ancestor more info
enables RNA polymerase II transcription regulatory region sequence-specific DNA binding	IDA Inferred from Direct Assay more info	PubMed
enables sequence-specific DNA binding	IDA Inferred from Direct Assay more info	PubMed

Process	Evidence Code	Pubs
involved_in DNA replication	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within determination of adult lifespan	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in determination of adult lifespan	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in positive regulation of DNA-templated transcription	IEA Inferred from Electronic Annotation more info
involved_in positive regulation of transcription by RNA polymerase II	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in regulation of DNA-templated transcription	IEA Inferred from Electronic Annotation more info
involved_in regulation of egg-laying behavior	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in regulation of locomotion	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in regulation of multicellular organismal process	IEA Inferred from Electronic Annotation more info
involved_in regulation of nematode pharyngeal pumping	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in regulation of transcription by RNA polymerase II	IBA Inferred from Biological aspect of Ancestor more info

Component	Evidence Code	Pubs
is_active_in nucleus	IBA Inferred from Biological aspect of Ancestor more info
located_in nucleus	IEA Inferred from Electronic Annotation more info

General protein information

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Preferred Names: Nuclear factor I family protein

NP_001022505.1

Confirmed by transcript evidence

NP_001367579.1

Confirmed by transcript evidence

NP_001367580.1

Confirmed by transcript evidence

NCBI Reference Sequences (RefSeq)

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Genome Annotation

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

Reference assembly

Genomic

NC_003280.10 Reference assembly

Range

7538180..7543007

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GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

NM_001027334.3 → NP_001022505.1 Nuclear factor I family protein [Caenorhabditis elegans]

See identical proteins and their annotated locations for NP_001022505.1

Status: REVIEWED

UniProtKB/TrEMBL

Q09631

Conserved Domains (2) summary

pfam03165
Location:112 → 215

MH1; MH1 domain

pfam10524
Location:50 → 90

NfI_DNAbd_pre-N; Nuclear factor I protein pre-N-terminus
NM_001381499.3 → NP_001367579.1 Nuclear factor I family protein [Caenorhabditis elegans]

Status: REVIEWED

Conserved Domains (2) summary

pfam10524
Location:33 → 70

NfI_DNAbd_pre-N; Nuclear factor I protein pre-N-terminus

pfam03165
Location:92 → 195

MH1; MH1 domain
NM_001381498.1 → NP_001367580.1 Nuclear factor I family protein [Caenorhabditis elegans]

Status: REVIEWED

UniProtKB/Swiss-Prot

Q09631, Q5H9N2, Q5H9N3

Conserved Domains (2) summary

pfam10524
Location:69 → 106

NfI_DNAbd_pre-N; Nuclear factor I protein pre-N-terminus

pfam03165
Location:128 → 231

MH1; MH1 domain