Nfyb nuclear transcription factor Y subunit beta [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Nfybprovided by RGD
Official Full Name: nuclear transcription factor Y subunit betaprovided by RGD
Primary source: RGD:3172
See related: EnsemblRapid:ENSRNOG00000010309 AllianceGenome:RGD:3172
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: CBFB; Nfya; CBF-B
Summary: Predicted to enable DNA-binding transcription activator activity, RNA polymerase II-specific; DNA-binding transcription factor binding activity; and sequence-specific DNA binding activity. Predicted to contribute to RNA polymerase II cis-regulatory region sequence-specific DNA binding activity. Predicted to be involved in positive regulation of transcription by RNA polymerase II. Predicted to act upstream of or within cellular response to leukemia inhibitory factor and positive regulation of DNA-templated transcription. Part of CCAAT-binding activity factor complex. Orthologous to human NFYB (nuclear transcription factor Y subunit beta). [provided by Alliance of Genome Resources, Dec 2024]
Expression: Biased expression in Thymus (RPKM 130.1), Brain (RPKM 111.1) and 9 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 7q13

Exon count:: 9

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	7	NC_086025.1 (22852543..22868116)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	7	NC_051342.1 (20964988..20980569)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	7	NC_005106.4 (27081667..27097481)

Chromosome 7 - NC_086025.1 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Genomic Sequence:

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Expression

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See details

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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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

RFX2 and NF-Y binding to the testis-specific histone H1t promoter may be required for transcriptional activation in primary spermatocytes
Title: Binding of RFX2 and NF-Y to the testis-specific histone H1t promoter may be required for transcriptional activation in primary spermatocytes.
in INS-1 cells, Sp1 and Sp3 bind a GC box while the nuclear factor Y binds the proximal but not the distal CCAAT box
Title: Involvement of specific proteins (Sp1/Sp3) and nuclear factor Y in basal transcription of the distal promoter of the rat pyruvate carboxylase gene in beta-cells.

Submit: New GeneRIF Correction

General gene information

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Gene Ontology Provided by RGD

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

Process	Evidence Code	Pubs
involved_in cellular response to leukemia inhibitory factor	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within cellular response to leukemia inhibitory factor	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within positive regulation of DNA-templated transcription	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of transcription by RNA polymerase II	IEA Inferred from Electronic Annotation more info
involved_in positive regulation of transcription by RNA polymerase II	ISO Inferred from Sequence Orthology more info
involved_in regulation of DNA-templated transcription	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
involved_in transcription by RNA polymerase II	IC Inferred by Curator more info	PubMed

Component	Evidence Code	Pubs
part_of CCAAT-binding factor complex	IBA Inferred from Biological aspect of Ancestor more info
part_of CCAAT-binding factor complex	IDA Inferred from Direct Assay more info	PubMed
part_of CCAAT-binding factor complex	IEA Inferred from Electronic Annotation more info
part_of CCAAT-binding factor complex	ISO Inferred from Sequence Orthology more info
part_of RNA polymerase II transcription regulator complex	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
located_in nucleoplasm	TAS Traceable Author Statement more info
located_in nucleus	ISO Inferred from Sequence Orthology more info
part_of protein-DNA complex	IEA Inferred from Electronic Annotation more info
part_of protein-DNA complex	ISO Inferred from Sequence Orthology more info

General protein information

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Preferred Names: nuclear transcription factor Y subunit beta

Names: CAAT box DNA-binding protein subunit B; CBF-A; CCAAT binding transcription factor of CBF-B/NFY-B; CCAAT-binding transcription factor subunit A; CCAAT-binding transcription factor subunit B; NF-YB; nuclear transcription factor - Y beta; nuclear transcription factor Y subunit B; nuclear transcription factor-Y beta

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)

NM_031553.2 → NP_113741.1 nuclear transcription factor Y subunit beta

See identical proteins and their annotated locations for NP_113741.1

Status: PROVISIONAL

Source sequence(s)

BC089791

UniProtKB/Swiss-Prot

P63140, Q5FVT0

UniProtKB/TrEMBL

A0A0G2K1E6, A0A8I6B326, A6IFH9

Related

ENSRNOP00000061405.1, ENSRNOT00000066143.4

Conserved Domains (1) summary

pfam00808
Location:57 → 122

CBFD_NFYB_HMF; Histone-like transcription factor (CBF/NF-Y) and archaeal histone

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

NC_086025.1 Reference GRCr8

Range

22852543..22868116

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_039078462.2 → XP_038934390.1 nuclear transcription factor Y subunit beta isoform X2

Conserved Domains (1) summary

pfam00808
Location:2 → 46

CBFD_NFYB_HMF; Histone-like transcription factor (CBF/NF-Y) and archaeal histone
XM_039078461.2 → XP_038934389.1 nuclear transcription factor Y subunit beta isoform X1

UniProtKB/Swiss-Prot

P63140, Q5FVT0

UniProtKB/TrEMBL

A0A0G2K1E6, A0A8I6B326, A6IFH9

Conserved Domains (1) summary

pfam00808
Location:57 → 122

CBFD_NFYB_HMF; Histone-like transcription factor (CBF/NF-Y) and archaeal histone