Fubp3 far upstream element (FUSE) binding protein 3 [Mus musculus (house mouse)] - Gene

Summary

Official Symbol: Fubp3provided by MGI
Official Full Name: far upstream element (FUSE) binding protein 3provided by MGI
Primary source: MGI:MGI:2443699
See related: Ensembl:ENSMUSG00000026843 AllianceGenome:MGI:2443699
Gene type: protein coding
RefSeq status: VALIDATED
Organism: Mus musculus
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
Also known as: FBP3; Marta2; A330051M14Rik
Summary: Predicted to enable mRNA binding activity and single-stranded DNA binding activity. Predicted to be involved in positive regulation of gene expression; positive regulation of transcription, DNA-templated; and transcription, DNA-templated. Predicted to act upstream of or within positive regulation of transcription by RNA polymerase II. Predicted to be active in cytoplasm and nucleus. Is expressed in several structures, including alimentary system; central nervous system; genitourinary system; integumental system; and sensory organ. Orthologous to human FUBP3 (far upstream element binding protein 3). [provided by Alliance of Genome Resources, Apr 2022]
Expression: Ubiquitous expression in CNS E11.5 (RPKM 12.5), limb E14.5 (RPKM 12.0) and 28 other tissues See more
Orthologs: human all
NEW: Try the new Gene table
Try the new Transcript table

Genomic context

Location:: 2 B; 2 21.84 cM

Exon count:: 20

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCm39 (GCF_000001635.27)	2	NC_000068.8 (31462655..31507538)
108.20200622	previous assembly	GRCm38.p6 (GCF_000001635.26)	2	NC_000068.7 (31572643..31617526)

Chromosome 2 - NC_000068.8 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

Go to the top of the page Help

Go to reference sequence details

Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

Go to the top of the page Help

See details

Project title: Mouse ENCODE transcriptome data
Description: RNA profiling data sets generated by the Mouse ENCODE project.
BioProject: PRJNA66167
Publication: PMID 25409824
Analysis date: n/a

Bibliography

Go to the top of the page Help

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Lnc-EST12, which is negatively regulated by mycobacterial EST12, suppresses antimycobacterial innate immunity through its interaction with FUBP3.
Title: Lnc-EST12, which is negatively regulated by mycobacterial EST12, suppresses antimycobacterial innate immunity through its interaction with FUBP3.

Submit: New GeneRIF Correction

Variation

Go to the top of the page Help

Alleles

Alleles of this type are documented at Mouse Genome Informatics (MGI)

Targeted (2)
Endonuclease-mediated (2)

Interactions

Go to the top of the page Help

Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

Go to the top of the page Help

Markers

Fubp3 (e-PCR), detects polymorphism
- UniSTS:478999

AV006371 (e-PCR)
- UniSTS:164152

Fubp3 (e-PCR), detects polymorphism
- UniSTS:547230

Gene Ontology Provided by MGI

Function	Evidence Code	Pubs
enables mRNA binding	IBA Inferred from Biological aspect of Ancestor more info
enables single-stranded DNA binding	ISO Inferred from Sequence Orthology more info

Process	Evidence Code	Pubs
involved_in DNA-templated transcription	ISO Inferred from Sequence Orthology more info
involved_in intracellular mRNA localization	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of DNA-templated transcription	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of gene expression	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within positive regulation of transcription by RNA polymerase II	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
is_active_in cytoplasm	IBA Inferred from Biological aspect of Ancestor more info
located_in cytoplasm	ISO Inferred from Sequence Orthology more info
located_in dendritic shaft	ISO Inferred from Sequence Orthology more info
located_in neuronal cell body	ISO Inferred from Sequence Orthology more info
located_in nucleoplasm	ISO Inferred from Sequence Orthology more info
is_active_in nucleus	IBA Inferred from Biological aspect of Ancestor more info
located_in nucleus	ISO Inferred from Sequence Orthology more info
located_in ribosome	ISO Inferred from Sequence Orthology more info

General protein information

Go to the top of the page Help

Preferred Names: far upstream element-binding protein 3

NCBI Reference Sequences (RefSeq)

Go to the top of the page Help

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)

NM_001033389.4 → NP_001028561.2 far upstream element-binding protein 3 isoform a

See identical proteins and their annotated locations for NP_001028561.2

Status: VALIDATED

Description

Transcript Variant: This variant (1) represents the longer transcript and encodes the longer isoform (a).

Source sequence(s)

AK039504, AK167671, BY311525, BY643667, CD538485

Consensus CDS

CCDS15899.1

UniProtKB/TrEMBL

Q3TIX6, Q3ULP9

Related

ENSMUSP00000053474.7, ENSMUST00000055244.13

Conserved Domains (2) summary

cd00105
Location:79 → 141

KH-I; K homology RNA-binding domain, type I. KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA. There are two different KH domains that ...

pfam00013
Location:165 → 230

KH_1; KH domain
NM_001290548.1 → NP_001277477.1 far upstream element-binding protein 3 isoform b

See identical proteins and their annotated locations for NP_001277477.1

Status: VALIDATED

Description

Transcript Variant: This variant (2) lacks a segment of the 3' coding region and 3' UTR, compared to variant 1. The encoded isoform (b) has a distinct C-terminus and is shorter than isoform a.

Source sequence(s)

AK039504, AK167671, BG087512, BY311525, BY643667, CD538485

Consensus CDS

CCDS71025.1

UniProtKB/TrEMBL

A2AJ72, Q3ULP9

Related

ENSMUSP00000109110.2, ENSMUST00000113482.8

Conserved Domains (2) summary

smart00322
Location:161 → 232

KH; K homology RNA-binding domain

cd00105
Location:79 → 141

KH-I; K homology RNA-binding domain, type I. KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA. There are two different KH domains that ...
NM_001363079.1 → NP_001350008.1 far upstream element-binding protein 3 isoform c

Status: VALIDATED

Description

Transcript Variant: This variant (3) uses an alternate in-frame splice junction and differs in the 3' UTR and coding sequence compared to variant 1. The resulting isoform (c) lacks an alternate internal aa and has a shorter and distinct C-terminus compared to isoform a.

Source sequence(s)

AL732564

UniProtKB/TrEMBL

Q3ULP9

Conserved Domains (1) summary

pfam00013
Location:78 → 140

KH_1; KH domain
NM_001363080.1 → NP_001350009.1 far upstream element-binding protein 3 isoform d

Status: VALIDATED

Description

Transcript Variant: This variant (4) lacks an alternate in-frame exon and differs in the 3' UTR and coding sequence compared to variant 1. The resulting isoform (d) lacks an alternate internal segment and has a shorter and distinct C-terminus compared to isoform a.

Source sequence(s)

AL732564

UniProtKB/TrEMBL

Q3ULP9

Conserved Domains (1) summary

pfam00013
Location:79 → 141

KH_1; KH domain
NM_001363081.1 → NP_001350010.1 far upstream element-binding protein 3 isoform e

Status: VALIDATED

Description

Transcript Variant: This variant (5) lacks an alternate exon and differs in the 3' UTR and coding sequence compared to variant 1. The resulting isoform (e) is shorter at the N-terminus and has a shorter and distinct C-terminus compared to isoform a.

Source sequence(s)

AL732564

Conserved Domains (1) summary

pfam00013
Location:7 → 73

KH_1; KH domain

RefSeqs of Annotated Genomes: GCF_000001635.27-RS_2024_02

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

Reference GRCm39 C57BL/6J

Genomic

NC_000068.8 Reference GRCm39 C57BL/6J

Range

31462655..31507538

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_006498126.2 → XP_006498189.1 far upstream element-binding protein 3 isoform X1

See identical proteins and their annotated locations for XP_006498189.1

UniProtKB/TrEMBL

Q3TIX6, Q3ULP9

Conserved Domains (2) summary

cd00105
Location:79 → 141

KH-I; K homology RNA-binding domain, type I. KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA. There are two different KH domains that ...

pfam00013
Location:165 → 230

KH_1; KH domain
XM_006498129.2 → XP_006498192.1 far upstream element-binding protein 3 isoform X3

UniProtKB/TrEMBL

Q3ULP9

Conserved Domains (2) summary

cd00105
Location:79 → 141

KH-I; K homology RNA-binding domain, type I. KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA. There are two different KH domains that ...

pfam00013
Location:165 → 230

KH_1; KH domain
XM_030251753.1 → XP_030107613.1 far upstream element-binding protein 3 isoform X3

UniProtKB/TrEMBL

Q3ULP9

Conserved Domains (2) summary

cd00105
Location:79 → 141

KH-I; K homology RNA-binding domain, type I. KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA. There are two different KH domains that ...

pfam00013
Location:165 → 230

KH_1; KH domain
XM_006498127.2 → XP_006498190.1 far upstream element-binding protein 3 isoform X2

UniProtKB/TrEMBL

Q3ULP9

Conserved Domains (2) summary

cd00105
Location:78 → 140

KH-I; K homology RNA-binding domain, type I. KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA. There are two different KH domains that ...

pfam00013
Location:164 → 229

KH_1; KH domain
XM_030251754.1 → XP_030107614.1 far upstream element-binding protein 3 isoform X4

UniProtKB/TrEMBL

Q3ULP9

Conserved Domains (2) summary

cd00105
Location:78 → 140

KH-I; K homology RNA-binding domain, type I. KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA. There are two different KH domains that ...

pfam00013
Location:164 → 229

KH_1; KH domain
XM_006498130.5 → XP_006498193.1 far upstream element-binding protein 3 isoform X5

Conserved Domains (2) summary

cd00105
Location:98 → 160

KH-I; K homology RNA-binding domain, type I. KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA. There are two different KH domains that ...

pfam00013
Location:8 → 73

KH_1; KH domain