hnrnpu.S heterogeneous nuclear ribonucleoprotein U (scaffold attachment factor A) S homeolog [Xenopus laevis (African clawed frog)] - Gene

Summary

Official Symbol: hnrnpu.S
Official Full Name: heterogeneous nuclear ribonucleoprotein U (scaffold attachment factor A) S homeolog
Primary source: Xenbase:XB-GENE-866001
Locus tag: XELAEV_18028958mg
See related: EnsemblRapid:ENSXLAG00005007099 AllianceGenome:Xenbase:XB-GENE-866001
Gene type: protein coding
RefSeq status: PROVISIONAL
Organism: Xenopus laevis
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Amphibia; Batrachia; Anura; Pipoidea; Pipidae; Xenopodinae; Xenopus; Xenopus
Also known as: HNRPU; saf-a; hnrnpu
Summary: Predicted to enable several functions, including basal RNA polymerase II transcription machinery binding activity; nucleic acid binding activity; and promoter-specific chromatin binding activity. Predicted to act upstream of or within several processes, including RNA localization to chromatin; regulation of cell cycle process; and regulation of nucleobase-containing compound metabolic process. Predicted to be located in several cellular components, including chromosome; microtubule cytoskeleton; and nuclear lumen. Predicted to be part of CRD-mediated mRNA stability complex; catalytic step 2 spliceosome; and telomerase holoenzyme complex. Human ortholog(s) of this gene implicated in developmental and epileptic encephalopathy 54. Orthologous to human HNRNPU (heterogeneous nuclear ribonucleoprotein U). [provided by Alliance of Genome Resources, Nov 2024]
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Genomic context

Location:: chromosome: 5S

Exon count:: 15

Annotation release	Status	Assembly	Chr	Location
101	current	Xenopus_laevis_v10.1 (GCF_017654675.1)	5S	NC_054380.1 (35865737..35881252, complement)
100	previous assembly	Xenopus_laevis_v2 (GCF_001663975.1)	5S	NC_030733.1 (35740341..35752664, complement)

Chromosome 5S - NC_054380.1 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Genomic Sequence:

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Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

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General gene information

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Gene Ontology Provided by Xenbase

Function	Evidence Code	Pubs
enables RNA polymerase II C-terminal domain binding	IEA Inferred from Electronic Annotation more info
enables RNA polymerase II cis-regulatory region sequence-specific DNA binding	IEA Inferred from Electronic Annotation more info
enables TFIIH-class transcription factor complex binding	IEA Inferred from Electronic Annotation more info
enables poly(C) RNA binding	IEA Inferred from Electronic Annotation more info
enables poly(G) binding	IEA Inferred from Electronic Annotation more info
enables pre-mRNA binding	IEA Inferred from Electronic Annotation more info
enables promoter-specific chromatin binding	IEA Inferred from Electronic Annotation more info
enables ribonucleoprotein complex binding	IEA Inferred from Electronic Annotation more info
enables snRNA binding	IEA Inferred from Electronic Annotation more info
enables transcription corepressor activity	IEA Inferred from Electronic Annotation more info

Process	Evidence Code	Pubs
acts_upstream_of_or_within CRD-mediated mRNA stabilization	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within RNA localization to chromatin	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within negative regulation of telomere maintenance via telomerase	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within negative regulation of transcription by RNA polymerase II	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within positive regulation of attachment of mitotic spindle microtubules to kinetochore	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within positive regulation of transcription by RNA polymerase II	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within regulation of alternative mRNA splicing, via spliceosome	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within regulation of chromatin organization	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within regulation of mitotic spindle assembly	IEA Inferred from Electronic Annotation more info

Component	Evidence Code	Pubs
part_of CRD-mediated mRNA stability complex	IEA Inferred from Electronic Annotation more info
part_of catalytic step 2 spliceosome	IEA Inferred from Electronic Annotation more info
located_in centrosome	IEA Inferred from Electronic Annotation more info
located_in cytoplasmic ribonucleoprotein granule	IEA Inferred from Electronic Annotation more info
located_in inactive sex chromosome	IEA Inferred from Electronic Annotation more info
located_in kinetochore	IEA Inferred from Electronic Annotation more info
located_in membrane	IEA Inferred from Electronic Annotation more info
located_in mitotic spindle microtubule	IEA Inferred from Electronic Annotation more info
located_in mitotic spindle midzone	IEA Inferred from Electronic Annotation more info
located_in nuclear chromosome	IEA Inferred from Electronic Annotation more info
located_in nuclear matrix	IEA Inferred from Electronic Annotation more info
located_in nuclear speck	IEA Inferred from Electronic Annotation more info
located_in nucleus	IEA Inferred from Electronic Annotation more info
part_of ribonucleoprotein complex	IEA Inferred from Electronic Annotation more info
part_of telomerase holoenzyme complex	IEA Inferred from Electronic Annotation more info

General protein information

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Preferred Names: heterogeneous nuclear ribonucleoprotein U (scaffold attachment factor A) S homeolog

Names: scaffold attachment factor A

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_001090749.1 → NP_001084218.1 heterogeneous nuclear ribonucleoprotein U (scaffold attachment factor A) S homeolog

See identical proteins and their annotated locations for NP_001084218.1

Status: PROVISIONAL

Source sequence(s)

AF068847

UniProtKB/TrEMBL

Q5U5E2, Q9YHY5

Related

ENSXLAP00005020513.1, ENSXLAT00005021046.1

Conserved Domains (4) summary

smart00513
Location:7 → 41

SAP; Putative DNA-binding (bihelical) motif predicted to be involved in chromosomal organisation

pfam13671
Location:443 → 586

AAA_33; AAA domain

cd12884
Location:232 → 408

SPRY_hnRNP; SPRY domain in heterogeneous nuclear ribonucleoprotein U-like (hnRNP) protein 1

cl17190
Location:443 → 579

NK; Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside triphosphates ...

RefSeqs of Annotated Genomes: Xenopus laevis Annotation Release 101 details...

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

Reference Xenopus_laevis_v10.1 Primary Assembly

Genomic

NC_054380.1 Reference Xenopus_laevis_v10.1 Primary Assembly

Range

35865737..35881252 complement

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_041563966.1 → XP_041419900.1 heterogeneous nuclear ribonucleoprotein U (scaffold attachment factor A) S homeolog isoform X1

UniProtKB/TrEMBL

A0A8J1KRH8, A0A974CT34

Related

ENSXLAP00005020626.1, ENSXLAT00005021178.1

Conserved Domains (4) summary

smart00513
Location:7 → 41

SAP; Putative DNA-binding (bihelical) motif predicted to be involved in chromosomal organisation

PHA02530
Location:441 → 471

pseT; polynucleotide kinase; Provisional

cd12884
Location:232 → 408

SPRY_hnRNP; SPRY domain in heterogeneous nuclear ribonucleoprotein U-like (hnRNP) protein 1

cl17190
Location:443 → 579

NK; Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside triphosphates ...