UTP15 UTP15 small subunit processome component [Homo sapiens (human)] - Gene

Summary

Official Symbol: UTP15provided by HGNC
Official Full Name: UTP15 small subunit processome componentprovided by HGNC
Primary source: HGNC:HGNC:25758
See related: Ensembl:ENSG00000164338 MIM:616194; AllianceGenome:HGNC:25758
Gene type: protein coding
RefSeq status: VALIDATED
Organism: Homo sapiens
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as: NET21
Summary: Enables RNA binding activity. Involved in positive regulation of rRNA processing; positive regulation of transcription by RNA polymerase I; and ribosomal small subunit biogenesis. Located in endoplasmic reticulum and fibrillar center. Part of small-subunit processome. [provided by Alliance of Genome Resources, Dec 2024]
Expression: Ubiquitous expression in bone marrow (RPKM 3.2), thyroid (RPKM 2.7) and 25 other tissues See more
Orthologs: mouse all
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Genomic context

Location:: 5q13.2

Exon count:: 13

Annotation release	Status	Assembly	Chr	Location
RS_2024_08	current	GRCh38.p14 (GCF_000001405.40)	5	NC_000005.10 (73565741..73583380)
RS_2024_08	current	T2T-CHM13v2.0 (GCF_009914755.1)	5	NC_060929.1 (74047053..74064689)
RS_2024_09	previous assembly	GRCh37.p13 (GCF_000001405.25)	5	NC_000005.9 (72861566..72879205)

Chromosome 5 - NC_000005.10 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

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See details

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

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Submit: New GeneRIF Correction

Phenotypes

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Review eQTL and phenotype association data in this region using PheGenI

Variation

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See variants in ClinVar

See studies and variants in dbVar

See Variation Viewer (GRCh37.p13)

See Variation Viewer (GRCh38)

HIV-1 interactions

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Protein interactions

Protein	Gene	Interaction	Pubs
Tat	tat	Expression of HIV-1 Tat downregulates the abundance of UTP15, U3 small nucleolar ribonucleoprotein (UTP15) in the nucleoli of Jurkat T-cells	PubMed

Go to the HIV-1, Human Interaction Database

Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Markers

D8S2279 (e-PCR)
- UniSTS:473907

STS-T10509 (e-PCR)
- UniSTS:32573

Gene Ontology Provided by GOA

Function	Evidence Code	Pubs
enables RNA binding	HDA more info	PubMed
enables protein binding	IPI Inferred from Physical Interaction more info	PubMed

Process	Evidence Code	Pubs
involved_in positive regulation of rRNA processing	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in positive regulation of transcription by RNA polymerase I	IBA Inferred from Biological aspect of Ancestor more info
involved_in positive regulation of transcription by RNA polymerase I	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in rRNA processing	IBA Inferred from Biological aspect of Ancestor more info
involved_in ribosomal small subunit biogenesis	IDA Inferred from Direct Assay more info	PubMed

Component	Evidence Code	Pubs
located_in cytoplasm	IDA Inferred from Direct Assay more info
located_in endoplasmic reticulum	IDA Inferred from Direct Assay more info
located_in fibrillar center	IDA Inferred from Direct Assay more info	PubMed
is_active_in nucleolus	IBA Inferred from Biological aspect of Ancestor more info
located_in nucleolus	IDA Inferred from Direct Assay more info	PubMed
located_in nucleoplasm	TAS Traceable Author Statement more info
part_of small-subunit processome	IDA Inferred from Direct Assay more info	PubMed

General protein information

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Preferred Names: U3 small nucleolar RNA-associated protein 15 homolog

Names: Src-associated protein SAW; UTP15 SSU processome component; UTP15, U3 small nucleolar ribonucleoprotein, homolog

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_001284430.1 → NP_001271359.1 U3 small nucleolar RNA-associated protein 15 homolog isoform 2

See identical proteins and their annotated locations for NP_001271359.1

Status: VALIDATED

Description

Transcript Variant: This variant (2) uses an alternate in-frame acceptor splice site in the 5' coding region compared to variant 1. The resulting shorter isoform (2) lacks an internal protein segment compared to isoform 1.

Source sequence(s)

AC010279, AK022849, AK302021, AL520195, BP872156

Consensus CDS

CCDS68893.1

UniProtKB/TrEMBL

H0Y8P4

Related

ENSP00000424609.1, ENST00000508491.1

Conserved Domains (4) summary

COG2319
Location:75 → 291

WD40; WD40 repeat [General function prediction only]

cd00200
Location:53 → 296

WD40; WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from ...

pfam09384
Location:324 → 468

UTP15_C; UTP15 C terminal

sd00039
Location:65 → 101

7WD40; WD40 repeat [structural motif]
NM_001284431.1 → NP_001271360.1 U3 small nucleolar RNA-associated protein 15 homolog isoform 3

See identical proteins and their annotated locations for NP_001271360.1

Status: VALIDATED

Description

Transcript Variant: This variant (3) lacks an exon in the 5' coding region and initiates translation from an in-frame downstream start codon compared to variant 1. The resulting isoform (3) has a shorter N-terminus compared to isoform 1.

Source sequence(s)

AC010279, AK022849, AK300525, AL520195, BP872156

Consensus CDS

CCDS68894.1

UniProtKB/Swiss-Prot

Q8TED0

Related

ENSP00000440796.1, ENST00000543251.5

Conserved Domains (4) summary

COG2319
Location:2 → 120

WD40; WD40 repeat [General function prediction only]

pfam09384
Location:153 → 297

UTP15_C; UTP15 C terminal

sd00039
Location:19 → 54

7WD40; WD40 repeat [structural motif]

cl02567
Location:1 → 125

WD40; WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from ...
NM_032175.4 → NP_115551.2 U3 small nucleolar RNA-associated protein 15 homolog isoform 1

See identical proteins and their annotated locations for NP_115551.2

Status: VALIDATED

Description

Transcript Variant: This variant (1) represents the longest transcript and encodes the longest isoform (1)

Source sequence(s)

AC010279, AK022849, AL520195, AL831972, BC150197, BP872156

Consensus CDS

CCDS34186.1

UniProtKB/Swiss-Prot

B4DU75, B4DXK8, Q6IA60, Q8TED0, Q96E08, Q9H9F8

UniProtKB/TrEMBL

H0Y8P4

Related

ENSP00000296792.4, ENST00000296792.9

Conserved Domains (4) summary

COG2319
Location:28 → 310

WD40; WD40 repeat [General function prediction only]

cd00200
Location:39 → 306

WD40; WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from ...

pfam09384
Location:343 → 487

UTP15_C; UTP15 C terminal

sd00039
Location:41 → 79

7WD40; WD40 repeat [structural motif]

RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2024_08

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

Reference GRCh38.p14 Primary Assembly

Genomic

NC_000005.10 Reference GRCh38.p14 Primary Assembly

Range

73565741..73583380

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_011543680.3 → XP_011541982.1 U3 small nucleolar RNA-associated protein 15 homolog isoform X1

See identical proteins and their annotated locations for XP_011541982.1

UniProtKB/Swiss-Prot

B4DU75, B4DXK8, Q6IA60, Q8TED0, Q96E08, Q9H9F8

UniProtKB/TrEMBL

H0Y8P4

Conserved Domains (4) summary

COG2319
Location:28 → 310

WD40; WD40 repeat [General function prediction only]

cd00200
Location:39 → 306

WD40; WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from ...

pfam09384
Location:343 → 487

UTP15_C; UTP15 C terminal

sd00039
Location:41 → 79

7WD40; WD40 repeat [structural motif]

Alternate T2T-CHM13v2.0

Genomic

NC_060929.1 Alternate T2T-CHM13v2.0

Range

74047053..74064689

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_054353681.1 → XP_054209656.1 U3 small nucleolar RNA-associated protein 15 homolog isoform X1

UniProtKB/Swiss-Prot

B4DU75, B4DXK8, Q6IA60, Q8TED0, Q96E08, Q9H9F8

UniProtKB/TrEMBL

H0Y8P4