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

Gene ID: 84135, updated on 9-Jun-2024

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 and positive regulation of transcription by RNA polymerase I. Located in endoplasmic reticulum and fibrillar center. [provided by Alliance of Genome Resources, Apr 2022]
Expression
Ubiquitous expression in bone marrow (RPKM 3.2), thyroid (RPKM 2.7) and 25 other tissues See more
Orthologs
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Genomic context

See UTP15 in Genome Data Viewer
Location:
5q13.2
Exon count:
13
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 5 NC_000005.10 (73565741..73583380)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 5 NC_060929.1 (74047053..74064689)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 5 NC_000005.9 (72861566..72879205)

Chromosome 5 - NC_000005.10Genomic Context describing neighboring genes Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 16090 Neighboring gene FUN14 domain containing 2 pseudogene 1 Neighboring gene H3K27ac hESC enhancers GRCh37_chr5:72860724-72861278 and GRCh37_chr5:72861279-72861833 Neighboring gene ankyrin repeat family A member 2 Neighboring gene ReSE screen-validated silencer GRCh37_chr5:72895316-72895509 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 16091 Neighboring gene uncharacterized LOC107986423 Neighboring gene Rho guanine nucleotide exchange factor 28 Neighboring gene OCT4-NANOG hESC enhancer GRCh37_chr5:72989307-72989931 Neighboring gene NANOG hESC enhancer GRCh37_chr5:73042994-73043575 Neighboring gene Sharpr-MPRA regulatory region 14272 Neighboring gene Sharpr-MPRA regulatory region 14554 Neighboring gene BRD4-independent group 4 enhancer GRCh37_chr5:73091866-73093065 Neighboring gene RNA, U7 small nuclear 196 pseudogene

Genomic regions, transcripts, and products

Expression

  • 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

HIV-1 interactions

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

Pathways from PubChem

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Clone Names

  • FLJ12787

Gene Ontology Provided by GOA

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

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)

  1. NM_001284430.1NP_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:75291
    WD40; WD40 repeat [General function prediction only]
    cd00200
    Location:53296
    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:324468
    UTP15_C; UTP15 C terminal
    sd00039
    Location:65101
    7WD40; WD40 repeat [structural motif]
  2. NM_001284431.1NP_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:2120
    WD40; WD40 repeat [General function prediction only]
    pfam09384
    Location:153297
    UTP15_C; UTP15 C terminal
    sd00039
    Location:1954
    7WD40; WD40 repeat [structural motif]
    cl02567
    Location:1125
    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 ...
  3. NM_032175.4NP_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:28310
    WD40; WD40 repeat [General function prediction only]
    cd00200
    Location:39306
    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:343487
    UTP15_C; UTP15 C terminal
    sd00039
    Location:4179
    7WD40; WD40 repeat [structural motif]

RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2023_10

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

Reference GRCh38.p14 Primary Assembly

Genomic

  1. NC_000005.10 Reference GRCh38.p14 Primary Assembly

    Range
    73565741..73583380
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_011543680.3XP_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:28310
    WD40; WD40 repeat [General function prediction only]
    cd00200
    Location:39306
    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:343487
    UTP15_C; UTP15 C terminal
    sd00039
    Location:4179
    7WD40; WD40 repeat [structural motif]

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060929.1 Alternate T2T-CHM13v2.0

    Range
    74047053..74064689
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

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

    UniProtKB/Swiss-Prot
    B4DU75, B4DXK8, Q6IA60, Q8TED0, Q96E08, Q9H9F8
    UniProtKB/TrEMBL
    H0Y8P4