U.S. flag

An official website of the United States government

Format

Send to:

Choose Destination

SWT1 SWT1 RNA endoribonuclease homolog [ Homo sapiens (human) ]

Gene ID: 54823, updated on 3-Apr-2024

Summary

Go to the top of the page Help
Official Symbol
SWT1provided by HGNC
Official Full Name
SWT1 RNA endoribonuclease homologprovided by HGNC
Primary source
HGNC:HGNC:16785
See related
Ensembl:ENSG00000116668 MIM:619513; AllianceGenome:HGNC:16785
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
HsSwt1; C1orf26
Summary
Predicted to be active in nucleus. [provided by Alliance of Genome Resources, Apr 2022]
Expression
Broad expression in testis (RPKM 13.8), bone marrow (RPKM 2.1) and 20 other tissues See more
Orthologs
mouse all
NEW
Try the new Gene table
Try the new Transcript table

Genomic context

Go to the top of the page Help
Location:
1q25.3
Exon count:
25
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 1 NC_000001.11 (185157060..185291781)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 1 NC_060925.1 (184513970..184648685)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 1 NC_000001.10 (185126192..185260913)

Chromosome 1 - NC_000001.11Genomic Context describing neighboring genes Neighboring gene CDK7 strongly-dependent group 2 enhancer GRCh37_chr1:184985922-184987121 Neighboring gene RNA, 5S ribosomal pseudogene 72 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 1643 Neighboring gene BRD4-independent group 4 enhancer GRCh37_chr1:185034115-185035314 Neighboring gene ReSE screen-validated silencer GRCh37_chr1:185041955-185042087 Neighboring gene ring finger protein 2 Neighboring gene ferritin heavy chain 1 pseudogene 25 Neighboring gene tRNA methyltransferase 1 like Neighboring gene H3K27ac hESC enhancer GRCh37_chr1:185125173-185126078 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 1645 Neighboring gene ribosomal protein L22 pseudogene 24 Neighboring gene ribosomal protein L5 pseudogene 5 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:185226026-185226636 Neighboring gene uncharacterized LOC105371651 Neighboring gene proteasome (prosome, macropain) 26S subunit, non-ATPase, 7 pseudogene Neighboring gene influenza virus NS1A binding protein Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:185285701-185286314 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 1647 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 2242 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 2243 Neighboring gene microtubule associated protein 1 light chain 3 beta pseudogene Neighboring gene CBS mRNA stabilizing lncRNA

Genomic regions, transcripts, and products

Go to the top of the page Help

Go to nucleotide: Graphics FASTA GenBank

Expression

Go to the top of the page Help
  • 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

Go to the top of the pageHelp

Related articles in PubMed

  1. Cloning and characterization of 13 novel transcripts and the human RGS8 gene from the 1q25 region encompassing the hereditary prostate cancer (HPC1) locus. Sood R, et al. Genomics, 2001 Apr 15. PMID 11318611
  2. An endoribonuclease functionally linked to perinuclear mRNP quality control associates with the nuclear pore complexes. Skruzný M, et al. PLoS Biol, 2009 Jan 6. PMID 19127978, Free PMC Article
  3. Aurora kinase A regulates Survivin stability through targeting FBXL7 in gastric cancer drug resistance and prognosis. Kamran M, et al. Oncogenesis, 2017 Feb 20. PMID 28218735, Free PMC Article
  4. Replication of previous genome-wide association studies of bone mineral density in premenopausal American women. Ichikawa S, et al. J Bone Miner Res, 2010 Aug. PMID 20200978, Free PMC Article
  5. Coeliac disease-associated risk variants in TNFAIP3 and REL implicate altered NF-kappaB signalling. Trynka G, et al. Gut, 2009 Aug. PMID 19240061

See all (16) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. Observational study of gene-disease association. (HuGE Navigator)
    Title: New genetic associations detected in a host response study to hepatitis B vaccine.
Submit: New GeneRIF Correction

Phenotypes

Go to the top of the page Help

Find tests for this gene in the NIH Genetic Testing Registry (GTR)

Review eQTL and phenotype association data in this region using PheGenI

Variation

Go to the top of the page Help

See variants in ClinVar

See studies and variants in dbVar

See Variation Viewer (GRCh37.p13)

See Variation Viewer (GRCh38)

Genotypes

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

Homology

Clone Names

  • FLJ20121, FLJ35944

Gene Ontology Provided by GOA

Component Evidence Code Pubs
is_active_in nucleus IBA
Inferred from Biological aspect of Ancestor
more info
  

General protein information

Go to the top of the page Help
Preferred Names
transcriptional protein SWT1

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)

  1. NM_001105518.2 → NP_001098988.1  transcriptional protein SWT1

    See identical proteins and their annotated locations for NP_001098988.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) differs in the 5' UTR compared to variant 1. Both variants 1 and 2 encode the same protein.
    Source sequence(s)
    AF288392, AK000128, AK127980, BI756018, DB453411, DB518900
    Consensus CDS
    CCDS1367.1
    UniProtKB/Swiss-Prot
    Q5T5J6, Q8NEK9, Q9BZQ7, Q9NXQ0
    UniProtKB/TrEMBL
    A8K5X8
    Related
    ENSP00000356471.3, ENST00000367501.7
    Conserved Domains (1) summary
    cd18727
    Location:391 → 532
    PIN_Swt1-like; VapC-like PIN domain of Saccharomyces cerevisiae Swt1p, human SWT1 and related proteins

  2. NM_017673.7 → NP_060143.4  transcriptional protein SWT1

    See identical proteins and their annotated locations for NP_060143.4

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) represents the longer transcript. Both variants 1 and 2 encode the same protein.
    Source sequence(s)
    AF288392, AK000128, BC030781, BI756018, DB518900
    Consensus CDS
    CCDS1367.1
    UniProtKB/Swiss-Prot
    Q5T5J6, Q8NEK9, Q9BZQ7, Q9NXQ0
    UniProtKB/TrEMBL
    A8K5X8
    Related
    ENSP00000356470.4, ENST00000367500.9
    Conserved Domains (1) summary
    cd18727
    Location:391 → 532
    PIN_Swt1-like; VapC-like PIN domain of Saccharomyces cerevisiae Swt1p, human SWT1 and related proteins

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_000001.11 Reference GRCh38.p14 Primary Assembly

    Range
    185157060..185291781
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_005245271.3 → XP_005245328.1  transcriptional protein SWT1 isoform X1

    See identical proteins and their annotated locations for XP_005245328.1

    UniProtKB/TrEMBL
    A8K5X8
    Conserved Domains (1) summary
    cd09880
    Location:396 → 537
    PIN_Smg5-Smg6-like; PIN domain

  2. XM_047423246.1 → XP_047279202.1  transcriptional protein SWT1 isoform X3

  3. XM_017001528.3 → XP_016857017.1  transcriptional protein SWT1 isoform X3

    UniProtKB/TrEMBL
    A8K5X8

  4. XM_017001530.3 → XP_016857019.1  transcriptional protein SWT1 isoform X5

    UniProtKB/TrEMBL
    A8K5X8

  5. XM_011509657.2 → XP_011507959.1  transcriptional protein SWT1 isoform X1

    See identical proteins and their annotated locations for XP_011507959.1

    UniProtKB/TrEMBL
    A8K5X8
    Conserved Domains (1) summary
    cd09880
    Location:396 → 537
    PIN_Smg5-Smg6-like; PIN domain

  6. XM_005245273.2 → XP_005245330.1  transcriptional protein SWT1 isoform X1

    See identical proteins and their annotated locations for XP_005245330.1

    UniProtKB/TrEMBL
    A8K5X8
    Conserved Domains (1) summary
    cd09880
    Location:396 → 537
    PIN_Smg5-Smg6-like; PIN domain

  7. XM_017001527.2 → XP_016857016.1  transcriptional protein SWT1 isoform X2

    UniProtKB/Swiss-Prot
    Q5T5J6, Q8NEK9, Q9BZQ7, Q9NXQ0
    UniProtKB/TrEMBL
    A8K5X8
    Conserved Domains (1) summary
    cd18727
    Location:391 → 532
    PIN_Swt1-like; VapC-like PIN domain of Saccharomyces cerevisiae Swt1p, human SWT1 and related proteins

  8. XM_047423249.1 → XP_047279205.1  transcriptional protein SWT1 isoform X6

  9. XM_047423243.1 → XP_047279199.1  transcriptional protein SWT1 isoform X2

    UniProtKB/Swiss-Prot
    Q5T5J6, Q8NEK9, Q9BZQ7, Q9NXQ0

  10. XM_024447752.2 → XP_024303520.1  transcriptional protein SWT1 isoform X1

    UniProtKB/TrEMBL
    A8K5X8
    Conserved Domains (1) summary
    cd09880
    Location:396 → 537
    PIN_Smg5-Smg6-like; PIN domain

  11. XM_024447754.2 → XP_024303522.1  transcriptional protein SWT1 isoform X2

    UniProtKB/Swiss-Prot
    Q5T5J6, Q8NEK9, Q9BZQ7, Q9NXQ0
    UniProtKB/TrEMBL
    A8K5X8
    Conserved Domains (1) summary
    cd18727
    Location:391 → 532
    PIN_Swt1-like; VapC-like PIN domain of Saccharomyces cerevisiae Swt1p, human SWT1 and related proteins

  12. XM_024447753.2 → XP_024303521.1  transcriptional protein SWT1 isoform X1

    UniProtKB/TrEMBL
    A8K5X8
    Conserved Domains (1) summary
    cd09880
    Location:396 → 537
    PIN_Smg5-Smg6-like; PIN domain

  13. XM_047423248.1 → XP_047279204.1  transcriptional protein SWT1 isoform X4

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060925.1 Alternate T2T-CHM13v2.0

    Range
    184513970..184648685
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_054337210.1 → XP_054193185.1  transcriptional protein SWT1 isoform X1

  2. XM_054337215.1 → XP_054193190.1  transcriptional protein SWT1 isoform X3

  3. XM_054337216.1 → XP_054193191.1  transcriptional protein SWT1 isoform X3

  4. XM_054337218.1 → XP_054193193.1  transcriptional protein SWT1 isoform X5

  5. XM_054337207.1 → XP_054193182.1  transcriptional protein SWT1 isoform X1

  6. XM_054337214.1 → XP_054193189.1  transcriptional protein SWT1 isoform X2

    UniProtKB/Swiss-Prot
    Q5T5J6, Q8NEK9, Q9BZQ7, Q9NXQ0

  7. XM_054337209.1 → XP_054193184.1  transcriptional protein SWT1 isoform X1

  8. XM_054337219.1 → XP_054193194.1  transcriptional protein SWT1 isoform X6

  9. XM_054337212.1 → XP_054193187.1  transcriptional protein SWT1 isoform X2

    UniProtKB/Swiss-Prot
    Q5T5J6, Q8NEK9, Q9BZQ7, Q9NXQ0

  10. XM_054337208.1 → XP_054193183.1  transcriptional protein SWT1 isoform X1

  11. XM_054337213.1 → XP_054193188.1  transcriptional protein SWT1 isoform X2

    UniProtKB/Swiss-Prot
    Q5T5J6, Q8NEK9, Q9BZQ7, Q9NXQ0

  12. XM_054337211.1 → XP_054193186.1  transcriptional protein SWT1 isoform X1

  13. XM_054337217.1 → XP_054193192.1  transcriptional protein SWT1 isoform X4

Nucleotide Protein
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q5T5J6.1 GenPept UniProtKB/Swiss-Prot:Q5T5J6

Gene LinkOut

The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.

Chemical Information
Molecular Biology Databases
Research Materials
Tools
Miscellaneous