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KNOP1 lysine rich nucleolar protein 1 [ Homo sapiens (human) ]

Gene ID: 400506, updated on 5-Mar-2024

Summary

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Official Symbol
KNOP1provided by HGNC
Official Full Name
lysine rich nucleolar protein 1provided by HGNC
Primary source
HGNC:HGNC:34404
See related
Ensembl:ENSG00000103550 AllianceGenome:HGNC:34404
Gene type
protein coding
RefSeq status
REVIEWED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as
TSG118; FAM191A; 101F10.1; C16orf88
Summary
The protein encoded by this gene is a nucleolar protein that interacts with zinc finger 106 protein. The encoded protein has several of the same characteristics as nucleostemin and may be involved in testis development. [provided by RefSeq, Feb 2017]
Expression
Ubiquitous expression in testis (RPKM 5.4), placenta (RPKM 4.6) and 25 other tissues See more
Orthologs
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Genomic context

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Location:
16p12.3
Exon count:
6
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 16 NC_000016.10 (19701937..19718227, complement)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 16 NC_060940.1 (19632739..19649030, complement)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 16 NC_000016.9 (19713259..19729549, complement)

Chromosome 16 - NC_000016.10Genomic Context describing neighboring genes Neighboring gene centriolar coiled-coil protein 110 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr16:19566659-19567621 Neighboring gene VPS35 endosomal protein sorting factor like Neighboring gene MED14-independent group 3 enhancer GRCh37_chr16:19620544-19621743 Neighboring gene NANOG hESC enhancer GRCh37_chr16:19673654-19674240 Neighboring gene H3K27ac hESC enhancer GRCh37_chr16:19698132-19698632 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr16:19710103-19710758 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr16:19710759-19711413 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr16:19721101-19721825 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr16:19721826-19722552 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr16:19723278-19724003 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 10534 Neighboring gene IQ motif containing K Neighboring gene uncharacterized LOC105371115 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr16:19778410-19778910 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr16:19778911-19779411 Neighboring gene LARP7 pseudogene 2

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • 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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Related articles in PubMed

  1. Subcellular recruitment by TSG118 and TSPYL implicates a role for zinc finger protein 106 in a novel developmental pathway. Grasberger H, et al. Int J Biochem Cell Biol, 2005 Jul. PMID 15833274
  2. Genome-wide association study in obsessive-compulsive disorder: results from the OCGAS. Mattheisen M, et al. Mol Psychiatry, 2015 Mar. PMID 24821223, Free PMC Article
  3. The OTUD6B-LIN28B-MYC axis determines the proliferative state in multiple myeloma. Paulmann C, et al. EMBO J, 2022 Oct 17. PMID 36059274, Free PMC Article
  4. Genome duplications and other features in 12 Mb of DNA sequence from human chromosome 16p and 16q. Loftus BJ, et al. Genomics, 1999 Sep 15. PMID 10493829
  5. KSHV episome tethering sites on host chromosomes and regulation of latency-lytic switch by CHD4. Kumar A, et al. Cell Rep, 2022 May 10. PMID 35545047, Free PMC Article

See all (55) citations in PubMed

GeneRIFs: Gene References Into Functions

Phenotypes

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

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)

Genotypes

HIV-1 interactions

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Protein interactions

Protein Gene Interaction Pubs
Vif vif HIV-1 Vif downregulates the expression of lysine-rich nucleolar protein 1 (C16orf88, KNOP1) in Vif-expression 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

Homology

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 nucleolus IEA
Inferred from Electronic Annotation
more info
  

General protein information

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Preferred Names
lysine-rich nucleolar protein 1
Names
family with sequence similarity 191, member A
protein C16orf88
testis-specific gene 118 protein

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_001012991.3 → NP_001013009.2  lysine-rich nucleolar protein 1 isoform b

    See identical proteins and their annotated locations for NP_001013009.2

    Status: REVIEWED

    Description
    Transcript Variant: This variant (2) differs in the 5' UTR and coding sequence compared to variant 1. The resulting isoform (b) is shorter at the N-terminus compared to isoform a. Variants 2-6 all encode the same isoform (b).
    Source sequence(s)
    AC002550, BC117562
    Consensus CDS
    CCDS42127.1
    UniProtKB/Swiss-Prot
    O43328, Q1ED39, Q5FWF3
    Related
    ENSP00000219837.7, ENST00000219837.12
    Conserved Domains (1) summary
    pfam15477
    Location:362 → 435
    SMAP; Small acidic protein family

  2. NM_001348527.2 → NP_001335456.1  lysine-rich nucleolar protein 1 isoform a

    Status: REVIEWED

    Description
    Transcript Variant: This variant (1) encodes the longest isoform (a).
    Source sequence(s)
    AC002550
    Conserved Domains (1) summary
    pfam15477
    Location:422 → 495
    SMAP; Small acidic protein family

  3. NM_001348528.2 → NP_001335457.1  lysine-rich nucleolar protein 1 isoform b

    Status: REVIEWED

    Description
    Transcript Variant: This variant (3) differs in the 5' UTR and coding sequence compared to variant 1. The resulting isoform (b) is shorter at the N-terminus compared to isoform a. Variants 2-6 all encode the same isoform (b).
    Source sequence(s)
    AC002550
    Consensus CDS
    CCDS42127.1
    UniProtKB/Swiss-Prot
    O43328, Q1ED39, Q5FWF3
    Conserved Domains (1) summary
    pfam15477
    Location:362 → 435
    SMAP; Small acidic protein family

  4. NM_001348529.2 → NP_001335458.1  lysine-rich nucleolar protein 1 isoform b

    Status: REVIEWED

    Description
    Transcript Variant: This variant (4) differs in the 5' UTR and coding sequence compared to variant 1. The resulting isoform (b) is shorter at the N-terminus compared to isoform a. Variants 2-6 all encode the same isoform (b).
    Source sequence(s)
    AC002550
    Consensus CDS
    CCDS42127.1
    UniProtKB/Swiss-Prot
    O43328, Q1ED39, Q5FWF3
    Conserved Domains (1) summary
    pfam15477
    Location:362 → 435
    SMAP; Small acidic protein family

  5. NM_001348530.2 → NP_001335459.1  lysine-rich nucleolar protein 1 isoform b

    Status: REVIEWED

    Description
    Transcript Variant: This variant (5) differs in the 5' UTR and coding sequence compared to variant 1. The resulting isoform (b) is shorter at the N-terminus compared to isoform a. Variants 2-6 all encode the same isoform (b).
    Source sequence(s)
    AC002550
    Consensus CDS
    CCDS42127.1
    UniProtKB/Swiss-Prot
    O43328, Q1ED39, Q5FWF3
    Conserved Domains (1) summary
    pfam15477
    Location:362 → 435
    SMAP; Small acidic protein family

  6. NM_001348531.2 → NP_001335460.1  lysine-rich nucleolar protein 1 isoform b

    Status: REVIEWED

    Description
    Transcript Variant: This variant (6) differs in the 5' UTR and coding sequence compared to variant 1. The resulting isoform (b) is shorter at the N-terminus compared to isoform a. Variants 2-6 all encode the same isoform (b).
    Source sequence(s)
    AC002550
    Consensus CDS
    CCDS42127.1
    UniProtKB/Swiss-Prot
    O43328, Q1ED39, Q5FWF3
    Conserved Domains (1) summary
    pfam15477
    Location:362 → 435
    SMAP; Small acidic protein family

  7. NM_001348532.2 → NP_001335461.1  lysine-rich nucleolar protein 1 isoform c

    Status: REVIEWED

    Description
    Transcript Variant: This variant (7) differs in the 5' UTR and coding sequence and lacks an alternate in-frame exon compared to variant 1. The resulting isoform (c) is shorter at the N-terminus and lacks an alternate internal segment compared to isoform a. Variants 7-12 all encode the same isoform (c).
    Source sequence(s)
    AC002550
    Conserved Domains (1) summary
    pfam15477
    Location:339 → 412
    SMAP; Small acidic protein family

  8. NM_001348533.2 → NP_001335462.1  lysine-rich nucleolar protein 1 isoform c

    Status: REVIEWED

    Description
    Transcript Variant: This variant (8) differs in the 5' UTR and coding sequence and lacks an alternate in-frame exon compared to variant 1. The resulting isoform (c) is shorter at the N-terminus and lacks an alternate internal segment compared to isoform a. Variants 7-12 all encode the same isoform (c).
    Source sequence(s)
    AC002550
    Conserved Domains (1) summary
    pfam15477
    Location:339 → 412
    SMAP; Small acidic protein family

  9. NM_001348534.2 → NP_001335463.1  lysine-rich nucleolar protein 1 isoform c

    Status: REVIEWED

    Description
    Transcript Variant: This variant (9) differs in the 5' UTR and coding sequence and lacks an alternate in-frame exon compared to variant 1. The resulting isoform (c) is shorter at the N-terminus and lacks an alternate internal segment compared to isoform a. Variants 7-12 all encode the same isoform (c).
    Source sequence(s)
    AC002550
    Conserved Domains (1) summary
    pfam15477
    Location:339 → 412
    SMAP; Small acidic protein family

  10. NM_001348535.2 → NP_001335464.1  lysine-rich nucleolar protein 1 isoform c

    Status: REVIEWED

    Description
    Transcript Variant: This variant (10) differs in the 5' UTR and coding sequence and lacks an alternate in-frame exon compared to variant 1. The resulting isoform (c) is shorter at the N-terminus and lacks an alternate internal segment compared to isoform a. Variants 7-12 all encode the same isoform (c).
    Source sequence(s)
    AC002550
    Conserved Domains (1) summary
    pfam15477
    Location:339 → 412
    SMAP; Small acidic protein family

  11. NM_001348536.2 → NP_001335465.1  lysine-rich nucleolar protein 1 isoform c

    Status: REVIEWED

    Description
    Transcript Variant: This variant (11) differs in the 5' UTR and coding sequence and lacks an alternate in-frame exon compared to variant 1. The resulting isoform (c) is shorter at the N-terminus and lacks an alternate internal segment compared to isoform a. Variants 7-12 all encode the same isoform (c).
    Source sequence(s)
    AC002550
    Conserved Domains (1) summary
    pfam15477
    Location:339 → 412
    SMAP; Small acidic protein family

  12. NM_001348537.2 → NP_001335466.1  lysine-rich nucleolar protein 1 isoform c

    Status: REVIEWED

    Description
    Transcript Variant: This variant (12) differs in the 5' UTR and coding sequence and lacks an alternate in-frame exon compared to variant 1. The resulting isoform (c) is shorter at the N-terminus and lacks an alternate internal segment compared to isoform a. Variants 7-12 all encode the same isoform (c).
    Source sequence(s)
    AC002550
    Conserved Domains (1) summary
    pfam15477
    Location:339 → 412
    SMAP; Small acidic protein family

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_000016.10 Reference GRCh38.p14 Primary Assembly

    Range
    19701937..19718227 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060940.1 Alternate T2T-CHM13v2.0

    Range
    19632739..19649030 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q1ED39.1 GenPept UniProtKB/Swiss-Prot:Q1ED39

Gene LinkOut

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