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NIN ninein [ Homo sapiens (human) ]

Gene ID: 51199, updated on 7-Jun-2020

Summary

Official Symbol
NINprovided by HGNC
Official Full Name
nineinprovided by HGNC
Primary source
HGNC:HGNC:14906
See related
Ensembl:ENSG00000100503 MIM:608684
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
SCKL7
Summary
This gene encodes one of the proteins important for centrosomal function. This protein is important for positioning and anchoring the microtubules minus-ends in epithelial cells. Localization of this protein to the centrosome requires three leucine zippers in the central coiled-coil domain. Multiple alternatively spliced transcript variants that encode different isoforms have been reported. [provided by RefSeq, Jul 2008]
Expression
Ubiquitous expression in lymph node (RPKM 13.5), appendix (RPKM 9.8) and 24 other tissues See more
Orthologs

Genomic context

See NIN in Genome Data Viewer
Location:
14q22.1
Exon count:
35
Annotation release Status Assembly Chr Location
109.20200522 current GRCh38.p13 (GCF_000001405.39) 14 NC_000014.9 (50719763..50831162, complement)
105 previous assembly GRCh37.p13 (GCF_000001405.25) 14 NC_000014.8 (51186481..51297839, complement)

Chromosome 14 - NC_000014.9Genomic Context describing neighboring genes Neighboring gene RNA, 7SL, cytoplasmic 452, pseudogene Neighboring gene salvador family WW domain containing protein 1 Neighboring gene ZFP64 zinc finger protein pseudogene 1 Neighboring gene uncharacterized LOC105370489 Neighboring gene uncharacterized LOC105370491 Neighboring gene abhydrolase domain containing 12B

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

Bibliography

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Phenotypes

NHGRI GWAS Catalog

Description
Common genetic variation and performance on standardized cognitive tests.
NHGRI GWA Catalog
Genome-wide association study of periodontal health measured by probing depth in adults ages 18-49 years.
NHGRI GWA Catalog
Lupus nephritis susceptibility Loci in women with systemic lupus erythematosus.
NHGRI GWA Catalog

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Clone Names

  • KIAA1565

Gene Ontology Provided by GOA

Function Evidence Code Pubs
GTP binding IEA
Inferred from Electronic Annotation
more info
 
calcium ion binding IEA
Inferred from Electronic Annotation
more info
 
kinase binding IEA
Inferred from Electronic Annotation
more info
 
protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
Process Evidence Code Pubs
centriole-centriole cohesion IMP
Inferred from Mutant Phenotype
more info
PubMed 
centrosome localization IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
centrosome localization TAS
Traceable Author Statement
more info
PubMed 
centrosome-templated microtubule nucleation IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
collateral sprouting IEA
Inferred from Electronic Annotation
more info
 
corpus callosum morphogenesis IEA
Inferred from Electronic Annotation
more info
 
corticospinal tract morphogenesis IEA
Inferred from Electronic Annotation
more info
 
microtubule anchoring at centrosome IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
microtubule anchoring at centrosome IMP
Inferred from Mutant Phenotype
more info
PubMed 
positive regulation of axonogenesis IEA
Inferred from Electronic Annotation
more info
 
positive regulation of microtubule polymerization IEA
Inferred from Electronic Annotation
more info
 
protein localization IMP
Inferred from Mutant Phenotype
more info
PubMed 
Component Evidence Code Pubs
apical part of cell IEA
Inferred from Electronic Annotation
more info
 
axonal growth cone IEA
Inferred from Electronic Annotation
more info
 
centriolar subdistal appendage IDA
Inferred from Direct Assay
more info
PubMed 
centriole IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
centriole IDA
Inferred from Direct Assay
more info
PubMed 
centrosome IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
centrosome IDA
Inferred from Direct Assay
more info
PubMed 
ciliary transition fiber IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
cytoplasm IEA
Inferred from Electronic Annotation
more info
 
dendrite IEA
Inferred from Electronic Annotation
more info
 
microtubule minus-end IEA
Inferred from Electronic Annotation
more info
 
mitotic spindle IDA
Inferred from Direct Assay
more info
PubMed 
mitotic spindle pole IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
nucleolus IDA
Inferred from Direct Assay
more info
 
nucleoplasm IDA
Inferred from Direct Assay
more info
 
pericentriolar material IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
pericentriolar material IDA
Inferred from Direct Assay
more info
PubMed 
plasma membrane IEA
Inferred from Electronic Annotation
more info
 
spindle pole IMP
Inferred from Mutant Phenotype
more info
PubMed 

General protein information

Preferred Names
ninein
Names
glycogen synthase kinase 3 beta-interacting protein
hNinein
ninein (GSK3B interacting protein)
ninein centrosomal protein

NCBI Reference Sequences (RefSeq)

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.

Genomic

  1. NG_032968.1 RefSeqGene

    Range
    5001..116359
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. NM_016350.4NP_057434.4  ninein isoform 6

    See identical proteins and their annotated locations for NP_057434.4

    Status: REVIEWED

    Description
    Transcript Variant: This variant (6) lacks an alternate in-frame exon in the central coding region and uses a distinct 3' coding region and 3' UTR, compared to variant 2. The resulting isoform (6) lacks an internal segment and has a shorter and distinct C-terminus, compared to isoform 2.
    Source sequence(s)
    AF302773, BC090932
    Consensus CDS
    CCDS32078.2
    UniProtKB/Swiss-Prot
    Q8N4C6
    Related
    ENSP00000324210.10, ENST00000324330.13
    Conserved Domains (2) summary
    pfam05262
    Location:304515
    Borrelia_P83; Borrelia P83/100 protein
    cl25732
    Location:4251247
    SMC_N; RecF/RecN/SMC N terminal domain
  2. NM_020921.4NP_065972.4  ninein isoform 2

    Status: REVIEWED

    Description
    Transcript Variant: This variant (2) is the longest transcript and it encodes the longest isoform (2).
    Source sequence(s)
    AL133485, AL606834
    Related
    ENSP00000245441.5, ENST00000245441.9
  3. NM_182944.2NP_891989.2  ninein isoform 1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (1) contains a different 3' coding region and 3' UTR when compared to variant 2. The resulting isoform (1) has a distinct and shorter C-terminus, as compared to isoform 2.
    Source sequence(s)
    AF212162, AF223937, AF302773, AY736182, BC034708, BC090932, CR993064
    UniProtKB/Swiss-Prot
    Q8N4C6
    UniProtKB/TrEMBL
    Q5XUU0
    Related
    ENSP00000412391.1, ENST00000453196.5
    Conserved Domains (5) summary
    COG1196
    Location:9201648
    Smc; Chromosome segregation ATPase [Cell cycle control, cell division, chromosome partitioning]
    cd16269
    Location:791802
    GBP_C; coiled coil [structural motif]
    cl19219
    Location:475567
    DUF342; Protein of unknown function (DUF342)
    cl20817
    Location:704820
    GBP_C; Guanylate-binding protein, C-terminal domain
    cl23750
    Location:411504
    vATP-synt_E; ATP synthase (E/31 kDa) subunit
  4. NM_182946.1NP_891991.1  ninein isoform 5

    See identical proteins and their annotated locations for NP_891991.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (5) has multiple differences in the coding region and 3' UTR when compared to variant 2. The resulting isoform (5) has a distinct and shorter C-terminus as compared to isoform 2. Isoform 5 has also been referred to as hNinein-Lm.
    Source sequence(s)
    AB046785, AF212162, AF223937, AF223939, AF302773, AK026083, AW505195
    Consensus CDS
    CCDS32079.1
    UniProtKB/Swiss-Prot
    Q8N4C6
    Related
    ENSP00000371472.3, ENST00000382041.7
    Conserved Domains (5) summary
    COG1196
    Location:9201648
    Smc; Chromosome segregation ATPase [Cell cycle control, cell division, chromosome partitioning]
    cd16269
    Location:791802
    GBP_C; coiled coil [structural motif]
    cl19219
    Location:475567
    DUF342; Protein of unknown function (DUF342)
    cl20817
    Location:704820
    GBP_C; Guanylate-binding protein, C-terminal domain
    cl23750
    Location:411504
    vATP-synt_E; ATP synthase (E/31 kDa) subunit

RefSeqs of Annotated Genomes: Homo sapiens Updated Annotation Release 109.

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

Reference GRCh38.p13 Primary Assembly

Genomic

  1. NC_000014.9 Reference GRCh38.p13 Primary Assembly

    Range
    50719763..50831162 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_024449622.1XP_024305390.1  ninein isoform X1

    Conserved Domains (3) summary
    pfam04111
    Location:8591003
    APG6; Autophagy protein Apg6
    cl25732
    Location:437855
    SMC_N; RecF/RecN/SMC N terminal domain
    cl28159
    Location:335455
    Aminotran_5; Aminotransferase class-V
  2. XM_011536822.2XP_011535124.1  ninein isoform X3

    Conserved Domains (5) summary
    COG1196
    Location:4551277
    Smc; Chromosome segregation ATPase [Cell cycle control, cell division, chromosome partitioning]
    cd16269
    Location:821832
    GBP_C; coiled coil [structural motif]
    cl19219
    Location:505597
    DUF342; Protein of unknown function (DUF342)
    cl20817
    Location:734850
    GBP_C; Guanylate-binding protein, C-terminal domain
    cl23750
    Location:441534
    vATP-synt_E; ATP synthase (E/31 kDa) subunit
  3. XM_011536823.2XP_011535125.1  ninein isoform X4

    UniProtKB/Swiss-Prot
    Q8N4C6
    Conserved Domains (5) summary
    COG1196
    Location:9261654
    Smc; Chromosome segregation ATPase [Cell cycle control, cell division, chromosome partitioning]
    cd16269
    Location:797808
    GBP_C; coiled coil [structural motif]
    cl19219
    Location:481573
    DUF342; Protein of unknown function (DUF342)
    cl20817
    Location:710826
    GBP_C; Guanylate-binding protein, C-terminal domain
    cl23750
    Location:417510
    vATP-synt_E; ATP synthase (E/31 kDa) subunit
  4. XM_011536819.3XP_011535121.1  ninein isoform X2

    Conserved Domains (5) summary
    COG1196
    Location:9501678
    Smc; Chromosome segregation ATPase [Cell cycle control, cell division, chromosome partitioning]
    cd16269
    Location:821832
    GBP_C; coiled coil [structural motif]
    cl19219
    Location:505597
    DUF342; Protein of unknown function (DUF342)
    cl20817
    Location:734850
    GBP_C; Guanylate-binding protein, C-terminal domain
    cl23750
    Location:441534
    vATP-synt_E; ATP synthase (E/31 kDa) subunit

RNA

  1. XR_001750349.2 RNA Sequence

    Related
    ENST00000674030.1
  2. XR_001750346.2 RNA Sequence

    Related
    ENST00000476352.5
  3. XR_001750344.2 RNA Sequence

  4. XR_001750347.2 RNA Sequence

  5. XR_001750350.2 RNA Sequence

  6. XR_001750345.2 RNA Sequence

  7. XR_001750348.2 RNA Sequence

Suppressed Reference Sequence(s)

The following Reference Sequences have been suppressed. Explain

  1. NM_182945.1: Suppressed sequence

    Description
    NM_182945.1: This RefSeq was permanently suppressed because currently there is insufficient support for the transcript and the protein.
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