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SLAIN2 SLAIN motif family member 2 [ Homo sapiens (human) ]

Gene ID: 57606, updated on 3-Apr-2024

Summary

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Official Symbol
SLAIN2provided by HGNC
Official Full Name
SLAIN motif family member 2provided by HGNC
Primary source
HGNC:HGNC:29282
See related
Ensembl:ENSG00000109171 MIM:610492; AllianceGenome:HGNC:29282
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
KIAA1458
Summary
Involved in cytoplasmic microtubule organization; microtubule nucleation; and positive regulation of microtubule polymerization. Located in centrosome and cytosol. Colocalizes with microtubule plus-end. [provided by Alliance of Genome Resources, Apr 2022]
Expression
Ubiquitous expression in testis (RPKM 22.9), esophagus (RPKM 14.0) and 25 other tissues See more
Orthologs
mouse all
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Genomic context

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Location:
4p11
Exon count:
10
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 4 NC_000004.12 (48341529..48426201)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 4 NC_060928.1 (48308531..48393241)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 4 NC_000004.11 (48343546..48428218)

Chromosome 4 - NC_000004.12Genomic Context describing neighboring genes Neighboring gene NANOG hESC enhancer GRCh37_chr4:48177274-48177775 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr4:48187797-48188522 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 21538 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 21539 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 21540 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 21541 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 21542 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 21543 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 21544 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 21545 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 21546 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 21547 Neighboring gene tec protein tyrosine kinase Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 15404 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 15405 Neighboring gene uncharacterized LOC105374445 Neighboring gene H3K27ac hESC enhancer GRCh37_chr4:48293363-48294358 Neighboring gene P300/CBP strongly-dependent group 1 enhancer GRCh37_chr4:48297678-48298877 Neighboring gene Sharpr-MPRA regulatory region 3457 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 21548 Neighboring gene H3K27ac hESC enhancer GRCh37_chr4:48343493-48344406 Neighboring gene U6 snRNA-associated Sm-like protein LSm2 Neighboring gene CRISPRi-validated cis-regulatory element chr4.1483 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 15408 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 15409 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr4:48491403-48491940 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 15410 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 15411 Neighboring gene solute carrier family 10 member 4 Neighboring gene zygote arrest 1 Neighboring gene FRY like transcription coactivator

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. Mesenchymal Cell Invasion Requires Cooperative Regulation of Persistent Microtubule Growth by SLAIN2 and CLASP1. Bouchet BP, et al. Dev Cell, 2016 Dec 19. PMID 27939686, Free PMC Article
  2. Transcriptional profiling of mouse and human ES cells identifies SLAIN1, a novel stem cell gene. Hirst CE, et al. Dev Biol, 2006 May 1. PMID 16546155
  3. SLAIN2 links microtubule plus end-tracking proteins and controls microtubule growth in interphase. van der Vaart B, et al. J Cell Biol, 2011 Jun 13. PMID 21646404, Free PMC Article
  4. Protein tyrosine phosphatase receptor delta acts as a neuroblastoma tumor suppressor by destabilizing the aurora kinase A oncogene. Meehan M, et al. Mol Cancer, 2012 Feb 5. PMID 22305495, Free PMC Article
  5. [IMAGE: molecular integration of the analysis of the human genome and its expression]. Auffray C, et al. C R Acad Sci III, 1995 Feb. PMID 7757816

See all (66) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. catastrophe inhibition by SLAIN2 and CLASP1 supports mesenchymal cell shape in soft 3D matrices by enabling microtubules to perform a load-bearing function.
    Title: Mesenchymal Cell Invasion Requires Cooperative Regulation of Persistent Microtubule Growth by SLAIN2 and CLASP1.
  2. Results identify SLAIN2 as a key component of microtubule plus end interaction networks.
    Title: SLAIN2 links microtubule plus end-tracking proteins and controls microtubule growth in interphase.
  3. Observational study of gene-disease association, gene-environment interaction, and pharmacogenomic / toxicogenomic. (HuGE Navigator)
    Title: Polymorphisms in innate immunity genes and patients response to dendritic cell-based HIV immuno-treatment.
Submit: New GeneRIF Correction

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

EBI GWAS Catalog

Description
Host-microbe interactions have shaped the genetic architecture of inflammatory bowel disease.
EBI GWAS Catalog

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

Interactions

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Products Interactant Other Gene Complex Source Pubs Description

General gene information

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Markers

Homology

Clone Names

  • FLJ21611

Gene Ontology Provided by GOA

Function Evidence Code Pubs
enables protein binding IPI
Inferred from Physical Interaction
more info
 PubMed 
Process Evidence Code Pubs
involved_in cytoplasmic microtubule organization IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in cytoplasmic microtubule organization IMP
Inferred from Mutant Phenotype
more info
 PubMed 
involved_in microtubule nucleation IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in microtubule nucleation IMP
Inferred from Mutant Phenotype
more info
 PubMed 
involved_in positive regulation of microtubule polymerization IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in positive regulation of microtubule polymerization IMP
Inferred from Mutant Phenotype
more info
 PubMed 
Component Evidence Code Pubs
located_in centrosome IDA
Inferred from Direct Assay
more info
 PubMed 
located_in cytosol IDA
Inferred from Direct Assay
more info
  
located_in microtubule cytoskeleton IDA
Inferred from Direct Assay
more info
 PubMed 
colocalizes_with microtubule plus-end IBA
Inferred from Biological aspect of Ancestor
more info
  
colocalizes_with microtubule plus-end IDA
Inferred from Direct Assay
more info
 PubMed 

General protein information

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Preferred Names
SLAIN motif-containing protein 2

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_020846.2 → NP_065897.1  SLAIN motif-containing protein 2

    See identical proteins and their annotated locations for NP_065897.1

    Status: VALIDATED

    Source sequence(s)
    AB040891, AC096952, AC098873, BC040993, CB157681, Z25182
    Consensus CDS
    CCDS47051.1
    UniProtKB/Swiss-Prot
    A8K4P1, Q8N5R3, Q9P270
    UniProtKB/TrEMBL
    A0A024R9T6, A0A158RFV0
    Related
    ENSP00000264313.5, ENST00000264313.11
    Conserved Domains (1) summary
    pfam15301
    Location:130 → 581
    SLAIN; SLAIN motif-containing 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_000004.12 Reference GRCh38.p14 Primary Assembly

    Range
    48341529..48426201
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_005248121.4 → XP_005248178.1  SLAIN motif-containing protein 2 isoform X1

    Conserved Domains (1) summary
    pfam15301
    Location:130 → 607
    SLAIN; SLAIN motif-containing family

  2. XM_047416023.1 → XP_047271979.1  SLAIN motif-containing protein 2 isoform X2

    Related
    ENSP00000425923.1, ENST00000512093.5

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060928.1 Alternate T2T-CHM13v2.0

    Range
    48308531..48393241
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_054350613.1 → XP_054206588.1  SLAIN motif-containing protein 2 isoform X1

Nucleotide Protein
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q9P270.2 GenPept UniProtKB/Swiss-Prot:Q9P270

Gene LinkOut

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

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