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LINS1 lines homolog 1 [ Homo sapiens (human) ]

Gene ID: 55180, updated on 27-Nov-2024

Summary

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Official Symbol
LINS1provided by HGNC
Official Full Name
lines homolog 1provided by HGNC
Primary source
HGNC:HGNC:30922
See related
Ensembl:ENSG00000140471 MIM:610350; AllianceGenome:HGNC:30922
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
LINS; MRT27; WINS1
Summary
The Drosophila segment polarity gene lin encodes a protein, lines, which plays important roles in development of the epidermis and hindgut. This gene encodes a protein containing a lines-like domain. This gene is located on chromosome 15 and clustered with the gene encoding ankyrin repeat and SOCS box-containing protein 7. Alternative splicing results in multiple transcript variants. [provided by RefSeq, Jun 2017]
Expression
Ubiquitous expression in lymph node (RPKM 3.7), spleen (RPKM 2.8) and 25 other tissues See more
Orthologs
mouse all
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Genomic context

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See LINS1 in Genome Data Viewer
Location:
15q26.3
Exon count:
11
Annotation release Status Assembly Chr Location
RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 15 NC_000015.10 (100566924..100602184, complement)
RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 15 NC_060939.1 (98321577..98357861, complement)
RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 15 NC_000015.9 (101107129..101142389, complement)

Chromosome 15 - NC_000015.10Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC102723335 Neighboring gene PRKX pseudogene 1 Neighboring gene RNA, U6 small nuclear 181, pseudogene Neighboring gene MPRA-validated peak2454 silencer Neighboring gene ATAC-STARR-seq lymphoblastoid active region 10170 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 6877 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 6878 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr15:101172275-101172774 Neighboring gene ankyrin repeat and SOCS box containing 7 Neighboring gene H3K27ac hESC enhancer GRCh37_chr15:101175533-101176034 Neighboring gene WD repeat domain 12 pseudogene Neighboring gene H3K4me1 hESC enhancer GRCh37_chr15:101209681-101210180 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 10171 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 10172 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 10173 Neighboring gene P300/CBP strongly-dependent group 1 enhancer GRCh37_chr15:101253262-101254461 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr15:101254609-101255442 Neighboring gene uncharacterized LOC105371024 Neighboring gene BRD4-independent group 4 enhancer GRCh37_chr15:101262004-101263203 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr15:101305027-101305654 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr15:101305655-101306282 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr15:101308892-101309392 Neighboring gene OCT4-NANOG-H3K4me1 hESC enhancer GRCh37_chr15:101322275-101322904 Neighboring gene protein enabled homolog

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. Identification of a novel nonsense homozygous mutation of LINS1 gene in two sisters with intellectual disability, schizophrenia, and anxiety. Chen CH, et al. Biomed J, 2021 Dec. PMID 34450347, Free PMC Article
  2. [Identification of LINS1 gene variant in a patient with severe mental retardation]. Zhang X, et al. Zhonghua Yi Xue Yi Chuan Xue Za Zhi, 2020 Jan 10. PMID 31922598
  3. Novel LINS1 missense mutation in a family with non-syndromic intellectual disability. Sheth J, et al. Am J Med Genet A, 2017 Apr. PMID 28181389
  4. Molecular cloning and characterization of human WINS1 and mouse Wins2, homologous to Drosophila segment polarity gene Lines (Lin). Katoh M. Int J Mol Med, 2002 Aug. PMID 12119551
  5. LINS, a modulator of the WNT signaling pathway, is involved in human cognition. Akawi NA, et al. Orphanet J Rare Dis, 2013 Jun 17. PMID 23773660, Free PMC Article

See all (19) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. Identification of a novel nonsense homozygous mutation of LINS1 gene in two sisters with intellectual disability, schizophrenia, and anxiety.
    Title: Identification of a novel nonsense homozygous mutation of LINS1 gene in two sisters with intellectual disability, schizophrenia, and anxiety.
  2. A novel pathogenic variant of the LINS1 gene has been identified in a child with idiopathic mental retardation
    Title: [Identification of LINS1 gene variant in a patient with severe mental retardation].
  3. Study confirms that LINS, a modulator of the WNT pathway, is an indispensable gene to human cognition and this finding sheds further light on the importance of WNT signaling in human brain development and/or function.
    Title: LINS, a modulator of the WNT signaling pathway, is involved in human cognition.
  4. Clinical trial of gene-disease association and gene-environment interaction. (HuGE Navigator)
    Title: Personalized smoking cessation: interactions between nicotine dose, dependence and quit-success genotype score.
  5. Human WINS1 encoded 757 AA protein. Human WINS1 mRNA was expressed in adult testis, prostate, spleen, thymus, skeletal muscle, fetal kidney & brain. This is the first report on molecular cloning & initial characterization of human WINS1.
    Title: Molecular cloning and characterization of human WINS1 and mouse Wins2, homologous to Drosophila segment polarity gene Lines (Lin).
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

Associated conditions

Description Tests
Intellectual disability, autosomal recessive 27
MedGen: C3280538 OMIM: 614340 GeneReviews: Not available
not available

Variation

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See variants in ClinVar

See studies and variants in dbVar

See Variation Viewer (GRCh37.p13)

See Variation Viewer (GRCh38)

HIV-1 interactions

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Protein interactions

Protein Gene Interaction Pubs
Tat tat HIV-1 Tat upregulates the expression of lines homolog (LINS) in human primary 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

Clone Names

  • FLJ10583

Gene Ontology Provided by GOA

Process Evidence Code Pubs
involved_in cognition IMP
Inferred from Mutant Phenotype
more info
 PubMed 

General protein information

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Preferred Names
protein Lines homolog 1
Names
WINS1 protein with Drosophila Lines (Lin) homologous domain
wnt-signaling molecule Lines homolog 1

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.

Genomic

  1. NG_034076.2 RefSeqGene

    Range
    5849..41109
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. NM_001040616.3 → NP_001035706.2  protein Lines homolog 1 isoform 1

    Status: REVIEWED

    Source sequence(s)
    AC027020, AC090695
    Consensus CDS
    CCDS10385.1
    UniProtKB/Swiss-Prot
    Q8NG48, Q96FW2, Q9NVQ3
    Related
    ENSP00000318423.8, ENST00000314742.13
    Conserved Domains (2) summary
    pfam14694
    Location:194 → 542
    LINES_N; Lines N-terminus
    pfam14695
    Location:712 → 747
    LINES_C; Lines C-terminus

  2. NM_001352507.2 → NP_001339436.1  protein Lines homolog 1 isoform 2

    Status: REVIEWED

    Source sequence(s)
    AC027020, AC090695
    Conserved Domains (2) summary
    pfam14694
    Location:1 → 293
    LINES_N; Lines N-terminus
    pfam14695
    Location:463 → 498
    LINES_C; Lines C-terminus

  3. NM_001352508.2 → NP_001339437.1  protein Lines homolog 1 isoform 3

    Status: REVIEWED

    Source sequence(s)
    AC027020, AC090695
    Conserved Domains (2) summary
    pfam14694
    Location:179 → 491
    LINES_N; Lines N-terminus
    pfam14695
    Location:661 → 696
    LINES_C; Lines C-terminus

RNA

  1. NR_148017.2 RNA Sequence

    Status: REVIEWED

    Source sequence(s)
    AC027020, AC090695

  2. NR_148018.2 RNA Sequence

    Status: REVIEWED

    Source sequence(s)
    AC027020, AC090695

  3. NR_148019.2 RNA Sequence

    Status: REVIEWED

    Source sequence(s)
    AC027020, AC090695

RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2024_08

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

Reference GRCh38.p14 Primary Assembly

Genomic

  1. NC_000015.10 Reference GRCh38.p14 Primary Assembly

    Range
    100566924..100602184 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_005254943.3 → XP_005255000.1  protein Lines homolog 1 isoform X2

    Conserved Domains (2) summary
    pfam14694
    Location:194 → 506
    LINES_N; Lines N-terminus
    pfam14695
    Location:676 → 711
    LINES_C; Lines C-terminus

  2. XM_047432784.1 → XP_047288740.1  protein Lines homolog 1 isoform X2

  3. XM_005254941.3 → XP_005254998.1  protein Lines homolog 1 isoform X1

    See identical proteins and their annotated locations for XP_005254998.1

    UniProtKB/Swiss-Prot
    Q8NG48, Q96FW2, Q9NVQ3
    Conserved Domains (2) summary
    pfam14694
    Location:194 → 542
    LINES_N; Lines N-terminus
    pfam14695
    Location:712 → 747
    LINES_C; Lines C-terminus

  4. XM_047432785.1 → XP_047288741.1  protein Lines homolog 1 isoform X2

  5. XM_024449980.2 → XP_024305748.1  protein Lines homolog 1 isoform X1

    UniProtKB/Swiss-Prot
    Q8NG48, Q96FW2, Q9NVQ3
    Conserved Domains (2) summary
    pfam14694
    Location:194 → 542
    LINES_N; Lines N-terminus
    pfam14695
    Location:712 → 747
    LINES_C; Lines C-terminus

  6. XM_017022399.3 → XP_016877888.1  protein Lines homolog 1 isoform X4

    Conserved Domains (2) summary
    pfam14694
    Location:1 → 293
    LINES_N; Lines N-terminus
    pfam14695
    Location:463 → 498
    LINES_C; Lines C-terminus

  7. XM_047432786.1 → XP_047288742.1  protein Lines homolog 1 isoform X3

    Related
    ENST00000559149.5

  8. XM_047432787.1 → XP_047288743.1  protein Lines homolog 1 isoform X3

RNA

  1. XR_007064471.1 RNA Sequence

  2. XR_007064472.1 RNA Sequence

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060939.1 Alternate T2T-CHM13v2.0

    Range
    98321577..98357861 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_054378364.1 → XP_054234339.1  protein Lines homolog 1 isoform X2

  2. XM_054378361.1 → XP_054234336.1  protein Lines homolog 1 isoform X1

  3. XM_054378362.1 → XP_054234337.1  protein Lines homolog 1 isoform X2

  4. XM_054378359.1 → XP_054234334.1  protein Lines homolog 1 isoform X1

  5. XM_054378363.1 → XP_054234338.1  protein Lines homolog 1 isoform X2

  6. XM_054378360.1 → XP_054234335.1  protein Lines homolog 1 isoform X1

  7. XM_054378367.1 → XP_054234342.1  protein Lines homolog 1 isoform X4

  8. XM_054378365.1 → XP_054234340.1  protein Lines homolog 1 isoform X3

  9. XM_054378366.1 → XP_054234341.1  protein Lines homolog 1 isoform X3

RNA

  1. XR_008488984.1 RNA Sequence

  2. XR_008488985.1 RNA Sequence

Suppressed Reference Sequence(s)

The following Reference Sequences have been suppressed. Explain

  1. NM_001040614.1: Suppressed sequence

    Description
    NM_001040614.1: This RefSeq was permanently suppressed because currently there is insufficient support for the transcript.

  2. NM_001040615.1: Suppressed sequence

    Description
    NM_001040615.1: This RefSeq was permanently suppressed because currently there is insufficient support for the transcript.

  3. NM_018148.4: Suppressed sequence

    Description
    NM_018148.4: This RefSeq was permanently suppressed because currently there is insufficient support for the transcript.

  4. NM_181739.1: Suppressed sequence

    Description
    NM_181739.1: This RefSeq was permanently suppressed because currently there is insufficient support for the transcript and the protein.

  5. NM_181740.1: Suppressed sequence

    Description
    NM_181740.1: This RefSeq was permanently suppressed because it is a nonsense-mediated mRNA decay (NMD) candidate.
Nucleotide Protein
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q8NG48.2 GenPept UniProtKB/Swiss-Prot:Q8NG48

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