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ATRNL1 attractin like 1 [ Homo sapiens (human) ]

Gene ID: 26033, updated on 3-Apr-2024

Summary

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Official Symbol
ATRNL1provided by HGNC
Official Full Name
attractin like 1provided by HGNC
Primary source
HGNC:HGNC:29063
See related
Ensembl:ENSG00000107518 MIM:612869; AllianceGenome:HGNC:29063
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
ALP; bA338L11.1; bA454H24.1
Summary
Predicted to enable carbohydrate binding activity. Predicted to be involved in several processes, including animal organ morphogenesis; cell migration; and substrate adhesion-dependent cell spreading. Predicted to act upstream of or within G protein-coupled receptor signaling pathway. Predicted to be located in membrane. Predicted to be integral component of membrane. Predicted to be active in basement membrane. [provided by Alliance of Genome Resources, Apr 2022]
Expression
Biased expression in brain (RPKM 4.2), ovary (RPKM 1.8) and 5 other tissues See more
Orthologs
mouse all
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Genomic context

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See ATRNL1 in Genome Data Viewer
Location:
10q25.3
Exon count:
37
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 10 NC_000010.11 (115093365..115948999)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 10 NC_060934.1 (115987592..116843416)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 10 NC_000010.10 (116853124..117708510)

Chromosome 10 - NC_000010.11Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC107984272 Neighboring gene uncharacterized LOC124902509 Neighboring gene uncharacterized LOC105378496 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 2850 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 2851 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 2852 Neighboring gene ReSE screen-validated silencer GRCh37_chr10:117011521-117011641 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 2853 Neighboring gene BRD4-independent group 4 enhancer GRCh37_chr10:117295260-117296459 Neighboring gene NANOG-H3K4me1 hESC enhancer GRCh37_chr10:117346410-117346910 Neighboring gene NANOG hESC enhancer GRCh37_chr10:117560834-117561335 Neighboring gene N-terminal asparagine amidase pseudogene 1 Neighboring gene uncharacterized LOC105378497 Neighboring gene OCT4-NANOG-H3K4me1 hESC enhancer GRCh37_chr10:117734419-117735117 Neighboring gene OCT4-NANOG-H3K4me1 hESC enhancer GRCh37_chr10:117735118-117735816 Neighboring gene OCT4-NANOG hESC enhancer GRCh37_chr10:117755064-117755832 Neighboring gene Sharpr-MPRA regulatory region 9774 Neighboring gene GDNF family receptor alpha 1 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr10:118032883-118033720 Neighboring gene uncharacterized LOC107984273 Neighboring gene small nucleolar RNA, C/D box 158

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. Genetic and phenotypic studies of the dark-like mutant mouse. Cota CD, et al. Genesis, 2008 Oct. PMID 18821597
  2. Characterization of a novel binding partner of the melanocortin-4 receptor: attractin-like protein. Haqq AM, et al. Biochem J, 2003 Dec 15. PMID 14531729, Free PMC Article
  3. Whole genome association scan for genetic polymorphisms influencing information processing speed. Luciano M, et al. Biol Psychol, 2011 Mar. PMID 21130836, Free PMC Article
  4. Prediction of the coding sequences of unidentified human genes. IX. The complete sequences of 100 new cDNA clones from brain which can code for large proteins in vitro. Nagase T, et al. DNA Res, 1998 Feb 28. PMID 9628581
  5. A scan of chromosome 10 identifies a novel locus showing strong association with late-onset Alzheimer disease. Grupe A, et al. Am J Hum Genet, 2006 Jan. PMID 16385451, Free PMC Article

See all (10) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. Transcriptional factor CCAAT enhancer binding protein beta inhibits epithelial-mesenchymal transition in cervical cancer via regulating attractin-like 1.
    Title: Transcriptional factor CCAAT enhancer binding protein beta inhibits epithelial-mesenchymal transition in cervical cancer via regulating attractin-like 1.
  2. 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.
  3. Observational study of gene-disease association. (HuGE Navigator)
    Title: A scan of chromosome 10 identifies a novel locus showing strong association with late-onset Alzheimer disease.
  4. Transgenic overexpression of Attractin-like-1 (Atrnl1), which compensates for loss of ATRN, does not rescue dark-like mutant phenotypes.
    Title: Genetic and phenotypic studies of the dark-like mutant mouse.
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
Whole genome association scan for genetic polymorphisms influencing information processing speed.
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

  • FLJ45344, KIAA0534

Gene Ontology Provided by GOA

Function Evidence Code Pubs
enables Notch binding IBA
Inferred from Biological aspect of Ancestor
more info
  
enables carbohydrate binding IEA
Inferred from Electronic Annotation
more info
  
Process Evidence Code Pubs
involved_in G protein-coupled receptor signaling pathway IEA
Inferred from Electronic Annotation
more info
  
Component Evidence Code Pubs
located_in membrane IEA
Inferred from Electronic Annotation
more info
  

General protein information

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Preferred Names
attractin-like protein 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.

mRNA and Protein(s)

  1. NM_001276282.4 → NP_001263211.1  attractin-like protein 1 isoform 2 precursor

    See identical proteins and their annotated locations for NP_001263211.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) has its transcription extend past a splice site that is used in variant 1 and which results in a novel 3' coding region and 3' UTR, compared to variant 1. It encodes isoform 2 which is shorter and has a distinct C-terminus, compared to isoform 1.
    Source sequence(s)
    BC029592, BC139916
    Consensus CDS
    CCDS73204.1
    UniProtKB/Swiss-Prot
    Q5VV63
    UniProtKB/TrEMBL
    Q4G0Y2
    Related
    ENSP00000476902.2, ENST00000609571.5
    Conserved Domains (4) summary
    cd00041
    Location:93 → 208
    CUB; CUB domain; extracellular domain; present in proteins mostly known to be involved in development; not found in prokaryotes, plants and yeast.
    sd00038
    Location:305 → 352
    Kelch; KELCH repeat [structural motif]
    pfam13854
    Location:352 → 392
    Kelch_5; Kelch motif
    cl19567
    Location:235 → 280
    DSL; Delta serrate ligand

  2. NM_207303.4 → NP_997186.1  attractin-like protein 1 isoform 1 precursor

    See identical proteins and their annotated locations for NP_997186.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) represents the longer transcript and encodes the longer isoform (1).
    Source sequence(s)
    AC022542, AY442317, BC035157
    Consensus CDS
    CCDS7592.1
    UniProtKB/Swiss-Prot
    O60283, Q5JSE8, Q5T5Y9, Q5VV63, Q6T256, Q6ZSN4, Q86WX2
    UniProtKB/TrEMBL
    A0A3B3ISV6
    Related
    ENSP00000347152.3, ENST00000355044.8
    Conserved Domains (8) summary
    cd03597
    Location:748 → 874
    CLECT_attractin_like; C-type lectin-like domain (CTLD) of the type found in human and mouse attractin (AtrN) and attractin-like protein (ALP)
    cd00041
    Location:93 → 208
    CUB; CUB domain; extracellular domain; present in proteins mostly known to be involved in development; not found in prokaryotes, plants and yeast.
    cd00055
    Location:1013 → 1058
    EGF_Lam; Laminin-type epidermal growth factor-like domain; laminins are the major noncollagenous components of basement membranes that mediate cell adhesion, growth migration, and differentiation; the laminin-type epidermal growth factor-like module occurs in ...
    sd00038
    Location:521 → 574
    Kelch; KELCH repeat [structural motif]
    pfam01437
    Location:889 → 938
    PSI; Plexin repeat
    pfam13418
    Location:468 → 514
    Kelch_4; Galactose oxidase, central domain
    pfam13854
    Location:352 → 392
    Kelch_5; Kelch motif
    cl19567
    Location:235 → 280
    DSL; Delta serrate ligand

RNA

  1. NR_074088.3 RNA Sequence

    Status: VALIDATED

    Description
    Transcript Variant: This variant (3) has multiple differences, compared to variant 1, at its 5' and 3' ends including having its transcription extend past a splice site that is used in variant 1. This variant is represented as non-coding because the predicted protein does not meet RefSeq quality criteria.
    Source sequence(s)
    BC029592
    Related
    ENST00000616894.1

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_000010.11 Reference GRCh38.p14 Primary Assembly

    Range
    115093365..115948999
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_011539587.2 → XP_011537889.1  attractin-like protein 1 isoform X2

    UniProtKB/TrEMBL
    A0A3B3ISV6
    Conserved Domains (7) summary
    cd03597
    Location:748 → 874
    CLECT_attractin_like; C-type lectin-like domain (CTLD) of the type found in human and mouse attractin (AtrN) and attractin-like protein (ALP)
    cd00041
    Location:93 → 208
    CUB; CUB domain; extracellular domain; present in proteins mostly known to be involved in development; not found in prokaryotes, plants and yeast.
    sd00038
    Location:521 → 574
    Kelch; KELCH repeat [structural motif]
    pfam01437
    Location:889 → 938
    PSI; Plexin repeat
    pfam13418
    Location:468 → 514
    Kelch_4; Galactose oxidase, central domain
    pfam13854
    Location:352 → 392
    Kelch_5; Kelch motif
    cl19567
    Location:235 → 280
    DSL; Delta serrate ligand

  2. XM_011539588.3 → XP_011537890.1  attractin-like protein 1 isoform X3

    UniProtKB/TrEMBL
    A0A3B3ISV6
    Conserved Domains (8) summary
    cd03597
    Location:681 → 807
    CLECT_attractin_like; C-type lectin-like domain (CTLD) of the type found in human and mouse attractin (AtrN) and attractin-like protein (ALP)
    cd00041
    Location:29 → 141
    CUB; CUB domain; extracellular domain; present in proteins mostly known to be involved in development; not found in prokaryotes, plants and yeast.
    cd00055
    Location:946 → 991
    EGF_Lam; Laminin-type epidermal growth factor-like domain; laminins are the major noncollagenous components of basement membranes that mediate cell adhesion, growth migration, and differentiation; the laminin-type epidermal growth factor-like module occurs in ...
    sd00038
    Location:454 → 507
    Kelch; KELCH repeat [structural motif]
    pfam01437
    Location:822 → 871
    PSI; Plexin repeat
    pfam13418
    Location:401 → 447
    Kelch_4; Galactose oxidase, central domain
    pfam13854
    Location:285 → 325
    Kelch_5; Kelch motif
    cl19567
    Location:168 → 213
    DSL; Delta serrate ligand

  3. XM_017016035.3 → XP_016871524.1  attractin-like protein 1 isoform X1

    UniProtKB/TrEMBL
    A0A3B3ISV6

  4. XM_011539589.3 → XP_011537891.1  attractin-like protein 1 isoform X4

    UniProtKB/TrEMBL
    A0A3B3ISV6
    Conserved Domains (8) summary
    cd03597
    Location:748 → 874
    CLECT_attractin_like; C-type lectin-like domain (CTLD) of the type found in human and mouse attractin (AtrN) and attractin-like protein (ALP)
    cd00041
    Location:93 → 208
    CUB; CUB domain; extracellular domain; present in proteins mostly known to be involved in development; not found in prokaryotes, plants and yeast.
    cd00055
    Location:1013 → 1058
    EGF_Lam; Laminin-type epidermal growth factor-like domain; laminins are the major noncollagenous components of basement membranes that mediate cell adhesion, growth migration, and differentiation; the laminin-type epidermal growth factor-like module occurs in ...
    sd00038
    Location:521 → 574
    Kelch; KELCH repeat [structural motif]
    pfam01437
    Location:889 → 938
    PSI; Plexin repeat
    pfam13418
    Location:468 → 514
    Kelch_4; Galactose oxidase, central domain
    pfam13854
    Location:352 → 392
    Kelch_5; Kelch motif
    cl19567
    Location:235 → 280
    DSL; Delta serrate ligand

  5. XM_047424988.1 → XP_047280944.1  attractin-like protein 1 isoform X7

  6. XM_017016036.2 → XP_016871525.1  attractin-like protein 1 isoform X6

    UniProtKB/TrEMBL
    A0A3B3ISV6

  7. XM_011539591.3 → XP_011537893.1  attractin-like protein 1 isoform X5

    See identical proteins and their annotated locations for XP_011537893.1

    UniProtKB/TrEMBL
    A0A3B3ISV6
    Conserved Domains (8) summary
    cd03597
    Location:602 → 728
    CLECT_attractin_like; C-type lectin-like domain (CTLD) of the type found in human and mouse attractin (AtrN) and attractin-like protein (ALP)
    cd00055
    Location:867 → 912
    EGF_Lam; Laminin-type epidermal growth factor-like domain; laminins are the major noncollagenous components of basement membranes that mediate cell adhesion, growth migration, and differentiation; the laminin-type epidermal growth factor-like module occurs in ...
    sd00038
    Location:375 → 428
    Kelch; KELCH repeat [structural motif]
    pfam01437
    Location:743 → 792
    PSI; Plexin repeat
    pfam13418
    Location:322 → 368
    Kelch_4; Galactose oxidase, central domain
    pfam13854
    Location:206 → 246
    Kelch_5; Kelch motif
    cl00049
    Location:3 → 62
    CUB; CUB domain; extracellular domain; present in proteins mostly known to be involved in development; not found in prokaryotes, plants and yeast.
    cl19567
    Location:89 → 134
    DSL; Delta serrate ligand

  8. XM_047424989.1 → XP_047280945.1  attractin-like protein 1 isoform X8

  9. XM_017016039.3 → XP_016871528.1  attractin-like protein 1 isoform X9

  10. XM_017016040.2 → XP_016871529.1  attractin-like protein 1 isoform X10

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060934.1 Alternate T2T-CHM13v2.0

    Range
    115987592..116843416
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_054365450.1 → XP_054221425.1  attractin-like protein 1 isoform X3

  2. XM_054365449.1 → XP_054221424.1  attractin-like protein 1 isoform X2

  3. XM_054365448.1 → XP_054221423.1  attractin-like protein 1 isoform X1

  4. XM_054365451.1 → XP_054221426.1  attractin-like protein 1 isoform X4

  5. XM_054365454.1 → XP_054221429.1  attractin-like protein 1 isoform X7

  6. XM_054365453.1 → XP_054221428.1  attractin-like protein 1 isoform X6

  7. XM_054365452.1 → XP_054221427.1  attractin-like protein 1 isoform X5

  8. XM_054365455.1 → XP_054221430.1  attractin-like protein 1 isoform X8

  9. XM_054365456.1 → XP_054221431.1  attractin-like protein 1 isoform X9

  10. XM_054365457.1 → XP_054221432.1  attractin-like protein 1 isoform X10

Nucleotide Protein
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q5VV63.2 GenPept UniProtKB/Swiss-Prot:Q5VV63

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