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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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    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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