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NEGR1 neuronal growth regulator 1 [ Homo sapiens (human) ]

Gene ID: 257194, updated on 17-Jun-2024

Summary

Official Symbol
NEGR1provided by HGNC
Official Full Name
neuronal growth regulator 1provided by HGNC
Primary source
HGNC:HGNC:17302
See related
Ensembl:ENSG00000172260 MIM:613173; AllianceGenome:HGNC:17302
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
Ntra; KILON; IGLON4; DMML2433
Summary
Predicted to act upstream of or within several processes, including feeding behavior; locomotory behavior; and positive regulation of neuron projection development. Predicted to be located in extracellular region and plasma membrane. [provided by Alliance of Genome Resources, Apr 2022]
Expression
Broad expression in brain (RPKM 13.7), fat (RPKM 5.3) and 18 other tissues See more
Orthologs
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Genomic context

See NEGR1 in Genome Data Viewer
Location:
1p31.1
Exon count:
10
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 1 NC_000001.11 (71395943..72282539, complement)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 1 NC_060925.1 (71273677..72161473, complement)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 1 NC_000001.10 (71861626..72748222, complement)

Chromosome 1 - NC_000001.11Genomic Context describing neighboring genes Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 991 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 1198 Neighboring gene uncharacterized LOC105378795 Neighboring gene ZRANB2 divergent transcript Neighboring gene zinc finger RANBP2-type containing 2 Neighboring gene microRNA 186 Neighboring gene OCT4-NANOG hESC enhancer GRCh37_chr1:71927989-71928559 Neighboring gene OCT4-NANOG-H3K27ac hESC enhancer GRCh37_chr1:72203394-72203980 Neighboring gene NEGR1 intronic transcript 1 Neighboring gene NANOG hESC enhancer GRCh37_chr1:72328413-72328914 Neighboring gene MED14-independent group 3 enhancer GRCh37_chr1:72466099-72467298 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 992 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 993 Neighboring gene uncharacterized LOC105378797 Neighboring gene P300/CBP strongly-dependent group 1 enhancer GRCh37_chr1:72750040-72751239 Neighboring gene ribosomal protein L31 pseudogene 12 Neighboring gene GDP dissociation inhibitor 2 pseudogene 2 Neighboring gene uncharacterized LOC105378796

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

EBI GWAS Catalog

Description
Association analyses of 249,796 individuals reveal 18 new loci associated with body mass index.
EBI GWAS Catalog
Association of systemic lupus erythematosus with C8orf13-BLK and ITGAM-ITGAX.
EBI GWAS Catalog
Common genetic variants associated with cognitive performance identified using the proxy-phenotype method.
EBI GWAS Catalog
Genome-wide analysis of BMI in adolescents and young adults reveals additional insight into the effects of genetic loci over the life course.
EBI GWAS Catalog
Genome-wide association and linkage analyses of hemostatic factors and hematological phenotypes in the Framingham Heart Study.
EBI GWAS Catalog
Genome-wide association for abdominal subcutaneous and visceral adipose reveals a novel locus for visceral fat in women.
EBI GWAS Catalog
Genome-wide association yields new sequence variants at seven loci that associate with measures of obesity.
EBI GWAS Catalog
Genome-wide meta-analysis identifies 11 new loci for anthropometric traits and provides insights into genetic architecture.
EBI GWAS Catalog
Genome-wide SNP and CNV analysis identifies common and low-frequency variants associated with severe early-onset obesity.
EBI GWAS Catalog
Parent-of-origin-specific allelic associations among 106 genomic loci for age at menarche.
EBI GWAS Catalog
Six new loci associated with body mass index highlight a neuronal influence on body weight regulation.
EBI GWAS Catalog

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Clone Names

  • MGC46680

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 cell-cell adhesion IEA
Inferred from Electronic Annotation
more info
 
involved_in feeding behavior IEA
Inferred from Electronic Annotation
more info
 
involved_in locomotory behavior IEA
Inferred from Electronic Annotation
more info
 
involved_in neuron projection development IEA
Inferred from Electronic Annotation
more info
 
involved_in positive regulation of neuron projection development IEA
Inferred from Electronic Annotation
more info
 
involved_in regulation of synapse assembly IEA
Inferred from Electronic Annotation
more info
 
Component Evidence Code Pubs
located_in dendrite IEA
Inferred from Electronic Annotation
more info
 
located_in extracellular region TAS
Traceable Author Statement
more info
 
located_in neuronal cell body IEA
Inferred from Electronic Annotation
more info
 
located_in plasma membrane TAS
Traceable Author Statement
more info
 
located_in side of membrane IEA
Inferred from Electronic Annotation
more info
 

General protein information

Preferred Names
neuronal growth regulator 1
Names
IgLON family member 4
a kindred of IgLON
neurotractin

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_173808.3NP_776169.2  neuronal growth regulator 1 precursor

    See identical proteins and their annotated locations for NP_776169.2

    Status: VALIDATED

    Source sequence(s)
    AL354949, AL356600, AL359821, AL627317, AL645724
    Consensus CDS
    CCDS661.1
    UniProtKB/Swiss-Prot
    Q5VT21, Q6UY06, Q7Z3B1, Q8N440, Q8NAQ3
    UniProtKB/TrEMBL
    B4DI94
    Related
    ENSP00000350364.4, ENST00000357731.10
    Conserved Domains (3) summary
    smart00408
    Location:152210
    IGc2; Immunoglobulin C-2 Type
    smart00409
    Location:47135
    IG; Immunoglobulin
    pfam13927
    Location:225301
    Ig_3; Immunoglobulin domain

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_000001.11 Reference GRCh38.p14 Primary Assembly

    Range
    71395943..72282539 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_011541200.4XP_011539502.1  neuronal growth regulator 1 isoform X1

    UniProtKB/TrEMBL
    B4DI94
    Conserved Domains (4) summary
    cd00096
    Location:243309
    Ig; Immunoglobulin domain
    smart00408
    Location:152210
    IGc2; Immunoglobulin C-2 Type
    smart00410
    Location:231312
    IG_like; Immunoglobulin like
    cl11960
    Location:44135
    Ig; Immunoglobulin domain
  2. XM_017000961.3XP_016856450.1  neuronal growth regulator 1 isoform X3

  3. XM_011541201.4XP_011539503.1  neuronal growth regulator 1 isoform X2

    See identical proteins and their annotated locations for XP_011539503.1

    Conserved Domains (3) summary
    smart00408
    Location:152210
    IGc2; Immunoglobulin C-2 Type
    smart00410
    Location:145221
    IG_like; Immunoglobulin like
    cl11960
    Location:44135
    Ig; Immunoglobulin domain

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060925.1 Alternate T2T-CHM13v2.0

    Range
    71273677..72161473 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_054335847.1XP_054191822.1  neuronal growth regulator 1 isoform X1

    UniProtKB/TrEMBL
    B4DI94
  2. XM_054335849.1XP_054191824.1  neuronal growth regulator 1 isoform X3

  3. XM_054335848.1XP_054191823.1  neuronal growth regulator 1 isoform X2