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ARAP1 ArfGAP with RhoGAP domain, ankyrin repeat and PH domain 1 [ Homo sapiens (human) ]

Gene ID: 116985, updated on 5-Mar-2024

Summary

Official Symbol
ARAP1provided by HGNC
Official Full Name
ArfGAP with RhoGAP domain, ankyrin repeat and PH domain 1provided by HGNC
Primary source
HGNC:HGNC:16925
See related
Ensembl:ENSG00000186635 MIM:606646; AllianceGenome:HGNC:16925
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
CENTD2; cnt-d2
Summary
The protein encoded by this gene contains SAM, ARF-GAP, RHO-GAP, ankyrin repeat, RAS-associating, and pleckstrin homology (PH) domains. In vitro, this protein displays RHO-GAP and phosphatidylinositol (3,4,5) trisphosphate (PIP3)-dependent ARF-GAP activity. The encoded protein associates with the Golgi, and the ARF-GAP activity mediates changes in the Golgi and the formation of filopodia. It is thought to regulate the cell-specific trafficking of a receptor protein involved in apoptosis. Multiple transcript variants encoding different isoforms have been found for this gene. [provided by RefSeq, Sep 2008]
Expression
Ubiquitous expression in spleen (RPKM 32.0), appendix (RPKM 25.3) and 25 other tissues See more
Orthologs
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Genomic context

See ARAP1 in Genome Data Viewer
Location:
11q13.4
Exon count:
36
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 11 NC_000011.10 (72685069..72752408, complement)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 11 NC_060935.1 (72613306..72680645, complement)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 11 NC_000011.9 (72396114..72463453, complement)

Chromosome 11 - NC_000011.10Genomic Context describing neighboring genes Neighboring gene phosphodiesterase 2A Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:72336883-72337427 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:72337428-72337971 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr11:72339671-72340196 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:72340723-72341248 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:72341249-72341773 Neighboring gene RNA, U7 small nuclear 105 pseudogene Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:72344820-72345416 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:72345417-72346012 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:72353123-72353623 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:72354058-72354647 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:72363808-72364353 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:72367701-72368202 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:72373037-72373701 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:72375031-72375693 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:72379106-72379610 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 5193 Neighboring gene PDE2A antisense RNA 1 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:72384035-72384661 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:72384662-72385287 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:72385288-72385914 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:72385915-72386539 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:72386690-72387190 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 3723 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:72391485-72392310 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:72395779-72396338 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 3724 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr11:72415096-72415932 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr11:72417010-72417596 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr11:72420686-72421388 Neighboring gene ARAP1 antisense RNA 2 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:72423687-72424267 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:72424849-72425428 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:72428169-72428669 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:72428974-72429474 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 3725 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 5194 Neighboring gene ribosomal protein S12 pseudogene 20 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 5195 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 5196 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 5197 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 5198 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr11:72452199-72452976 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr11:72453754-72454530 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 5201 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 5202 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 3726 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 5203 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 5204 Neighboring gene StAR related lipid transfer domain containing 10 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:72485809-72486308 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 3727 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 3728 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:72493384-72494086 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:72497138-72498136 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:72498137-72499133 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:72503217-72503716 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 5206 Neighboring gene H3K27ac hESC enhancer GRCh37_chr11:72509227-72509964 Neighboring gene microRNA 4692 Neighboring gene uncharacterized LOC107984421 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 3729 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 5207 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 5208 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 3730 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 3731

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
A genome-wide approach accounting for body mass index identifies genetic variants influencing fasting glycemic traits and insulin resistance.
EBI GWAS Catalog
Genome-wide association identifies nine common variants associated with fasting proinsulin levels and provides new insights into the pathophysiology of type 2 diabetes.
EBI GWAS Catalog
Genome-wide trans-ancestry meta-analysis provides insight into the genetic architecture of type 2 diabetes susceptibility.
EBI GWAS Catalog
Meta-analysis identifies nine new loci associated with rheumatoid arthritis in the Japanese population.
EBI GWAS Catalog
Twelve type 2 diabetes susceptibility loci identified through large-scale association analysis.
EBI GWAS Catalog

Pathways from PubChem

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Clone Names

  • KIAA0782

Gene Ontology Provided by GOA

Function Evidence Code Pubs
enables GTPase activator activity IBA
Inferred from Biological aspect of Ancestor
more info
 
enables GTPase activator activity IDA
Inferred from Direct Assay
more info
PubMed 
enables GTPase activator activity TAS
Traceable Author Statement
more info
 
enables metal ion binding IEA
Inferred from Electronic Annotation
more info
 
enables phosphatidylinositol-3,4,5-trisphosphate binding IBA
Inferred from Biological aspect of Ancestor
more info
 
enables phosphatidylinositol-3,4,5-trisphosphate binding IDA
Inferred from Direct Assay
more info
PubMed 
enables protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
enables type 1 angiotensin receptor binding IEA
Inferred from Electronic Annotation
more info
 
Component Evidence Code Pubs
located_in Golgi apparatus IDA
Inferred from Direct Assay
more info
PubMed 
located_in Golgi cisterna membrane IEA
Inferred from Electronic Annotation
more info
 
is_active_in cytoplasm IBA
Inferred from Biological aspect of Ancestor
more info
 
located_in cytosol IDA
Inferred from Direct Assay
more info
 
located_in cytosol TAS
Traceable Author Statement
more info
 
located_in intracellular membrane-bounded organelle IDA
Inferred from Direct Assay
more info
 
located_in nucleoplasm IDA
Inferred from Direct Assay
more info
 
is_active_in plasma membrane IBA
Inferred from Biological aspect of Ancestor
more info
 
located_in plasma membrane IDA
Inferred from Direct Assay
more info
 
is_active_in trans-Golgi network IBA
Inferred from Biological aspect of Ancestor
more info
 

General protein information

Preferred Names
arf-GAP with Rho-GAP domain, ANK repeat and PH domain-containing protein 1
Names
ARF-GAP, RHO-GAP, ankyrin repeat, and pleckstrin homology domains-containing protein 1
centaurin-delta-2

NCBI Reference Sequences (RefSeq)

NEW Try the new Transcript table

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_001040118.3NP_001035207.1  arf-GAP with Rho-GAP domain, ANK repeat and PH domain-containing protein 1 isoform c

    See identical proteins and their annotated locations for NP_001035207.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (3) is the longest transcript and it encodes the longest protein (isoform c).
    Source sequence(s)
    AP003065, AY553630, BC008315
    Consensus CDS
    CCDS41687.1
    UniProtKB/Swiss-Prot
    A3KLL7, B2RTS2, O94879, Q4LDD5, Q59FI7, Q6PHS3, Q8WU51, Q96HP6, Q96L71, Q96P48
    UniProtKB/TrEMBL
    A0A2X0SFK3
    Related
    ENSP00000377233.3, ENST00000393609.8
    Conserved Domains (11) summary
    cd09490
    Location:668
    SAM_Arap1,2,3; SAM domain of Arap1,2,3 (angiotensin receptor-associated protein)
    smart00454
    Location:1064
    SAM; Sterile alpha motif
    cd04385
    Location:9561135
    RhoGAP_ARAP; RhoGAP_ARAP: RhoGAP (GTPase-activator protein [GAP] for Rho-like small GTPases) domain present in ARAPs. ARAPs (also known as centaurin deltas) contain, besides the RhoGAP domain, an Arf GAP, ankyrin repeat ras-associating, and PH domains. Since their ...
    cd13253
    Location:329421
    PH1_ARAP; ArfGAP with RhoGAP domain, ankyrin repeat and PH domain Pleckstrin homology (PH) domain, repeat 1
    cd13254
    Location:436525
    PH2_ARAP; ArfGAP with RhoGAP domain, ankyrin repeat and PH domain Pleckstrin homology (PH) domain, repeat 2
    cd13256
    Location:743849
    PH3_ARAP; ArfGAP with RhoGAP domain, ankyrin repeat and PH domain Pleckstrin homology (PH) domain, repeat 3
    cd13257
    Location:862952
    PH4_ARAP; ArfGAP with RhoGAP domain, ankyrin repeat and PH domain Pleckstrin homology (PH) domain, repeat 4
    cd13259
    Location:12631402
    PH5_ARAP; ArfGAP with RhoGAP domain, ankyrin repeat and PH domain Pleckstrin homology (PH) domain, repeat 5
    pfam00169
    Location:328419
    PH; PH domain
    pfam00788
    Location:11721261
    RA; Ras association (RalGDS/AF-6) domain
    pfam01412
    Location:535651
    ArfGap; Putative GTPase activating protein for Arf
  2. NM_001135190.2NP_001128662.1  arf-GAP with Rho-GAP domain, ANK repeat and PH domain-containing protein 1 isoform d

    See identical proteins and their annotated locations for NP_001128662.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (4) differs in the 5' UTR and lacks two alternate in-frame coding exons, compared to variant 3. the resulting protein (isoform d) has a shorter N-terminus and lacks the SAM domain and portions of the ArfGAP and fifth PH domains, compared to isoform c.
    Source sequence(s)
    AP003065, BC008315, BC140792, DA186424
    Consensus CDS
    CCDS44671.1
    UniProtKB/TrEMBL
    B7ZMI2
    Related
    ENSP00000403127.1, ENST00000429686.5
    Conserved Domains (9) summary
    cd04385
    Location:650829
    RhoGAP_ARAP; RhoGAP_ARAP: RhoGAP (GTPase-activator protein [GAP] for Rho-like small GTPases) domain present in ARAPs. ARAPs (also known as centaurin deltas) contain, besides the RhoGAP domain, an Arf GAP, ankyrin repeat ras-associating, and PH domains. Since their ...
    cd13253
    Location:84176
    PH1_ARAP; ArfGAP with RhoGAP domain, ankyrin repeat and PH domain Pleckstrin homology (PH) domain, repeat 1
    cd13254
    Location:191280
    PH2_ARAP; ArfGAP with RhoGAP domain, ankyrin repeat and PH domain Pleckstrin homology (PH) domain, repeat 2
    cd13256
    Location:437543
    PH3_ARAP; ArfGAP with RhoGAP domain, ankyrin repeat and PH domain Pleckstrin homology (PH) domain, repeat 3
    cd13257
    Location:556646
    PH4_ARAP; ArfGAP with RhoGAP domain, ankyrin repeat and PH domain Pleckstrin homology (PH) domain, repeat 4
    cd13259
    Location:9571085
    PH5_ARAP; ArfGAP with RhoGAP domain, ankyrin repeat and PH domain Pleckstrin homology (PH) domain, repeat 5
    pfam00169
    Location:83174
    PH; PH domain
    pfam00788
    Location:866955
    RA; Ras association (RalGDS/AF-6) domain
    pfam01412
    Location:290362
    ArfGap; Putative GTPase activating protein for Arf
  3. NM_001369489.1NP_001356418.1  arf-GAP with Rho-GAP domain, ANK repeat and PH domain-containing protein 1 isoform e

    Status: REVIEWED

    Source sequence(s)
    AP003065
    Consensus CDS
    CCDS91531.1
    UniProtKB/TrEMBL
    B7ZMI2, E7EU13
    Related
    ENSP00000392264.1, ENST00000426523.5
    Conserved Domains (8) summary
    cd04385
    Location:711890
    RhoGAP_ARAP; RhoGAP (GTPase-activator protein [GAP] for Rho-like small GTPases) domain present in ARAPs. ARAPs (also known as centaurin deltas) contain, besides the RhoGAP domain, an Arf GAP, ankyrin repeat ras-associating, and PH domains. Since their ArfGAP activity ...
    cd13253
    Location:84176
    PH1_ARAP; ArfGAP with RhoGAP domain, ankyrin repeat and PH domain Pleckstrin homology (PH) domain, repeat 1
    cd13254
    Location:191280
    PH2_ARAP; ArfGAP with RhoGAP domain, ankyrin repeat and PH domain Pleckstrin homology (PH) domain, repeat 2
    cd13256
    Location:498604
    PH3_ARAP; ArfGAP with RhoGAP domain, ankyrin repeat and PH domain Pleckstrin homology (PH) domain, repeat 3
    cd13257
    Location:617707
    PH4_ARAP; ArfGAP with RhoGAP domain, ankyrin repeat and PH domain Pleckstrin homology (PH) domain, repeat 4
    cd13259
    Location:10181146
    PH5_ARAP; ArfGAP with RhoGAP domain, ankyrin repeat and PH domain Pleckstrin homology (PH) domain, repeat 5
    cd17226
    Location:9261018
    RA_ARAP1; Ras-associating (RA) domain found in Arf-GAP with Rho-GAP domain, ANK repeat and PH domain-containing protein 1 (ARAP1)
    cd08837
    Location:290405
    ArfGap_ARAP; ArfGap with Rho-Gap domain, ANK repeat and PH domain-containing proteins
  4. NM_015242.5NP_056057.2  arf-GAP with Rho-GAP domain, ANK repeat and PH domain-containing protein 1 isoform a

    See identical proteins and their annotated locations for NP_056057.2

    Status: REVIEWED

    Description
    Transcript Variant: This variant (1) differs in the 5' UTR, compared to variant 3. This difference causes translation initiation at a downstream AUG and an isoform (a) with a shorter N-terminus compared to isoform c.
    Source sequence(s)
    AB018325, BC008315, DA186424
    Consensus CDS
    CCDS8217.2
    UniProtKB/TrEMBL
    A0A2X0SFK3
    Related
    ENSP00000335506.8, ENST00000334211.12
    Conserved Domains (9) summary
    cd04385
    Location:711890
    RhoGAP_ARAP; RhoGAP_ARAP: RhoGAP (GTPase-activator protein [GAP] for Rho-like small GTPases) domain present in ARAPs. ARAPs (also known as centaurin deltas) contain, besides the RhoGAP domain, an Arf GAP, ankyrin repeat ras-associating, and PH domains. Since their ...
    cd13253
    Location:84176
    PH1_ARAP; ArfGAP with RhoGAP domain, ankyrin repeat and PH domain Pleckstrin homology (PH) domain, repeat 1
    cd13254
    Location:191280
    PH2_ARAP; ArfGAP with RhoGAP domain, ankyrin repeat and PH domain Pleckstrin homology (PH) domain, repeat 2
    cd13256
    Location:498604
    PH3_ARAP; ArfGAP with RhoGAP domain, ankyrin repeat and PH domain Pleckstrin homology (PH) domain, repeat 3
    cd13257
    Location:617707
    PH4_ARAP; ArfGAP with RhoGAP domain, ankyrin repeat and PH domain Pleckstrin homology (PH) domain, repeat 4
    cd13259
    Location:10181157
    PH5_ARAP; ArfGAP with RhoGAP domain, ankyrin repeat and PH domain Pleckstrin homology (PH) domain, repeat 5
    pfam00169
    Location:83174
    PH; PH domain
    pfam00788
    Location:9271016
    RA; Ras association (RalGDS/AF-6) domain
    pfam01412
    Location:290406
    ArfGap; Putative GTPase activating protein for Arf

RNA

  1. NR_161388.1 RNA Sequence

    Status: REVIEWED

    Source sequence(s)
    AP003065

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_000011.10 Reference GRCh38.p14 Primary Assembly

    Range
    72685069..72752408 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060935.1 Alternate T2T-CHM13v2.0

    Range
    72613306..72680645 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)