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ARL6IP4 ARF like GTPase 6 interacting protein 4 [ Homo sapiens (human) ]

Gene ID: 51329, updated on 2-Nov-2024

Summary

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Official Symbol
ARL6IP4provided by HGNC
Official Full Name
ARF like GTPase 6 interacting protein 4provided by HGNC
Primary source
HGNC:HGNC:18076
See related
Ensembl:ENSG00000182196 MIM:607668; AllianceGenome:HGNC:18076
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
SR-25; SRp25; SFRS20; SRrp37
Summary
Enables identical protein binding activity. Predicted to be involved in RNA splicing. Predicted to be located in nucleus. [provided by Alliance of Genome Resources, Nov 2024]
Expression
Ubiquitous expression in fat (RPKM 37.6), kidney (RPKM 36.8) and 25 other tissues See more
Orthologs
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Genomic context

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See ARL6IP4 in Genome Data Viewer
Location:
12q24.31
Exon count:
8
Annotation release Status Assembly Chr Location
RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 12 NC_000012.12 (122980233..122982909)
RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 12 NC_060936.1 (122976758..122979434)
RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 12 NC_000012.11 (123464780..123467456)

Chromosome 12 - NC_000012.12Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC124903039 Neighboring gene hESC enhancers GRCh37_chr12:123356243-123356750 and GRCh37_chr12:123356751-123357257 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr12:123357767-123358273 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 7241 Neighboring gene ReSE screen-validated silencer GRCh37_chr12:123361289-123361497 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 7242 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 7243 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr12:123372974-123373690 Neighboring gene VPS37B subunit of ESCRT-I Neighboring gene OCT4-NANOG-H3K27ac hESC enhancer GRCh37_chr12:123375921-123376422 Neighboring gene OCT4-NANOG-H3K27ac hESC enhancer GRCh37_chr12:123376423-123376922 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 7244 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 5024 Neighboring gene OCT4-NANOG-H3K4me1 hESC enhancer GRCh37_chr12:123394282-123394782 Neighboring gene OCT4-NANOG-H3K4me1 hESC enhancer GRCh37_chr12:123394783-123395283 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr12:123407378-123407878 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr12:123407879-123408379 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr12:123414465-123414965 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr12:123424202-123425057 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr12:123429718-123430527 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr12:123431158-123431906 Neighboring gene ATP binding cassette subfamily B member 9 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr12:123449651-123450458 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr12:123450459-123451264 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 7247 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 7248 Neighboring gene H3K27ac hESC enhancers GRCh37_chr12:123464801-123465306 and GRCh37_chr12:123465307-123465812 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 7249 Neighboring gene 2-oxoglutarate and iron dependent oxygenase domain containing 2 Neighboring gene phosphatidylinositol transfer protein membrane associated 2 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr12:123496109-123497029 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr12:123512108-123513066 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr12:123513067-123514024 Neighboring gene microRNA 4304 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr12:123528097-123528676 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr12:123543041-123543542 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr12:123549368-123550230 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr12:123550389-123550890 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr12:123554866-123555738 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr12:123562495-123563216 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 7250 Neighboring gene PITPNM2 antisense RNA 1

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 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. An SR-protein induced by HSVI binding to cells functioning as a splicing inhibitor of viral pre-mRNA. Li Q, et al. J Mol Biol, 2002 Mar 1. PMID 11884129
  2. Molecular cloning and expression analysis of a putative nuclear protein, SR-25. Sasahara K, et al. Biochem Biophys Res Commun, 2000 Mar 16. PMID 10708573
  3. A novel ADP-ribosylation like factor (ARL-6), interacts with the protein-conducting channel SEC61beta subunit. Ingley E, et al. FEBS Lett, 1999 Oct 1. PMID 10508919
  4. Proteome-scale Binary Interactomics in Human Cells. Lievens S, et al. Mol Cell Proteomics, 2016 Dec. PMID 27803151, Free PMC Article
  5. Expressed sequence tag analysis of adult human iris for the NEIBank Project: steroid-response factors and similarities with retinal pigment epithelium. Wistow G, et al. Mol Vis, 2002 Jun 15. PMID 12107412

See all (78) citations in PubMed

GeneRIFs: Gene References Into Functions

Phenotypes

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Review eQTL and phenotype association data in this region using PheGenI

EBI GWAS Catalog

Description
Biological insights from 108 schizophrenia-associated genetic loci.
EBI GWAS Catalog
Genome-wide association analysis identifies 13 new risk loci for schizophrenia.
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

Potential readthrough

Included gene: OGFOD2

Homology

Clone Names

  • MGC814

Gene Ontology Provided by GOA

Function Evidence Code Pubs
enables RNA binding HDA PubMed 
enables protein binding IPI
Inferred from Physical Interaction
more info
 PubMed 
Process Evidence Code Pubs
involved_in RNA splicing IEA
Inferred from Electronic Annotation
more info
  
involved_in mRNA processing IEA
Inferred from Electronic Annotation
more info
  
Component Evidence Code Pubs
located_in nuclear speck IEA
Inferred from Electronic Annotation
more info
  
located_in nucleolus IEA
Inferred from Electronic Annotation
more info
  
located_in nucleus TAS
Traceable Author Statement
more info
 PubMed 

General protein information

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Preferred Names
ADP-ribosylation factor-like protein 6-interacting protein 4
Names
ADP ribosylation factor like GTPase 6 interacting protein 4
ADP-ribosylation factor GTPase 6 interacting protein 4
ADP-ribosylation factor-like 6 interacting protein 4
ADP-ribosylation-like factor 6 interacting protein 4
ARL-6-interacting protein 4
HSP-975
HSVI binding protein
SR-15
SRp25 nuclear protein
aip-4
splicing factor SRrp37
splicing factor, arginine/serine-rich 20
splicing regulator SRrp38

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_001002251.3 → NP_001002251.3  ADP-ribosylation factor-like protein 6-interacting protein 4 isoform 3

    Status: VALIDATED

    Description
    Transcript Variant: This variant (3) has an alternate splice site in the coding region, but maintains the reading frame, compared to variant 1. The resulting isoform (3) lacks an internal segment, compared to isoform 1.
    Source sequence(s)
    AC026362
    Consensus CDS
    CCDS45004.3
    UniProtKB/TrEMBL
    F8WCT1
    Related
    ENSP00000414847.4, ENST00000453766.7
    Conserved Domains (1) summary
    pfam10500
    Location:31 → 227
    SR-25; Nuclear RNA-splicing-associated protein

  2. NM_001278378.2 → NP_001265307.2  ADP-ribosylation factor-like protein 6-interacting protein 4 isoform 5

    Status: VALIDATED

    Description
    Transcript Variant: This variant (5) has multiple differences in the coding region, compared to variant 1. The resulting isoform (5) lacks two internal segments, compared to isoform 1.
    Source sequence(s)
    AC026362
    Consensus CDS
    CCDS91765.1
    UniProtKB/TrEMBL
    A0A0C4DH18
    Related
    ENSP00000350532.4, ENST00000357866.4
    Conserved Domains (1) summary
    pfam10500
    Location:31 → 179
    SR-25; Nuclear RNA-splicing-associated protein

  3. NM_001278379.2 → NP_001265308.2  ADP-ribosylation factor-like protein 6-interacting protein 4 isoform 2

    Status: VALIDATED

    Description
    Transcript Variant: This variant (6) has multiple differences in the coding region, compared to variant 1. The resulting isoform (6) lacks two internal segments, compared to isoform 1. Variants 2 and 6 both encode the same isoform (2).
    Source sequence(s)
    AC026362
    Consensus CDS
    CCDS53843.3
    UniProtKB/TrEMBL
    A0A0C4DG62
    Related
    ENSP00000406036.2, ENST00000426960.6
    Conserved Domains (1) summary
    pfam10500
    Location:31 → 216
    SR-25; Nuclear RNA-splicing-associated protein

  4. NM_001278380.2 → NP_001265309.1  ADP-ribosylation factor-like protein 6-interacting protein 4 isoform 7

    See identical proteins and their annotated locations for NP_001265309.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (7) uses an alternate splice site compared to variant 1. The resulting isoform (7) lacks an alternate internal segment compared to isoform 1.
    Source sequence(s)
    AC026362
    Consensus CDS
    CCDS61273.1
    UniProtKB/Swiss-Prot
    Q66PJ3
    Related
    ENSP00000396723.2, ENST00000454885.6
    Conserved Domains (1) summary
    pfam10500
    Location:31 → 224
    SR-25; Nuclear RNA-splicing-associated protein

  5. NM_001400281.1 → NP_001387210.1  ADP-ribosylation factor-like protein 6-interacting protein 4 isoform 4

    Status: VALIDATED

    Source sequence(s)
    AC026362

  6. NM_001400282.1 → NP_001387211.1  ADP-ribosylation factor-like protein 6-interacting protein 4 isoform 1

    Status: VALIDATED

    Source sequence(s)
    AC026362
    Consensus CDS
    CCDS31923.3
    UniProtKB/Swiss-Prot
    A4UCR8, B3V0L0, B3V0L1, Q4F966, Q504R8, Q66PJ3, Q96BI2, Q9NR05, Q9P2R9
    UniProtKB/TrEMBL
    A0A8C8KBE9

  7. NM_001400283.1 → NP_001387212.1  ADP-ribosylation factor-like protein 6-interacting protein 4 isoform 7

    Status: VALIDATED

    Source sequence(s)
    AC026362
    Consensus CDS
    CCDS61273.1

  8. NM_001400284.1 → NP_001387213.1  ADP-ribosylation factor-like protein 6-interacting protein 4 isoform 6

    Status: VALIDATED

    Source sequence(s)
    AC026362
    Consensus CDS
    CCDS91764.1
    UniProtKB/TrEMBL
    F8WEP2

  9. NM_001400285.1 → NP_001387214.1  ADP-ribosylation factor-like protein 6-interacting protein 4 isoform 5

    Status: VALIDATED

    Source sequence(s)
    AC026362
    Consensus CDS
    CCDS91765.1
    UniProtKB/TrEMBL
    A0A0C4DH18

  10. NM_001400300.1 → NP_001387229.1  ADP-ribosylation factor-like protein 6-interacting protein 4 isoform 4

    Status: VALIDATED

    Source sequence(s)
    AC026362

  11. NM_001400301.1 → NP_001387230.1  ADP-ribosylation factor-like protein 6-interacting protein 4 isoform 6

    Status: VALIDATED

    Source sequence(s)
    AC026362
    Consensus CDS
    CCDS91764.1
    UniProtKB/TrEMBL
    F8WEP2

  12. NM_001400302.1 → NP_001387231.1  ADP-ribosylation factor-like protein 6-interacting protein 4 isoform 7

    Status: VALIDATED

    Source sequence(s)
    AC026362
    Consensus CDS
    CCDS61273.1

  13. NM_001400303.1 → NP_001387232.1  ADP-ribosylation factor-like protein 6-interacting protein 4 isoform 3

    Status: VALIDATED

    Source sequence(s)
    AC026362
    Consensus CDS
    CCDS45004.3
    UniProtKB/TrEMBL
    F8WCT1
    Related
    ENSP00000396365.2, ENST00000439686.6
    Conserved Domains (1) summary
    pfam10500
    Location:31 → 227
    SR-25; Nuclear RNA-splicing-associated protein

  14. NM_001400304.1 → NP_001387233.1  ADP-ribosylation factor-like protein 6-interacting protein 4 isoform 8

    Status: VALIDATED

    Source sequence(s)
    AC026362

  15. NM_001400305.1 → NP_001387234.1  ADP-ribosylation factor-like protein 6-interacting protein 4 isoform 6

    Status: VALIDATED

    Source sequence(s)
    AC026362
    Consensus CDS
    CCDS91764.1
    UniProtKB/TrEMBL
    F8WEP2
    Related
    ENSP00000413132.2, ENST00000412505.6

  16. NM_001400306.1 → NP_001387235.1  ADP-ribosylation factor-like protein 6-interacting protein 4 isoform 5

    Status: VALIDATED

    Source sequence(s)
    AC026362
    Consensus CDS
    CCDS91765.1
    UniProtKB/TrEMBL
    A0A0C4DH18

  17. NM_001400307.1 → NP_001387236.1  ADP-ribosylation factor-like protein 6-interacting protein 4 isoform 2

    Status: VALIDATED

    Source sequence(s)
    AC026362
    Consensus CDS
    CCDS53843.3
    UniProtKB/TrEMBL
    A0A0C4DG62

  18. NM_001400308.1 → NP_001387237.1  ADP-ribosylation factor-like protein 6-interacting protein 4 isoform 4

    Status: VALIDATED

    Source sequence(s)
    AC026362

  19. NM_001400309.1 → NP_001387238.1  ADP-ribosylation factor-like protein 6-interacting protein 4 isoform 7

    Status: VALIDATED

    Source sequence(s)
    AC026362
    Consensus CDS
    CCDS61273.1

  20. NM_001400310.1 → NP_001387239.1  ADP-ribosylation factor-like protein 6-interacting protein 4 isoform 1

    Status: VALIDATED

    Source sequence(s)
    AC026362
    Consensus CDS
    CCDS31923.3
    UniProtKB/Swiss-Prot
    A4UCR8, B3V0L0, B3V0L1, Q4F966, Q504R8, Q66PJ3, Q96BI2, Q9NR05, Q9P2R9
    UniProtKB/TrEMBL
    A0A8C8KBE9

  21. NM_001400311.1 → NP_001387240.1  ADP-ribosylation factor-like protein 6-interacting protein 4 isoform 3

    Status: VALIDATED

    Source sequence(s)
    AC026362
    Consensus CDS
    CCDS45004.3
    UniProtKB/TrEMBL
    F8WCT1
    Conserved Domains (1) summary
    pfam10500
    Location:31 → 227
    SR-25; Nuclear RNA-splicing-associated protein

  22. NM_001400312.1 → NP_001387241.1  ADP-ribosylation factor-like protein 6-interacting protein 4 isoform 5

    Status: VALIDATED

    Source sequence(s)
    AC026362
    Consensus CDS
    CCDS91765.1
    UniProtKB/TrEMBL
    A0A0C4DH18

  23. NM_001400313.1 → NP_001387242.1  ADP-ribosylation factor-like protein 6-interacting protein 4 isoform 2

    Status: VALIDATED

    Source sequence(s)
    AC026362
    Consensus CDS
    CCDS53843.3
    UniProtKB/TrEMBL
    A0A0C4DG62

  24. NM_001400314.1 → NP_001387243.1  ADP-ribosylation factor-like protein 6-interacting protein 4 isoform 4

    Status: VALIDATED

    Source sequence(s)
    AC026362

  25. NM_001400315.1 → NP_001387244.1  ADP-ribosylation factor-like protein 6-interacting protein 4 isoform 1

    Status: VALIDATED

    Source sequence(s)
    AC026362
    Consensus CDS
    CCDS31923.3
    UniProtKB/Swiss-Prot
    A4UCR8, B3V0L0, B3V0L1, Q4F966, Q504R8, Q66PJ3, Q96BI2, Q9NR05, Q9P2R9
    UniProtKB/TrEMBL
    A0A8C8KBE9

  26. NM_001400316.1 → NP_001387245.1  ADP-ribosylation factor-like protein 6-interacting protein 4 isoform 1

    Status: VALIDATED

    Source sequence(s)
    AC026362
    Consensus CDS
    CCDS31923.3
    UniProtKB/Swiss-Prot
    A4UCR8, B3V0L0, B3V0L1, Q4F966, Q504R8, Q66PJ3, Q96BI2, Q9NR05, Q9P2R9
    UniProtKB/TrEMBL
    A0A8C8KBE9

  27. NM_001400317.1 → NP_001387246.1  ADP-ribosylation factor-like protein 6-interacting protein 4 isoform 2

    Status: VALIDATED

    Source sequence(s)
    AC026362
    Consensus CDS
    CCDS53843.3
    UniProtKB/TrEMBL
    A0A0C4DG62
    Related
    ENST00000536502.5

  28. NM_001400318.1 → NP_001387247.1  ADP-ribosylation factor-like protein 6-interacting protein 4 isoform 3

    Status: VALIDATED

    Source sequence(s)
    AC026362
    Consensus CDS
    CCDS45004.3
    UniProtKB/TrEMBL
    F8WCT1
    Conserved Domains (1) summary
    pfam10500
    Location:31 → 227
    SR-25; Nuclear RNA-splicing-associated protein

  29. NM_001400319.1 → NP_001387248.1  ADP-ribosylation factor-like protein 6-interacting protein 4 isoform 7

    Status: VALIDATED

    Source sequence(s)
    AC026362
    Consensus CDS
    CCDS61273.1

  30. NM_001400320.1 → NP_001387249.1  ADP-ribosylation factor-like protein 6-interacting protein 4 isoform 3

    Status: VALIDATED

    Source sequence(s)
    AC026362
    Consensus CDS
    CCDS45004.3
    UniProtKB/TrEMBL
    F8WCT1
    Related
    ENSP00000441406.1, ENST00000413381.6
    Conserved Domains (1) summary
    pfam10500
    Location:31 → 227
    SR-25; Nuclear RNA-splicing-associated protein

  31. NM_016638.4 → NP_057722.4  ADP-ribosylation factor-like protein 6-interacting protein 4 isoform 2

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) has an alternate splice junction in the coding region, but maintains the reading frame, compared to variant 1. The resulting isoform (2) lacks an internal segment, compared to isoform 1. Variants 2 and 6 both encode the same isoform (2).
    Source sequence(s)
    AC026362
    Consensus CDS
    CCDS53843.3
    UniProtKB/TrEMBL
    A0A0C4DG62
    Related
    ENSP00000442718.3, ENST00000543566.6
    Conserved Domains (1) summary
    pfam10500
    Location:31 → 216
    SR-25; Nuclear RNA-splicing-associated protein

  32. NM_018694.4 → NP_061164.4  ADP-ribosylation factor-like protein 6-interacting protein 4 isoform 1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) encodes the longest isoform (1).
    Source sequence(s)
    AC026362
    Consensus CDS
    CCDS31923.3
    UniProtKB/Swiss-Prot
    A4UCR8, B3V0L0, B3V0L1, Q4F966, Q504R8, Q66PJ3, Q96BI2, Q9NR05, Q9P2R9
    UniProtKB/TrEMBL
    A0A8C8KBE9
    Related
    ENSP00000313422.7, ENST00000315580.10
    Conserved Domains (1) summary
    pfam10500
    Location:31 → 235
    SR-25; Nuclear RNA-splicing-associated protein

RNA

  1. NR_103512.2 RNA Sequence

    Status: VALIDATED

    Description
    Transcript Variant: This variant (8) has three alternate splice sites in the central region, compared to variant 1. This variant is represented as non-coding because the use of the 5'-most expected translational start codon, as used in variant 1, renders the transcript a candidate for nonsense-mediated mRNA decay (NMD).
    Source sequence(s)
    AC026362

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_000012.12 Reference GRCh38.p14 Primary Assembly

    Range
    122980233..122982909
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060936.1 Alternate T2T-CHM13v2.0

    Range
    122976758..122979434
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Suppressed Reference Sequence(s)

The following Reference Sequences have been suppressed. Explain

  1. NM_001002252.2: Suppressed sequence

    Description
    NM_001002252.2: This RefSeq was removed because currently there is insufficient support for the transcript and the protein.
Nucleotide Protein
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q66PJ3.3 GenPept UniProtKB/Swiss-Prot:Q66PJ3

Gene LinkOut

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Chemical Information
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