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RPGRIP1 RPGR interacting protein 1 [ Homo sapiens (human) ]

Gene ID: 57096, updated on 3-Apr-2024

Summary

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Official Symbol
RPGRIP1provided by HGNC
Official Full Name
RPGR interacting protein 1provided by HGNC
Primary source
HGNC:HGNC:13436
See related
Ensembl:ENSG00000092200 MIM:605446; AllianceGenome:HGNC:13436
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
LCA6; RGI1; RGRIP; CORD13; RPGRIP; RPGRIP1d
Summary
This gene encodes a photoreceptor protein that interacts with retinitis pigmentosa GTPase regulator protein and is a key component of cone and rod photoreceptor cells. Mutations in this gene lead to autosomal recessive congenital blindness. [provided by RefSeq, Oct 2008]
Expression
Restricted expression toward testis (RPKM 14.5) See more
Orthologs
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Genomic context

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See RPGRIP1 in Genome Data Viewer
Location:
14q11.2
Exon count:
26
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 14 NC_000014.9 (21280083..21351301)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 14 NC_060938.1 (15477514..15548760)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 14 NC_000014.8 (21748242..21819460)

Chromosome 14 - NC_000014.9Genomic Context describing neighboring genes Neighboring gene long intergenic non-protein coding RNA 641 Neighboring gene H3K27ac hESC enhancer GRCh37_chr14:21686859-21687402 Neighboring gene heterogeneous nuclear ribonucleoprotein C Neighboring gene H3K4me1 hESC enhancer GRCh37_chr14:21722469-21723406 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr14:21734420-21735000 Neighboring gene H3K27ac hESC enhancer GRCh37_chr14:21735001-21735580 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr14:21737080-21737704 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr14:21737705-21738330 Neighboring gene mitochondrial ribosomal protein S17 pseudogene 6 Neighboring gene OCT4-NANOG-H3K27ac hESC enhancer GRCh37_chr14:21777043-21777570 Neighboring gene ReSE screen-validated silencer GRCh37_chr14:21817331-21817510 Neighboring gene BRD4-independent group 4 enhancer GRCh37_chr14:21820143-21821342 Neighboring gene SPT16 homolog, facilitates chromatin remodeling subunit Neighboring gene uncharacterized LOC107984643 Neighboring gene CDK7 strongly-dependent group 2 enhancer GRCh37_chr14:21859227-21860426 Neighboring gene chromodomain helicase DNA binding protein 8

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. Noncoding mutation in RPGRIP1 contributes to inherited retinal degenerations. Zou G, et al. Mol Vis, 2021. PMID 33907365, Free PMC Article
  2. Whole Locus Sequencing Identifies a Prevalent Founder Deep Intronic RPGRIP1 Pathologic Variant in the French Leber Congenital Amaurosis Cohort. Perrault I, et al. Genes (Basel), 2021 Feb 18. PMID 33670832, Free PMC Article
  3. Thumb duplication: molecular analysis of different clinical types. Kyriazis Z, et al. Eur J Orthop Surg Traumatol, 2019 Feb. PMID 30498907
  4. Identification of a novel RPGRIP1 mutation in an Iranian family with leber congenital amaurosis by exome sequencing. Imani S, et al. J Cell Mol Med, 2018 Mar. PMID 29193763, Free PMC Article
  5. Targeted next generation sequencing identified novel mutations in RPGRIP1 associated with both retinitis pigmentosa and Leber's congenital amaurosis in unrelated Chinese patients. Huang H, et al. Oncotarget, 2017 May 23. PMID 28456785, Free PMC Article

See all (53) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. RPGRIP1-related retinal disease presenting as isolated cone dysfunction.
    Title: RPGRIP1-related retinal disease presenting as isolated cone dysfunction.
  2. Molecular genetics with clinical characteristics of Leber congenital amaurosis in the Han population of western China.
    Title: Molecular genetics with clinical characteristics of Leber congenital amaurosis in the Han population of western China.
  3. Noncoding mutation in RPGRIP1 contributes to inherited retinal degenerations.
    Title: Noncoding mutation in RPGRIP1 contributes to inherited retinal degenerations.
  4. Whole Locus Sequencing Identifies a Prevalent Founder Deep Intronic RPGRIP1 Pathologic Variant in the French Leber Congenital Amaurosis Cohort.
    Title: Whole Locus Sequencing Identifies a Prevalent Founder Deep Intronic RPGRIP1 Pathologic Variant in the French Leber Congenital Amaurosis Cohort.
  5. Clinical and molecular findings in a cohort of 152 Brazilian severe early onset inherited retinal dystrophy patients.
    Title: Clinical and molecular findings in a cohort of 152 Brazilian severe early onset inherited retinal dystrophy patients.
  6. Data indicate that the c. 2889delT (p.P963 fs) mutation in the retinitis pigmentosa GTPase regulator interacting protein 1 (RPGRIP1) gene works as a pathogenic mutation that contributes to the progression of Leber congenital amaurosis (LCA).
    Title: Identification of a novel RPGRIP1 mutation in an Iranian family with leber congenital amaurosis by exome sequencing.
  7. Although the patients had 2 mutated genes in common (RPGRIP1 and TMEM216), they only shared one common mutation in RPGRIP1 gene. Thus, it seems that this common RPGRIP1 mutation is associated with radial polydactyly but probably does not play a significant role in the Wassel type differentiation.
    Title: Thumb duplication: molecular analysis of different clinical types.
  8. Loss of Rpgrip1 expression is associated with Ciliopathy.
    Title: Cell type-specific regulation of ciliary transition zone assembly in vertebrates.
  9. Gene capture sequencing results found three probands carrying mutations of RPGRIP1, which was known to be associated with pathogenesis of LCA (Leber's congenital amaurosis). By further clinical analysis, two probands were confirmed to be retinitis pigmentosa (RP) patients and one was confirmed to be LCA patient. These novel mutations were co-segregated with the disease phenotype in their families.
    Title: Targeted next generation sequencing identified novel mutations in RPGRIP1 associated with both retinitis pigmentosa and Leber's congenital amaurosis in unrelated Chinese patients.
  10. Neurodevelopmental delay and brain atrophy in the CT scan were reported. Genomic sequencing identified a novel homozygous deletion, c.[420delG], in RPGRIP1. This mutation was not detected in 80 ethnically matched controls and has not been reported elsewhere. CONCLUSIONS: Identifying new mutations in Leber congenital amaurosis-related genes and their clinical manifestations can improve our understanding of the disease and.
    Title: A Novel Recessive RPGRIP1 Mutation Causing Leber Congenital Amaurosis.
Submit: New GeneRIF Correction See all GeneRIFs (27)

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

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

Pathways from PubChem

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Interactions

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Products Interactant Other Gene Complex Source Pubs Description

General gene information

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Markers

Homology

Clone Names

  • DKFZp686P0897

Gene Ontology Provided by GOA

Function Evidence Code Pubs
enables protein binding IPI
Inferred from Physical Interaction
more info
 PubMed 
enables thromboxane A2 receptor binding IBA
Inferred from Biological aspect of Ancestor
more info
  
Process Evidence Code Pubs
involved_in neural precursor cell proliferation IEA
Inferred from Electronic Annotation
more info
  
involved_in non-motile cilium assembly IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in response to stimulus IEA
Inferred from Electronic Annotation
more info
  
involved_in retinal rod cell development IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in visual perception IEA
Inferred from Electronic Annotation
more info
  
Component Evidence Code Pubs
located_in axoneme IEA
Inferred from Electronic Annotation
more info
  
located_in ciliary rootlet IEA
Inferred from Electronic Annotation
more info
  
is_active_in photoreceptor connecting cilium IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in photoreceptor connecting cilium ISS
Inferred from Sequence or Structural Similarity
more info
  
located_in photoreceptor distal connecting cilium IEA
Inferred from Electronic Annotation
more info
  

General protein information

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Preferred Names
X-linked retinitis pigmentosa GTPase regulator-interacting protein 1
Names
retinitis pigmentosa GTPase regulator interacting 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.

Genomic

  1. NG_008933.2 RefSeqGene

    Range
    5002..76220
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. NM_001377523.1 → NP_001364452.1  X-linked retinitis pigmentosa GTPase regulator-interacting protein 1 isoform 2

    Status: REVIEWED

    Source sequence(s)
    AL135744, BC039089
    Consensus CDS
    CCDS91848.1
    UniProtKB/TrEMBL
    B4DX25
    Related
    ENSP00000372391.4, ENST00000382933.8

  2. NM_001377948.1 → NP_001364877.1  X-linked retinitis pigmentosa GTPase regulator-interacting protein 1 isoform 3

    Status: REVIEWED

    Source sequence(s)
    AF260257, AL135744
    UniProtKB/TrEMBL
    G3V3I7
    Conserved Domains (4) summary
    cd00030
    Location:443 → 550
    C2; C2 domain
    COG1196
    Location:60 → 218
    Smc; Chromosome segregation ATPase [Cell cycle control, cell division, chromosome partitioning]
    pfam11618
    Location:261 → 398
    C2-C2_1; First C2 domain of RPGR-interacting protein 1
    pfam18111
    Location:756 → 921
    RPGR1_C; Retinitis pigmentosa G-protein regulator interacting C-terminal

  3. NM_001377949.1 → NP_001364878.1  X-linked retinitis pigmentosa GTPase regulator-interacting protein 1 isoform 4

    Status: REVIEWED

    Source sequence(s)
    AL135744
    UniProtKB/TrEMBL
    B4DX25
    Conserved Domains (1) summary
    pfam18111
    Location:476 → 641
    RPGR1_C; Retinitis pigmentosa G-protein regulator interacting C-terminal

  4. NM_001377950.1 → NP_001364879.1  X-linked retinitis pigmentosa GTPase regulator-interacting protein 1 isoform 5

    Status: REVIEWED

    Source sequence(s)
    AL135744
    UniProtKB/TrEMBL
    B4DX25
    Conserved Domains (1) summary
    pfam18111
    Location:440 → 605
    RPGR1_C; Retinitis pigmentosa G-protein regulator interacting C-terminal

  5. NM_001377951.1 → NP_001364880.1  X-linked retinitis pigmentosa GTPase regulator-interacting protein 1 isoform 6

    Status: REVIEWED

    Source sequence(s)
    AL135744
    Conserved Domains (1) summary
    pfam18111
    Location:275 → 440
    RPGR1_C; Retinitis pigmentosa G-protein regulator interacting C-terminal

  6. NM_020366.4 → NP_065099.3  X-linked retinitis pigmentosa GTPase regulator-interacting protein 1 isoform 1

    See identical proteins and their annotated locations for NP_065099.3

    Status: REVIEWED

    Source sequence(s)
    AL135744
    Consensus CDS
    CCDS45080.1
    UniProtKB/Swiss-Prot
    Q7Z2W6, Q8IXV5, Q96KN7, Q96QA8, Q9HB94, Q9HB95, Q9HBK6, Q9NR40
    UniProtKB/TrEMBL
    G3V3F7
    Related
    ENSP00000382895.2, ENST00000400017.7
    Conserved Domains (3) summary
    cd00030
    Location:801 → 908
    C2; C2 domain
    pfam11618
    Location:619 → 756
    C2-C2_1; First C2 domain of RPGR-interacting protein 1
    cl12057
    Location:321 → 382
    Seryl_tRNA_N; Seryl-tRNA synthetase N-terminal 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_000014.9 Reference GRCh38.p14 Primary Assembly

    Range
    21280083..21351301
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_005267879.2 → XP_005267936.1  X-linked retinitis pigmentosa GTPase regulator-interacting protein 1 isoform X1

    UniProtKB/TrEMBL
    G3V3I7
    Conserved Domains (2) summary
    cd00030
    Location:443 → 550
    C2; C2 domain
    pfam11618
    Location:261 → 398
    C2-C2_1; First C2 domain of RPGR-interacting protein 1

  2. XM_011536978.1 → XP_011535280.1  X-linked retinitis pigmentosa GTPase regulator-interacting protein 1 isoform X2

    UniProtKB/TrEMBL
    G3V3I7
    Conserved Domains (2) summary
    cd00030
    Location:443 → 550
    C2; C2 domain
    pfam11618
    Location:261 → 398
    C2-C2_1; First C2 domain of RPGR-interacting protein 1

  3. XM_024449663.1 → XP_024305431.1  X-linked retinitis pigmentosa GTPase regulator-interacting protein 1 isoform X3

    UniProtKB/TrEMBL
    G3V3I7
    Conserved Domains (3) summary
    cd00030
    Location:443 → 550
    C2; C2 domain
    pfam11618
    Location:261 → 398
    C2-C2_1; First C2 domain of RPGR-interacting protein 1
    cl25732
    Location:60 → 218
    SMC_N; RecF/RecN/SMC N terminal domain

  4. XM_011536981.1 → XP_011535283.1  X-linked retinitis pigmentosa GTPase regulator-interacting protein 1 isoform X6

    UniProtKB/TrEMBL
    B4DX25
    Conserved Domains (1) summary
    pfam11618
    Location:261 → 381
    C2-C2_1; First C2 domain of RPGR-interacting protein 1

  5. XM_017021473.2 → XP_016876962.1  X-linked retinitis pigmentosa GTPase regulator-interacting protein 1 isoform X7

    UniProtKB/TrEMBL
    B4DX25

  6. XM_024449664.1 → XP_024305432.1  X-linked retinitis pigmentosa GTPase regulator-interacting protein 1 isoform X8

    UniProtKB/TrEMBL
    B4DX25
    Conserved Domains (1) summary
    pfam11618
    Location:261 → 381
    C2-C2_1; First C2 domain of RPGR-interacting protein 1

  7. XM_011536979.1 → XP_011535281.1  X-linked retinitis pigmentosa GTPase regulator-interacting protein 1 isoform X5

    UniProtKB/TrEMBL
    G3V3I7
    Conserved Domains (2) summary
    cd00030
    Location:371 → 478
    C2; C2 domain
    cl14603
    Location:257 → 326
    C2; C2 domain

  8. XM_011536982.1 → XP_011535284.1  X-linked retinitis pigmentosa GTPase regulator-interacting protein 1 isoform X10

    UniProtKB/TrEMBL
    B4DX25

  9. XM_024449666.1 → XP_024305434.1  X-linked retinitis pigmentosa GTPase regulator-interacting protein 1 isoform X11

    UniProtKB/TrEMBL
    B4DX25

  10. XM_047431609.1 → XP_047287565.1  X-linked retinitis pigmentosa GTPase regulator-interacting protein 1 isoform X12

  11. XM_005267880.2 → XP_005267937.1  X-linked retinitis pigmentosa GTPase regulator-interacting protein 1 isoform X4

    UniProtKB/TrEMBL
    G3V3I7
    Conserved Domains (2) summary
    cd00030
    Location:432 → 539
    C2; C2 domain
    pfam11618
    Location:250 → 387
    C2-C2_1; First C2 domain of RPGR-interacting protein 1

  12. XM_005267881.3 → XP_005267938.1  X-linked retinitis pigmentosa GTPase regulator-interacting protein 1 isoform X9

    UniProtKB/TrEMBL
    G3V3I7
    Related
    ENSP00000451262.1, ENST00000555587.5
    Conserved Domains (2) summary
    cd00030
    Location:259 → 366
    C2; C2 domain
    pfam11618
    Location:77 → 214
    C2-C2_1; First C2 domain of RPGR-interacting protein 1

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060938.1 Alternate T2T-CHM13v2.0

    Range
    15477514..15548760
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_054376422.1 → XP_054232397.1  X-linked retinitis pigmentosa GTPase regulator-interacting protein 1 isoform X1

  2. XM_054376423.1 → XP_054232398.1  X-linked retinitis pigmentosa GTPase regulator-interacting protein 1 isoform X2

  3. XM_054376424.1 → XP_054232399.1  X-linked retinitis pigmentosa GTPase regulator-interacting protein 1 isoform X3

  4. XM_054376427.1 → XP_054232402.1  X-linked retinitis pigmentosa GTPase regulator-interacting protein 1 isoform X6

  5. XM_054376428.1 → XP_054232403.1  X-linked retinitis pigmentosa GTPase regulator-interacting protein 1 isoform X7

  6. XM_054376429.1 → XP_054232404.1  X-linked retinitis pigmentosa GTPase regulator-interacting protein 1 isoform X8

  7. XM_054376426.1 → XP_054232401.1  X-linked retinitis pigmentosa GTPase regulator-interacting protein 1 isoform X5

  8. XM_054376431.1 → XP_054232406.1  X-linked retinitis pigmentosa GTPase regulator-interacting protein 1 isoform X10

  9. XM_054376432.1 → XP_054232407.1  X-linked retinitis pigmentosa GTPase regulator-interacting protein 1 isoform X11

  10. XM_054376433.1 → XP_054232408.1  X-linked retinitis pigmentosa GTPase regulator-interacting protein 1 isoform X12

  11. XM_054376425.1 → XP_054232400.1  X-linked retinitis pigmentosa GTPase regulator-interacting protein 1 isoform X4

  12. XM_054376430.1 → XP_054232405.1  X-linked retinitis pigmentosa GTPase regulator-interacting protein 1 isoform X9

Nucleotide Protein
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q96KN7.2 GenPept UniProtKB/Swiss-Prot:Q96KN7

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