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Aliases for RP1L1 Gene

Aliases for RP1L1 Gene

  • Retinitis Pigmentosa 1-Like 1 2 3
  • DCDC4B 3

External Ids for RP1L1 Gene

Previous GeneCards Identifiers for RP1L1 Gene

  • GC00U991063
  • GC08U900030
  • GC08M010335
  • GC08M010501
  • GC08M009394

Summaries for RP1L1 Gene

Entrez Gene Summary for RP1L1 Gene

  • This gene encodes a member of the doublecortin family. The protein encoded by this gene contains two N-terminal doublecortin domains, which bind microtubules and regulate microtubule polymerization, and two C-terminal large repetitive regions, both of which contain a high percentage of glutamine and glutamic acid residues. This protein is a retinal-specific protein. Its exact length varies among individuals due to the presence of a 16aa repeat in the first C-terminal repetitive region. The 16aa repeat is encoded by the highly polymorphic 48-bp repeat, and 1-6 copies of the 16aa repeat have been identified in normal individuals. The current reference sequence shown here has a single copy of the 16aa repeat. This protein and the RP1 protein, another retinal-specific protein, play essential and synergistic roles in affecting photosensitivity and outer segment morphogenesis of rod photoreceptors. Mutations in this gene cause occult macular dystrophy (OMD). [provided by RefSeq, Sep 2010]

GeneCards Summary for RP1L1 Gene

RP1L1 (Retinitis Pigmentosa 1-Like 1) is a Protein Coding gene. Diseases associated with RP1L1 include occult macular dystrophy and retinitis pigmentosa 1. An important paralog of this gene is RP1.

UniProtKB/Swiss-Prot for RP1L1 Gene

  • Required for the differentiation of photoreceptor cells. Plays a role in the organization of outer segment of rod and cone photoreceptors (By similarity).

No data available for Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for RP1L1 Gene

Genomics for RP1L1 Gene

Regulatory Elements for RP1L1 Gene

Genomic Location for RP1L1 Gene

10,606,349 bp from pter
10,712,187 bp from pter
105,839 bases
Minus strand

Genomic View for RP1L1 Gene

UCSC Golden Path with GeneCards custom track
Cytogenetic band:
Genomic Location for RP1L1 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for RP1L1 Gene

Proteins for RP1L1 Gene

  • Protein details for RP1L1 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Recommended name:
    Retinitis pigmentosa 1-like 1 protein
    Protein Accession:
    Secondary Accessions:
    • Q86SQ1
    • Q8IWN8
    • Q8IWN9
    • Q8IWP0
    • Q8IWP1
    • Q8IWP2

    Protein attributes for RP1L1 Gene

    2480 amino acids
    Molecular mass:
    261207 Da
    Quaternary structure:
    • Interacts with RP1; has a synergistic effect with RP1 in photoreceptor differentiation.

    Alternative splice isoforms for RP1L1 Gene


neXtProt entry for RP1L1 Gene

Proteomics data for RP1L1 Gene at MOPED

Post-translational modifications for RP1L1 Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

Other Protein References for RP1L1 Gene

ENSEMBL proteins:
REFSEQ proteins:

No data available for DME Specific Peptides for RP1L1 Gene

Domains & Families for RP1L1 Gene

Protein Domains for RP1L1 Gene


Suggested Antigen Peptide Sequences for RP1L1 Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry



  • The C-terminal part contains a large repetitive region which contains an unusually high percentage of glutamine, glycine and above all glutamic acid residues
  • The C-terminal part contains a large repetitive region which contains an unusually high percentage of glutamine, glycine and above all glutamic acid residues
  • Contains 2 doublecortin domains.
genes like me logo Genes that share domains with RP1L1: view

No data available for Gene Families for RP1L1 Gene

Function for RP1L1 Gene

Molecular function for RP1L1 Gene

UniProtKB/Swiss-Prot Function:
Required for the differentiation of photoreceptor cells. Plays a role in the organization of outer segment of rod and cone photoreceptors (By similarity).

Phenotypes for RP1L1 Gene

MGI mutant phenotypes for RP1L1:
inferred from 1 alleles
GenomeRNAi human phenotypes for RP1L1:
genes like me logo Genes that share phenotypes with RP1L1: view

Animal Models for RP1L1 Gene

MGI Knock Outs for RP1L1:

Animal Model Products

CRISPR Products

No data available for Enzyme Numbers (IUBMB) , Gene Ontology (GO) - Molecular Function , Transcription Factor Targets and HOMER Transcription for RP1L1 Gene

Localization for RP1L1 Gene

Subcellular locations from UniProtKB/Swiss-Prot for RP1L1 Gene

Cytoplasm, cytoskeleton, cilium axoneme. Cell projection, cilium, photoreceptor outer segment. Note=Localized to the axoneme of outer segments and connecting cilia in rod photoreceptors. {ECO:0000250}.

Subcellular locations from

Jensen Localization Image for RP1L1 Gene COMPARTMENTS Subcellular localization image for RP1L1 gene
Compartment Confidence
extracellular 5
cytoskeleton 3

Gene Ontology (GO) - Cellular Components for RP1L1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0001750 photoreceptor outer segment ISS --
GO:0005874 microtubule IEA --
GO:0005930 axoneme ISS --
GO:0032391 photoreceptor connecting cilium ISS --
GO:0070062 extracellular exosome IDA 23376485
genes like me logo Genes that share ontologies with RP1L1: view

Pathways & Interactions for RP1L1 Gene

SuperPathways for RP1L1 Gene

No Data Available

Gene Ontology (GO) - Biological Process for RP1L1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0007601 visual perception IEA --
GO:0030030 cell projection organization IEA --
GO:0035082 axoneme assembly --
GO:0035556 intracellular signal transduction IEA --
GO:0042461 photoreceptor cell development ISS --
genes like me logo Genes that share ontologies with RP1L1: view

No data available for Pathways by source and SIGNOR curated interactions for RP1L1 Gene

Drugs & Compounds for RP1L1 Gene

No Compound Related Data Available

Transcripts for RP1L1 Gene

mRNA/cDNA for RP1L1 Gene

(1) REFSEQ mRNAs :
(7) Additional mRNA sequences :
(29) Selected AceView cDNA sequences:
(2) Ensembl transcripts including schematic representations, and UCSC links where relevant :

Unigene Clusters for RP1L1 Gene

Retinitis pigmentosa 1-like 1:
Representative Sequences:

CRISPR Products

miRNA Products

Inhibitory RNA Products

  • Predesigned siRNA for gene silencing in human,mouse,rat for RP1L1

Flow Cytometry Products

Alternative Splicing Database (ASD) splice patterns (SP) for RP1L1 Gene

No ASD Table

Relevant External Links for RP1L1 Gene

GeneLoc Exon Structure for
ECgene alternative splicing isoforms for

Expression for RP1L1 Gene

mRNA expression in normal human tissues for RP1L1 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

mRNA differential expression in normal tissues according to GTEx for RP1L1 Gene

This gene is overexpressed in Skin - Sun Exposed (Lower leg) (x5.5) and Skin - Not Sun Exposed (Suprapubic) (x4.2).

Protein differential expression in normal tissues from HIPED for RP1L1 Gene

This gene is overexpressed in CD4 Tcells (21.4), Retina (16.3), Fetal Brain (14.2), and Heart (6.9).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, and MOPED for RP1L1 Gene

SOURCE GeneReport for Unigene cluster for RP1L1 Gene Hs.33538

mRNA Expression by UniProt/SwissProt for RP1L1 Gene

Tissue specificity: Retinal-specific; expressed in photoreceptor
genes like me logo Genes that share expression patterns with RP1L1: view

Protein tissue co-expression partners for RP1L1 Gene

Primer Products

  • QuantiTect SYBR Green Assays in human,mouse,rat
  • Pre-validated RT² qPCR Primer Assay in human,mouse,rat
  • QuantiFast Probe-based Assays in human,mouse,rat

In Situ Assay Products

Orthologs for RP1L1 Gene

This gene was present in the common ancestor of animals.

Orthologs for RP1L1 Gene

Organism Taxonomy Gene Similarity Type Details
(Bos Taurus)
Mammalia RP1L1 35
  • 68.84 (n)
  • 53.94 (a)
RP1L1 36
  • 42 (a)
(Canis familiaris)
Mammalia RP1L1 35
  • 70.13 (n)
  • 55.93 (a)
RP1L1 36
  • 50 (a)
(Mus musculus)
Mammalia Rp1l1 35
  • 64.05 (n)
  • 49.28 (a)
Rp1l1 16
Rp1l1 36
  • 45 (a)
(Pan troglodytes)
Mammalia RP1L1 35
  • 95.06 (n)
  • 92.33 (a)
RP1L1 36
  • 94 (a)
(Rattus norvegicus)
Mammalia LOC683404 35
  • 64.24 (n)
  • 50.19 (a)
(Monodelphis domestica)
Mammalia RP1L1 36
  • 40 (a)
(Gallus gallus)
Aves RP1L1 36
  • 27 (a)
(Anolis carolinensis)
Reptilia RP1L1 36
  • 25 (a)
(Danio rerio)
Actinopterygii rp1l1 36
  • 15 (a)
RP1L1 (1 of 2) 36
  • 10 (a)
(Caenorhabditis elegans)
Secernentea F27C1.13 36
  • 28 (a)
Species with no ortholog for RP1L1:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African clawed frog (Xenopus laevis)
  • African malaria mosquito (Anopheles gambiae)
  • Alicante grape (Vitis vinifera)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • baker's yeast (Saccharomyces cerevisiae)
  • barley (Hordeum vulgare)
  • beta proteobacteria (Neisseria meningitidis)
  • bread mold (Neurospora crassa)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • corn (Zea mays)
  • E. coli (Escherichia coli)
  • filamentous fungi (Aspergillus nidulans)
  • Firmicute bacteria (Streptococcus pneumoniae)
  • fission yeast (Schizosaccharomyces pombe)
  • fruit fly (Drosophila melanogaster)
  • green algae (Chlamydomonas reinhardtii)
  • honey bee (Apis mellifera)
  • K. lactis yeast (Kluyveromyces lactis)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • platypus (Ornithorhynchus anatinus)
  • rainbow trout (Oncorhynchus mykiss)
  • rice (Oryza sativa)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea squirt (Ciona intestinalis)
  • sea squirt (Ciona savignyi)
  • sea urchin (Strongylocentrotus purpuratus)
  • sorghum (Sorghum bicolor)
  • soybean (Glycine max)
  • stem rust fungus (Puccinia graminis)
  • sugarcane (Saccharum officinarum)
  • thale cress (Arabidopsis thaliana)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • tropical clawed frog (Silurana tropicalis)
  • wheat (Triticum aestivum)

Evolution for RP1L1 Gene

Gene Tree for RP1L1 (if available)
Gene Tree for RP1L1 (if available)

Paralogs for RP1L1 Gene

Paralogs for RP1L1 Gene

genes like me logo Genes that share paralogs with RP1L1: view

Variants for RP1L1 Gene

Polymorphic Variants from UniProtKB/Swiss-Prot for RP1L1 Gene

The exact length of RP1L1 is variable between individuals due to the presence of several length polymorphisms. The sequence shown here is that of allele RP1L1-6 and includes 8 repeats (from aa 1292-1422) with a length of 16 amino acids. The number of repeats is highly polymorphic and varies among different alleles, ranging from 3 to 8

Sequence variations from dbSNP and Humsavar for RP1L1 Gene

SNP ID Clin Chr 08 pos Sequence Context AA Info Type MAF
rs3924612 -- 10,634,025(+) ATCCC(C/G)AGCTG intron-variant
rs4240659 - 10,610,127(+) TAGTT(C/T)CCTCT reference, missense
rs4240660 -- 10,622,138(+) CCAAC(A/G)TGGAG intron-variant
rs4240661 -- 10,633,946(+) ACTGC(C/T)GACAC intron-variant
rs4240662 -- 10,639,973(+) GCAAT(C/T)TATTT intron-variant

Structural Variations from Database of Genomic Variants (DGV) for RP1L1 Gene

Variant ID Type Subtype PubMed ID
nsv890351 CNV Loss 21882294
nsv890352 CNV Loss 21882294
nsv527445 CNV Loss 19592680
nsv824532 CNV Gain 20364138
esv2669109 CNV Deletion 23128226
esv997256 CNV Insertion 20482838
esv1658461 CNV Insertion 17803354
nsv523113 CNV Loss 19592680

Variation tolerance for RP1L1 Gene

Residual Variation Intolerance Score: 99.92% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 29.90; 99.90% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for RP1L1 Gene

HapMap Linkage Disequilibrium report
Human Gene Mutation Database (HGMD)

Disorders for RP1L1 Gene

MalaCards: The human disease database

(5) MalaCards diseases for RP1L1 Gene - From: OMIM, ClinVar, GeneTests, Orphanet, Swiss-Prot, DISEASES, and GeneCards

- elite association
Search RP1L1 in MalaCards View complete list of genes associated with diseases


  • Occult macular dystrophy (OCMD) [MIM:613587]: An inherited macular dystrophy characterized by progressive loss of macular function but normal ophthalmoscopic appearance. It is typically characterized by a central cone dysfunction leading to a loss of vision despite normal ophthalmoscopic appearance, normal fluorescein angiography, and normal full-field electroretinogram (ERGs), but the amplitudes of the focal macular ERGs and multifocal ERGs are significantly reduced at the central retina. {ECO:0000269 PubMed:20826268, ECO:0000269 PubMed:22605915}. Note=The disease is caused by mutations affecting the gene represented in this entry.

Relevant External Links for RP1L1

Atlas of Genetics and Cytogenetics in Oncology and Haematology:
genes like me logo Genes that share disorders with RP1L1: view

No data available for Genatlas for RP1L1 Gene

Publications for RP1L1 Gene

  1. Identification and characterization of the retinitis pigmentosa 1- like1 gene (rp1l1): a novel candidate for retinal degenerations. (PMID: 12634863) Conte I. … Banfi S. (Eur. J. Hum. Genet. 2003) 2 23 67
  2. Characterization of RP1L1, a highly polymorphic paralog of the retinitis pigmentosa 1 (RP1) gene. (PMID: 12724644) Bowne S.J. … Sullivan L.S. (Mol. Vis. 2003) 23 67
  3. Transcriptional regulatory network of SOX4 during myoblast differentiation. (PMID: 25969425) Jang S.M. … Choi K.H. (Biochem. Biophys. Res. Commun. 2015) 67
  4. Occult macular dystrophy with bilateral chronic subfoveal serous retinal detachment associated with a novel RP1L1 mutation (p.S1199P). (PMID: 24838559) Takahashi H. … Kawashima H. (Doc Ophthalmol 2014) 67
  5. Clinical and genetic characteristics of Korean occult macular dystrophy patients. (PMID: 23745001) Ahn S.J. … Woo S.J. (Invest. Ophthalmol. Vis. Sci. 2013) 67

Products for RP1L1 Gene

Sources for RP1L1 Gene

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