Rp1 RP1, axonemal microtubule associated [Rattus norvegicus (Norway rat)] - Gene

Summary

Symbol: Rp1provided by RGD
Full Name: RP1, axonemal microtubule associatedprovided by RGD
Primary source: RGD:1596713
See related: EnsemblRapid:ENSRNOG00000008807 AllianceGenome:RGD:1596713
Gene type: protein coding
RefSeq status: REVIEWED
Organism: Rattus norvegicus
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Also known as: Rp1h; RGD1560182
Summary: This gene encodes a member of the doublecortin family. The protein encoded by this gene contains two doublecortin domains, which bind microtubules and regulate microtubule polymerization. The encoded protein is a photoreceptor microtubule-associated protein and is required for correct stacking of outer segment disc. This protein and the RP1L1 protein, another retinal-specific protein, play essential and synergistic roles in affecting photosensitivity and outer segment morphogenesis of rod photoreceptors. Because of its response to in vivo retinal oxygen levels, this protein was initially named ORP1 (oxygen-regulated protein-1). This protein was subsequently designated RP1 (retinitis pigmentosa 1) when it was found that mutations in this gene cause autosomal dominant retinitis pigmentosa. Mutations in this gene also cause autosomal recessive retinitis pigmentosa. [provided by RefSeq, Sep 2010]
Expression: Biased expression in Heart (RPKM 71.7), Lung (RPKM 41.2) and 1 other tissue See more
Orthologs: human mouse all
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Genomic context

Location:: 5q12

Exon count:: 35

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	5	NC_086023.1 (19918728..20380811)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	5	NC_051340.1 (15121104..15582363)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	5	NC_005104.4 (15005028..15060508)

Chromosome 5 - NC_086023.1 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

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See details

Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
BioProject: PRJNA238328
Publication: PMID 24510058
Analysis date: Mon Jun 6 17:44:12 2016

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

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General gene information

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Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables microtubule binding	ISO Inferred from Sequence Orthology more info

Process	Evidence Code	Pubs
involved_in axoneme assembly	IBA Inferred from Biological aspect of Ancestor more info
involved_in axoneme assembly	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within cellular response to light stimulus	ISO Inferred from Sequence Orthology more info
involved_in intracellular signal transduction	IEA Inferred from Electronic Annotation more info
involved_in photoreceptor cell development	IBA Inferred from Biological aspect of Ancestor more info
involved_in photoreceptor cell development	ISO Inferred from Sequence Orthology more info
involved_in photoreceptor cell maintenance	ISO Inferred from Sequence Orthology more info
involved_in photoreceptor cell outer segment organization	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within positive regulation of non-motile cilium assembly	ISO Inferred from Sequence Orthology more info
involved_in retina development in camera-type eye	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within retina development in camera-type eye	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within retina morphogenesis in camera-type eye	ISO Inferred from Sequence Orthology more info
involved_in retinal cone cell development	ISO Inferred from Sequence Orthology more info
involved_in retinal rod cell development	ISO Inferred from Sequence Orthology more info
involved_in visual perception	IEA Inferred from Electronic Annotation more info

Component	Evidence Code	Pubs
is_active_in axoneme	IBA Inferred from Biological aspect of Ancestor more info
located_in axoneme	ISO Inferred from Sequence Orthology more info
located_in ciliary tip	ISO Inferred from Sequence Orthology more info
located_in cilium	ISO Inferred from Sequence Orthology more info
part_of microtubule associated complex	ISO Inferred from Sequence Orthology more info
located_in photoreceptor cell cilium	ISO Inferred from Sequence Orthology more info
located_in photoreceptor connecting cilium	ISO Inferred from Sequence Orthology more info
located_in photoreceptor inner segment	ISO Inferred from Sequence Orthology more info
located_in photoreceptor outer segment	ISO Inferred from Sequence Orthology more info

General protein information

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Preferred Names: oxygen-regulated protein 1

Names: lipoxygenase homology domain-containing protein 1; rCG30348-like; retinitis pigmentosa 1 (autosomal dominant); retinitis pigmentosa 1 homolog

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)

NM_001195676.2 → NP_001182605.1 oxygen-regulated protein 1

See identical proteins and their annotated locations for NP_001182605.1

Status: REVIEWED

Source sequence(s)

JAXUCZ010000005

UniProtKB/TrEMBL

A6JFK0, D4ABP8

Related

ENSRNOP00000040735.4, ENSRNOT00000047093.6

Conserved Domains (2) summary

cd01617
Location:35 → 110

DCX; Ubiquitin-like domain of DCX

pfam14925
Location:1462 → 1692

HPHLAWLY; Domain of unknown function

RefSeqs of Annotated Genomes: GCF_036323735.1-RS_2024_02

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCr8

Genomic

NC_086023.1 Reference GRCr8

Range

19918728..20380811

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_008763558.3 → XP_008761780.1 oxygen-regulated protein 1 isoform X1

Conserved Domains (1) summary

cd01617
Location:60 → 135

DCX; Ubiquitin-like domain of DCX
XM_017593623.2 → XP_017449112.1 oxygen-regulated protein 1 isoform X2
XM_063288395.1 → XP_063144465.1 oxygen-regulated protein 1 isoform X5

UniProtKB/TrEMBL

A0A8I6GLB3

Related

ENSRNOP00000094773.1, ENSRNOT00000108094.2
XM_063288397.1 → XP_063144467.1 oxygen-regulated protein 1 isoform X8
XM_063288399.1 → XP_063144469.1 oxygen-regulated protein 1 isoform X11
XM_039110769.2 → XP_038966697.1 oxygen-regulated protein 1 isoform X3

Conserved Domains (5) summary

cd01756
Location:420 → 538

PLAT_repeat; PLAT/LH2 domain repeats of family of proteins with unknown function. In general, PLAT/LH2 consists of an eight stranded beta-barrel and it's proposed function is to mediate interaction with lipids or membrane bound proteins.

cd17145
Location:60 → 138

DCX1_RP1; Doublecortin-like domain 1 found in retinitis pigmentosa 1 (RP1)-like protein

cd17147
Location:182 → 257

DCX2_RP1; Dublecortin-like domain 2 found in retinitis pigmentosa 1 (RP1)-like protein

cl00011
Location:1141 → 1255

PLAT; PLAT (Polycystin-1, Lipoxygenase, Alpha-Toxin) domain or LH2 (Lipoxygenase homology 2) domain. It consists of an eight stranded beta-barrel. The domain can be found in various domain architectures, in case of lipoxygenases, alpha toxin, lipases and ...

cl23781
Location:578 → 685

Fascin; Fascin-like domain; members include actin-bundling/crosslinking proteins facsin, histoactophilin and singed; identified in sea urchin, Drosophila, Xenopus, rodents, and humans; The fascin-like domain adopts a beta-trefoil topology and contains an ...
XM_039110770.2 → XP_038966698.1 oxygen-regulated protein 1 isoform X4

Conserved Domains (5) summary

cd01756
Location:420 → 538

PLAT_repeat; PLAT/LH2 domain repeats of family of proteins with unknown function. In general, PLAT/LH2 consists of an eight stranded beta-barrel and it's proposed function is to mediate interaction with lipids or membrane bound proteins.

cd17145
Location:60 → 138

DCX1_RP1; Doublecortin-like domain 1 found in retinitis pigmentosa 1 (RP1)-like protein

cd17147
Location:182 → 257

DCX2_RP1; Dublecortin-like domain 2 found in retinitis pigmentosa 1 (RP1)-like protein

cl00011
Location:1140 → 1254

PLAT; PLAT (Polycystin-1, Lipoxygenase, Alpha-Toxin) domain or LH2 (Lipoxygenase homology 2) domain. It consists of an eight stranded beta-barrel. The domain can be found in various domain architectures, in case of lipoxygenases, alpha toxin, lipases and ...

cl23781
Location:578 → 685

Fascin; Fascin-like domain; members include actin-bundling/crosslinking proteins facsin, histoactophilin and singed; identified in sea urchin, Drosophila, Xenopus, rodents, and humans; The fascin-like domain adopts a beta-trefoil topology and contains an ...
XM_063288396.1 → XP_063144466.1 oxygen-regulated protein 1 isoform X6
XM_063288398.1 → XP_063144468.1 oxygen-regulated protein 1 isoform X9
XM_039110772.2 → XP_038966700.1 oxygen-regulated protein 1 isoform X10

Conserved Domains (5) summary

cd01756
Location:420 → 538

PLAT_repeat; PLAT/LH2 domain repeats of family of proteins with unknown function. In general, PLAT/LH2 consists of an eight stranded beta-barrel and it's proposed function is to mediate interaction with lipids or membrane bound proteins.

cd17147
Location:182 → 257

DCX2_RP1; Dublecortin-like domain 2 found in retinitis pigmentosa 1 (RP1)-like protein

cl00011
Location:293 → 408

PLAT; PLAT (Polycystin-1, Lipoxygenase, Alpha-Toxin) domain or LH2 (Lipoxygenase homology 2) domain. It consists of an eight stranded beta-barrel. The domain can be found in various domain architectures, in case of lipoxygenases, alpha toxin, lipases and ...

cl23781
Location:578 → 685

Fascin; Fascin-like domain; members include actin-bundling/crosslinking proteins facsin, histoactophilin and singed; identified in sea urchin, Drosophila, Xenopus, rodents, and humans; The fascin-like domain adopts a beta-trefoil topology and contains an ...

cl28922
Location:60 → 138

Ubiquitin_like_fold; Beta-grasp ubiquitin-like fold
XM_039110771.2 → XP_038966699.1 oxygen-regulated protein 1 isoform X7

Conserved Domains (5) summary

cd01756
Location:420 → 538

PLAT_repeat; PLAT/LH2 domain repeats of family of proteins with unknown function. In general, PLAT/LH2 consists of an eight stranded beta-barrel and it's proposed function is to mediate interaction with lipids or membrane bound proteins.

cd17145
Location:60 → 138

DCX1_RP1; Doublecortin-like domain 1 found in retinitis pigmentosa 1 (RP1)-like protein

cd17147
Location:182 → 257

DCX2_RP1; Dublecortin-like domain 2 found in retinitis pigmentosa 1 (RP1)-like protein

cl00011
Location:293 → 408

PLAT; PLAT (Polycystin-1, Lipoxygenase, Alpha-Toxin) domain or LH2 (Lipoxygenase homology 2) domain. It consists of an eight stranded beta-barrel. The domain can be found in various domain architectures, in case of lipoxygenases, alpha toxin, lipases and ...

cl23781
Location:578 → 685

Fascin; Fascin-like domain; members include actin-bundling/crosslinking proteins facsin, histoactophilin and singed; identified in sea urchin, Drosophila, Xenopus, rodents, and humans; The fascin-like domain adopts a beta-trefoil topology and contains an ...