RP1 (RP1 axonemal microtubule associated) - Rat Genome Database

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Gene: RP1 (RP1 axonemal microtubule associated) Canis lupus familiaris
Analyze
Symbol: RP1
Name: RP1 axonemal microtubule associated
RGD ID: 12117771
Description: ENCODES a protein that exhibits microtubule binding (ortholog); INVOLVED IN axoneme assembly (ortholog); cellular response to light stimulus (ortholog); photoreceptor cell development (ortholog); PARTICIPATES IN retinitis pigmentosa pathway; ASSOCIATED WITH breast ductal carcinoma (ortholog); fundus dystrophy (ortholog); genetic disease (ortholog); FOUND IN microtubule associated complex (ortholog); photoreceptor outer segment (ortholog)
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: oxygen-regulated protein 1; retinitis pigmentosa 1 (autosomal dominant); retinitis pigmentosa 1 protein; retinitis pigmentosa RP1 protein homolog; RP1, axonemal microtubule associated
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Bonobo
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: CanFam3.1 - Dog CanFam3.1 Assembly
Position:
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1296,079,519 - 6,136,009 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl296,079,377 - 6,136,009 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha296,435,871 - 6,446,199 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0296,193,857 - 6,204,194 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl296,147,680 - 6,204,194 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1296,139,004 - 6,149,329 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0296,345,098 - 6,355,440 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0296,523,726 - 6,534,052 (+)NCBIUU_Cfam_GSD_1.0
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

Molecular Function

Molecular Pathway Annotations     Click to see Annotation Detail View
References
Additional References at PubMed
PMID:22301074   PMID:30032202  


Genomics

Comparative Map Data
RP1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1296,079,519 - 6,136,009 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl296,079,377 - 6,136,009 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha296,435,871 - 6,446,199 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0296,193,857 - 6,204,194 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl296,147,680 - 6,204,194 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1296,139,004 - 6,149,329 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0296,345,098 - 6,355,440 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0296,523,726 - 6,534,052 (+)NCBIUU_Cfam_GSD_1.0
RP1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38854,559,185 - 54,871,234 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl854,509,422 - 54,871,720 (+)EnsemblGRCh38hg38GRCh38
GRCh37855,471,745 - 55,783,794 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36855,691,180 - 55,705,947 (+)NCBINCBI36Build 36hg18NCBI36
Build 34855,691,179 - 55,705,947NCBI
Celera851,519,220 - 51,533,987 (+)NCBICelera
Cytogenetic Map8q11.23-q12.1NCBI
HuRef850,996,864 - 51,011,630 (+)NCBIHuRef
CHM1_1855,580,233 - 55,594,998 (+)NCBICHM1_1
T2T-CHM13v2.0854,886,748 - 55,248,781 (+)NCBIT2T-CHM13v2.0
Rp1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm3914,185,896 - 4,479,508 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl14,069,780 - 4,479,464 (-)EnsemblGRCm39 Ensembl
GRCm3814,115,673 - 4,409,266 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl13,999,557 - 4,409,241 (-)EnsemblGRCm38mm10GRCm38
MGSCv3714,334,224 - 4,350,473 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv3614,334,224 - 4,350,473 (-)NCBIMGSCv36mm8
Celera14,363,200 - 4,379,450 (-)NCBICelera
Cytogenetic Map1A1NCBI
cM Map11.65NCBI
Rp1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8519,918,728 - 20,380,811 (+)NCBIGRCr8
mRatBN7.2515,121,104 - 15,582,363 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl515,121,133 - 15,579,363 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx517,359,324 - 17,375,651 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0518,956,553 - 18,972,879 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0518,693,943 - 18,710,270 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0515,005,028 - 15,060,508 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl515,043,955 - 15,060,508 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0519,789,094 - 19,844,587 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4515,393,101 - 15,401,890 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera514,541,674 - 14,558,002 (+)NCBICelera
Cytogenetic Map5q12NCBI
Rp1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0NW_00495545413,781,556 - 14,082,310 (+)NCBIChiLan1.0ChiLan1.0
RP1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2770,191,285 - 70,524,500 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1845,916,098 - 46,248,935 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0850,979,412 - 51,311,431 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1848,454,096 - 48,617,283 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl848,419,033 - 48,583,879 (+)Ensemblpanpan1.1panPan2
PanPan1.1 Ensembl848,419,033 - 48,583,879 (+)NCBIpanpan1.1panPan2
Rp1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440530373,123,919 - 73,388,680 (-)NCBIHiC_Itri_2
SpeTri2.0NW_0049364961,524,123 - 1,583,114 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
RP1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl476,724,604 - 76,734,610 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1476,724,604 - 76,730,264 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
RP1
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1850,743,699 - 50,837,089 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl850,627,957 - 50,685,911 (+)NCBIChlSab1.1ChlSab1.1 EnsemblchlSab2
ChlSab1.1 Ensembl850,627,957 - 50,685,911 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366603990,878,192 - 91,240,016 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Rp1
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046247351,093,929 - 1,179,265 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046247351,129,333 - 1,179,387 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in RP1
584 total Variants

Expression


RNA-SEQ Expression
High: > 1000 TPM value   Medium: Between 11 and 1000 TPM
Low: Between 0.5 and 10 TPM   Below Cutoff: < 0.5 TPM

alimentary part of gastrointestinal system circulatory system endocrine system exocrine system hemolymphoid system hepatobiliary system integumental system musculoskeletal system nervous system reproductive system respiratory system adipose tissue
High
Medium
Low 1 8 5
Below cutoff 5 5 21 6 6 6 6 6 12 5 6

Sequence


Reference Sequences
RefSeq Acc Id: ENSCAFT00000011204   ⟹   ENSCAFP00000010380
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
CanFam3.1 Ensembl296,079,377 - 6,136,009 (+)Ensembl
RefSeq Acc Id: ENSCAFT00845046157   ⟹   ENSCAFP00845036243
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
ROS_Cfam_1.0 Ensembl296,147,680 - 6,204,194 (+)Ensembl
RefSeq Acc Id: NM_001003040   ⟹   NP_001003040
RefSeq Status: VALIDATED
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
CanFam3.1296,125,680 - 6,136,009 (+)NCBI
Dog10K_Boxer_Tasha296,435,871 - 6,446,199 (+)NCBI
ROS_Cfam_1.0296,193,857 - 6,204,194 (+)NCBI
UMICH_Zoey_3.1296,139,004 - 6,149,329 (+)NCBI
UNSW_CanFamBas_1.0296,345,098 - 6,355,440 (+)NCBI
UU_Cfam_GSD_1.0296,523,726 - 6,534,052 (+)NCBI
Sequence:
Protein Sequences
Protein RefSeqs NP_001003040 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAK58443 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSCAFP00000010380.3
  ENSCAFP00030031770.1
  ENSCAFP00040041095.1
  ENSCAFP00845036243
  ENSCAFP00845036243.1
GenBank Protein Q8MJ04 (Get FASTA)   NCBI Sequence Viewer  
Reference Protein Sequences
RefSeq Acc Id: NP_001003040   ⟸   NM_001003040
- UniProtKB: A0A8C0NVY5 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSCAFP00000010380   ⟸   ENSCAFT00000011204
RefSeq Acc Id: ENSCAFP00845036243   ⟸   ENSCAFT00845046157
Protein Domains
Doublecortin


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSCAFG00000006995 Ensembl, UniProtKB/TrEMBL
  ENSCAFG00030019815 UniProtKB/TrEMBL
  ENSCAFG00040025260 UniProtKB/TrEMBL
  ENSCAFG00845026159 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSCAFT00000011204.4 UniProtKB/TrEMBL
  ENSCAFT00030036420.1 UniProtKB/TrEMBL
  ENSCAFT00040047079.1 UniProtKB/TrEMBL
  ENSCAFT00845046157 ENTREZGENE
  ENSCAFT00845046157.1 UniProtKB/TrEMBL
Gene3D-CATH 3.10.20.230 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
InterPro Doublecortin_dom UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Doublecortin_dom_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  RP1/RP1L1/DCX UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report cfa:403565 UniProtKB/TrEMBL
NCBI Gene RP1 ENTREZGENE
PANTHER OXYGEN-REGULATED PROTEIN 1 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PTHR23005 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam DCX UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PROSITE PS50309 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
SMART DCX UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP SSF89837 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt A0A8C0NVY5 ENTREZGENE, UniProtKB/TrEMBL
  A0A8C0TTK9_CANLF UniProtKB/TrEMBL
  A0A8I3PSY3_CANLF UniProtKB/TrEMBL
  A0A8P0SCB4_CANLF UniProtKB/TrEMBL
  Q8MJ04 ENTREZGENE, UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2019-01-29 RP1  RP1 axonemal microtubule associated    RP1, axonemal microtubule associated  Symbol and/or name change 5135510 APPROVED