Cimip1 (ciliary microtubule inner protein 1) - Rat Genome Database

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Gene: Cimip1 (ciliary microtubule inner protein 1) Rattus norvegicus
Analyze
Symbol: Cimip1
Name: ciliary microtubule inner protein 1
RGD ID: 1589960
Description: Predicted to be located in cilium. Orthologous to human CIMIP1 (ciliary microtubule inner protein 1); INTERACTS WITH bisphenol A; benzo[a]pyrene (ortholog); methotrexate (ortholog).
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: C3h20orf85; hypothetical protein LOC689618; LOC689618; similar to human chromosome 20 open reading frame 85; similar to Protein C20orf85 homolog; uncharacterized protein C20orf85 homolog; uncharacterized protein LOC689618
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Black Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr83182,733,242 - 182,740,733 (+)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl3182,733,885 - 182,740,732 (+)EnsemblGRCr8
mRatBN7.23162,315,542 - 162,322,456 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl3162,315,622 - 162,322,455 (+)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx3166,114,698 - 166,121,529 (+)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.03174,618,539 - 174,625,370 (+)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.03172,355,492 - 172,362,323 (+)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.03171,597,319 - 171,604,094 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl3171,597,241 - 171,604,143 (+)Ensemblrn6Rnor6.0
Rnor_5.03177,658,756 - 177,665,531 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.43164,407,395 - 164,414,314 (+)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera3161,501,291 - 161,508,086 (+)NCBICelera
Cytogenetic Map3q42NCBI
JBrowse:




Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component
cilium  (IEA,ISO)

Molecular Function

References

References - curated
# Reference Title Reference Citation
1. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions

Genomics

Comparative Map Data
Cimip1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr83182,733,242 - 182,740,733 (+)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl3182,733,885 - 182,740,732 (+)EnsemblGRCr8
mRatBN7.23162,315,542 - 162,322,456 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl3162,315,622 - 162,322,455 (+)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx3166,114,698 - 166,121,529 (+)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.03174,618,539 - 174,625,370 (+)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.03172,355,492 - 172,362,323 (+)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.03171,597,319 - 171,604,094 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl3171,597,241 - 171,604,143 (+)Ensemblrn6Rnor6.0
Rnor_5.03177,658,756 - 177,665,531 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.43164,407,395 - 164,414,314 (+)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera3161,501,291 - 161,508,086 (+)NCBICelera
Cytogenetic Map3q42NCBI
CIMIP1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh382058,150,902 - 58,161,150 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl2058,150,902 - 58,161,150 (+)Ensemblhg38GRCh38
GRCh372056,725,958 - 56,736,206 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 362056,159,389 - 56,169,592 (+)NCBIBuild 36Build 36hg18NCBI36
Build 342056,159,388 - 56,169,587NCBI
Celera2053,466,441 - 53,476,642 (+)NCBICelera
Cytogenetic Map20q13.32NCBI
HuRef2053,508,254 - 53,518,458 (+)NCBIHuRef
CHM1_12056,627,541 - 56,637,743 (+)NCBICHM1_1
T2T-CHM13v2.02059,930,302 - 59,940,549 (+)NCBIT2T-CHM13v2.0
Cimip1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm392173,364,385 - 173,370,295 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl2173,364,379 - 173,370,294 (+)EnsemblGRCm39 EnsemblGRCm39
GRCm382173,522,592 - 173,528,502 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl2173,522,586 - 173,528,501 (+)Ensemblmm10GRCm38
MGSCv372173,348,093 - 173,354,003 (+)NCBIMGSCv37MGSCv37mm9NCBIm37
MGSCv362173,165,537 - 173,171,440 (+)NCBIMGSCv36mm8
Celera2179,488,998 - 179,495,238 (+)NCBICelera
Cytogenetic Map2H4NCBI
cM Map296.88NCBI
Cimip1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554451,357,173 - 1,370,771 (-)Ensembl
ChiLan1.0NW_0049554451,360,659 - 1,370,748 (-)NCBIChiLan1.0ChiLan1.0
CIMIP1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v22163,900,612 - 63,919,664 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan12063,893,731 - 63,909,576 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v02054,494,076 - 54,504,703 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.12055,770,571 - 55,780,802 (+)NCBIPanPan1.1PanPan1.1panPan2
PanPan1.1 Ensembl2055,770,571 - 55,783,620 (+)EnsemblpanPan2panpan1.1
CIMIP1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12442,960,156 - 42,968,514 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl2442,960,214 - 42,969,258 (+)EnsemblcanFam3CanFam3.1
Dog10K_Boxer_Tasha2442,207,018 - 42,228,510 (+)NCBIDog10K_Boxer_TashaDog10K_Boxer_Tasha
ROS_Cfam_1.02443,825,900 - 43,847,428 (+)NCBIROS_Cfam_1.0ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl2443,825,958 - 43,838,373 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.12442,928,414 - 42,936,741 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.02443,049,479 - 43,071,004 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.02443,707,868 - 43,729,373 (+)NCBIUU_Cfam_GSD_1.0UU_Cfam_GSD_1.0
Cimip1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024408640182,541,774 - 182,548,910 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_004936530757,396 - 764,198 (+)EnsemblSpeTri2.0 Ensembl
SpeTri2.0NW_004936530757,396 - 764,198 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
CIMIP1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1758,373,175 - 58,383,131 (+)EnsemblsusScr11Sscrofa11.1
Sscrofa11.11758,373,168 - 58,383,135 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21765,584,607 - 65,594,592 (+)NCBISscrofa10.2Sscrofa10.2susScr3
CIMIP1
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.125,971,913 - 5,982,108 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl25,971,474 - 5,982,161 (-)EnsemblChlSab1.1 EnsemblchlSab2Vervet-AGM
Vero_WHO_p1.0NW_02366605054,026,368 - 54,036,563 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Cimip1
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462474124,482,358 - 24,489,495 (+)EnsemblHetGla_female_1.0 EnsemblhetGla2HetGla_female_1.0 Ensembl
HetGla 1.0NW_00462474124,482,338 - 24,489,508 (+)NCBIHetGla 1.0HetGla 1.0hetGla2
Cimip1
(Rattus rattus - black rat)
Black Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rrattus_CSIRO_v15144,449,386 - 144,457,196 (-)NCBIRrattus_CSIRO_v1

miRNA Target Status (No longer updated)

Predicted Target Of
Summary Value
Count of predictions:51
Count of miRNA genes:48
Interacting mature miRNAs:50
Transcripts:ENSRNOT00000029558
Prediction methods:Miranda, Rnahybrid, Targetscan
Result types:miRGate_prediction

The detailed report is available here: Full Report CSV TAB Printer

miRNA Target Status data imported from miRGate (http://mirgate.bioinfo.cnio.es/).
For more information about miRGate, see PMID:25858286 or access the full paper here.


QTLs in Region (GRCr8)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
2301411Bp320Blood pressure QTL 3200.001arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)3141555229186555229Rat
9589106Insul23Insulin level QTL 2313.860.001blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)3152055202189428310Rat
12879876Bw182Body weight QTL 1820.003body mass (VT:0001259)body weight (CMO:0000012)3141555229186555229Rat
10755461Coatc16Coat color QTL 16coat/hair pigmentation trait (VT:0010463)pigmented ventral coat/hair area to total ventral coat/hair area ratio (CMO:0001812)3142898802187898802Rat
12879872Cm97Cardiac mass QTL 970.001heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)3141555229186555229Rat
1559282Emca5Estrogen-induced mammary cancer QTL 53.9mammary gland integrity trait (VT:0010552)percentage of study population developing mammary tumors during a period of time (CMO:0000948)3145335553189428310Rat
1578653Vnigr3Vascular neointimal growth QTL 33.1artery morphology trait (VT:0002191)artery neointimal hyperplastic lesion area (CMO:0001414)3151075912189428310Rat
12879873Cm96Cardiac mass QTL 960.001heart mass (VT:0007028)heart wet weight to body weight ratio (CMO:0002408)3141555229186555229Rat
12879874Cm98Cardiac mass QTL 980.005heart right ventricle mass (VT:0007033)heart right ventricle weight to body weight ratio (CMO:0000914)3141555229186555229Rat
1298068Bp167Blood pressure QTL 1670.004arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)3161492708189428310Rat
12879875Kidm64Kidney mass QTL 640.001kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)3141555229186555229Rat
1582256Insul9Insulin level QTL 94.40.0016blood insulin amount (VT:0001560)absolute change in serum insulin level (CMO:0002038)3155759447189428310Rat
70216Cm14Cardiac mass QTL 142.1heart mass (VT:0007028)heart wet weight (CMO:0000069)351581665184004958Rat
1576306Schws3Schwannoma susceptibility QTL 30.001nervous system integrity trait (VT:0010566)percentage of study population developing trigeminal nerve neurilemmomas during a period of time (CMO:0002017)3139299381184299381Rat
1582248Insul7Insulin level QTL 73.90.0041blood insulin amount (VT:0001560)calculated serum insulin level (CMO:0000359)3155759447189428310Rat
1578666Vnigr1Vascular neointimal growth QTL 14.6artery morphology trait (VT:0002191)artery lumen area (CMO:0001409)3151075912189428310Rat
1300161Rf10Renal function QTL 103.57renal blood flow trait (VT:2000006)absolute change in renal vascular resistance (CMO:0001900)3181611379189428310Rat
8552791Vie2Viral induced encephalitis QTL 24.1brain integrity trait (VT:0010579)encephalitis incidence/prevalence measurement (CMO:0002361)3166376089189428310Rat
1578656Vnigr2Vascular neointimal growth QTL 24.2artery morphology trait (VT:0002191)lesioned artery residual lumen area (CMO:0001417)3151075912189428310Rat
1331726Bp208Blood pressure QTL 2083.129arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)3161799270187311134Rat
12879871Am7Aortic mass QTL 70.001aorta mass (VT:0002845)aorta weight to aorta length to body weight ratio (CMO:0002722)3141555229186555229Rat
631541Bp81Blood pressure QTL 814arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)3144575244189428310Rat
1582213Insul6Insulin level QTL 63.70.0009blood insulin amount (VT:0001560)calculated serum insulin level (CMO:0000359)3155759447189428310Rat
1598854Memor10Memory QTL 102exploratory behavior trait (VT:0010471)average horizontal distance between subject and target during voluntary locomotion in an experimental apparatus (CMO:0002674)3166376089189428310Rat

Markers in Region
RH141945  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.23162,322,269 - 162,322,419 (+)MAPPERmRatBN7.2
Rnor_6.03171,603,909 - 171,604,058NCBIRnor6.0
Rnor_5.03177,665,346 - 177,665,495UniSTSRnor5.0
RGSC_v3.43164,414,129 - 164,414,278UniSTSRGSC3.4
Celera3161,507,901 - 161,508,050UniSTS
RH 3.4 Map31496.9UniSTS
Cytogenetic Map3q42UniSTS


Expression

RNA-SEQ Expression

alimentary part of gastrointestinal system
appendage
circulatory system
ectoderm
endocrine system
endoderm
exocrine system
hemolymphoid system
hepatobiliary system
mesenchyme
mesoderm
nervous system
renal system
reproductive system
respiratory system
sensory system
visual system
6 5 1 22 15 12 5 13 5 36 19 18 2 37 7 3 3

Sequence


Ensembl Acc Id: ENSRNOT00000029558   ⟹   ENSRNOP00000030660
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl3182,733,885 - 182,740,732 (+)Ensembl
mRatBN7.2 Ensembl3162,315,622 - 162,322,455 (+)Ensembl
Rnor_6.0 Ensembl3171,597,241 - 171,604,143 (+)Ensembl
RefSeq Acc Id: NM_001109542   ⟹   NP_001103012
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr83182,733,901 - 182,740,732 (+)NCBI
mRatBN7.23162,315,622 - 162,322,455 (+)NCBI
Rnor_6.03171,597,319 - 171,604,094 (+)NCBI
Rnor_5.03177,658,756 - 177,665,531 (+)NCBI
RGSC_v3.43164,407,395 - 164,414,314 (+)RGD
Celera3161,501,291 - 161,508,086 (+)RGD
Sequence:
RefSeq Acc Id: XM_063284577   ⟹   XP_063140647
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr83182,733,242 - 182,740,733 (+)NCBI
Protein Sequences
Protein RefSeqs NP_001103012 (Get FASTA)   NCBI Sequence Viewer  
  XP_063140647 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein EDL85112 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000030660
  ENSRNOP00000030660.2
RefSeq Acc Id: NP_001103012   ⟸   NM_001109542
- UniProtKB: D4A8H6 (UniProtKB/TrEMBL),   A6KL04 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000030660   ⟸   ENSRNOT00000029558
RefSeq Acc Id: XP_063140647   ⟸   XM_063284577
- Peptide Label: isoform X1
- UniProtKB: A6KL04 (UniProtKB/TrEMBL),   D4A8H6 (UniProtKB/TrEMBL)

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-D4A8H6-F1-model_v2 AlphaFold D4A8H6 1-135 view protein structure

Transcriptome

eQTL   View at Phenogen
WGCNA   View at Phenogen
Tissue/Strain Expression   View at Phenogen

Promoters
RGD ID:13692714
Promoter ID:EPDNEW_R3239
Type:initiation region
Name:LOC689618_1
Description:similar to Protein C20orf85 homolog
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.03171,597,303 - 171,597,363EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1589960 AgrOrtholog
BioCyc Gene G2FUF-46489 BioCyc
Ensembl Genes ENSRNOG00000028533 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000029558 ENTREZGENE
  ENSRNOT00000029558.5 UniProtKB/TrEMBL
InterPro Uncharacterised_C20orf85 UniProtKB/TrEMBL
KEGG Report rno:689618 UniProtKB/TrEMBL
NCBI Gene 689618 ENTREZGENE
PANTHER CHROMOSOME 20 ORF85 FAMILY MEMBER UniProtKB/TrEMBL
  RCG40914 UniProtKB/TrEMBL
Pfam LLC1 UniProtKB/TrEMBL
PhenoGen Cimip1 PhenoGen
RatGTEx ENSRNOG00000028533 RatGTEx
UniProt A6KL04 ENTREZGENE, UniProtKB/TrEMBL
  D4A8H6 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2023-05-05 Cimip1  ciliary microtubule inner protein 1  C3h20orf85  similar to human chromosome 20 open reading frame 85  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2022-08-02 C3h20orf85  similar to human chromosome 20 open reading frame 85  LOC689618  similar to Protein C20orf85 homolog  Name and Symbol changed 629549 APPROVED
2008-01-09 LOC689618  similar to Protein C20orf85 homolog  LOC679098  similar to Protein C20orf85 homolog  Data merged from RGD:1593029 1643240 APPROVED
2006-11-20 LOC689618  similar to Protein C20orf85 homolog      Symbol and Name status set to provisional 70820 PROVISIONAL
2006-11-20 LOC679098  similar to Protein C20orf85 homolog      Symbol and Name status set to provisional 70820 PROVISIONAL