Cimip2a (ciliary microtubule inner protein 2A) - Rat Genome Database

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Gene: Cimip2a (ciliary microtubule inner protein 2A) Rattus norvegicus
Analyze
Symbol: Cimip2a (Ensembl: Fam166a)
Name: ciliary microtubule inner protein 2A (Ensembl:family with sequence similarity 166, member A)
RGD ID: 1562762
Description: Predicted to be located in ciliary basal body. Predicted to be active in axonemal A tubule inner sheath. Orthologous to human CIMIP2A (ciliary microtubule inner protein 2A); INTERACTS WITH 4,4'-sulfonyldiphenol; bisphenol A; bisphenol F.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: Fam166a; family with sequence similarity 166, member A; hypothetical protein LOC311797; MGC114439; similar to 4931415M17 protein
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8328,429,413 - 28,437,210 (+)NCBIGRCr8
mRatBN7.238,030,548 - 8,038,370 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl38,033,246 - 8,037,961 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx311,135,941 - 11,142,644 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0319,722,170 - 19,728,873 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0317,912,013 - 17,918,716 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.032,434,348 - 2,441,706 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl32,438,089 - 2,441,706 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.032,415,630 - 2,422,989 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.433,380,458 - 3,387,167 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera32,857,966 - 2,864,675 (+)NCBICelera
Cytogenetic Map3p13NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


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

Cellular Component

Molecular Function

References

References - curated
# Reference Title Reference Citation
1. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
2. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. Strausberg RL, etal., Proc Natl Acad Sci U S A. 2002 Dec 24;99(26):16899-903. Epub 2002 Dec 11.
Additional References at PubMed
PMID:21630459  


Genomics

Comparative Map Data
Cimip2a
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8328,429,413 - 28,437,210 (+)NCBIGRCr8
mRatBN7.238,030,548 - 8,038,370 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl38,033,246 - 8,037,961 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx311,135,941 - 11,142,644 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0319,722,170 - 19,728,873 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0317,912,013 - 17,918,716 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.032,434,348 - 2,441,706 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl32,438,089 - 2,441,706 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.032,415,630 - 2,422,989 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.433,380,458 - 3,387,167 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera32,857,966 - 2,864,675 (+)NCBICelera
Cytogenetic Map3p13NCBI
CIMIP2A
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh389137,243,599 - 137,255,122 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl9137,243,584 - 137,247,770 (-)EnsemblGRCh38hg38GRCh38
GRCh379140,138,051 - 140,142,203 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 369139,257,858 - 139,262,043 (-)NCBINCBI36Build 36hg18NCBI36
Celera9110,653,622 - 110,657,807 (-)NCBICelera
Cytogenetic Map9q34.3NCBI
HuRef9109,597,350 - 109,601,535 (-)NCBIHuRef
CHM1_19140,286,771 - 140,290,956 (-)NCBICHM1_1
T2T-CHM13v2.09149,481,268 - 149,488,986 (-)NCBIT2T-CHM13v2.0
Cimip2a
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39225,104,382 - 25,112,293 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl225,108,757 - 25,112,292 (+)EnsemblGRCm39 Ensembl
GRCm38225,214,699 - 25,222,281 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl225,218,745 - 25,222,280 (+)EnsemblGRCm38mm10GRCm38
MGSCv37225,074,265 - 25,077,801 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36225,040,754 - 25,044,287 (+)NCBIMGSCv36mm8
Celera224,946,528 - 24,950,064 (+)NCBICelera
Cytogenetic Map2A3NCBI
cM Map217.08NCBI
Cimip2a
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049555135,235,629 - 5,245,859 (-)EnsemblChiLan1.0
ChiLan1.0NW_0049555135,239,239 - 5,245,859 (-)NCBIChiLan1.0ChiLan1.0
CIMIP2A
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2112,144,770 - 2,156,033 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan192,150,770 - 2,158,366 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v09108,303,199 - 108,310,953 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.19137,271,636 - 137,279,327 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl9137,271,636 - 137,275,827 (-)Ensemblpanpan1.1panPan2
CIMIP2A
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1948,426,916 - 48,432,245 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl948,428,759 - 48,432,243 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha947,613,246 - 47,618,568 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0949,288,078 - 49,293,403 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl949,289,915 - 49,293,401 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1948,064,484 - 48,069,808 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0948,363,319 - 48,368,636 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0948,410,243 - 48,415,781 (+)NCBIUU_Cfam_GSD_1.0
Cimip2a
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024404947202,625,734 - 202,632,308 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_004936669744,398 - 749,212 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_004936669746,530 - 749,225 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
CIMIP2A
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa10.21314,129,812 - 314,135,488 (+)NCBISscrofa10.2Sscrofa10.2susScr3
CIMIP2A
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.112940,991 - 945,768 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl12941,485 - 945,650 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_0236660584,360,071 - 4,365,468 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Cimip2a
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_004624760711,349 - 715,024 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_004624760710,923 - 715,126 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Cimip2a
23 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:79
Count of miRNA genes:70
Interacting mature miRNAs:75
Transcripts:ENSRNOT00000013335
Prediction methods:Microtar, Miranda, Rnahybrid
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 (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
70202Alc19Alcohol consumption QTL 192.5drinking behavior trait (VT:0001422)ethanol intake volume to total fluid intake volume ratio (CMO:0001591)3127494778Rat
631679Cm10Cardiac mass QTL 107.340.0001heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)3131158234Rat
631831Alc8Alcohol consumption QTL 82.7consumption behavior trait (VT:0002069)calculated ethanol drink intake rate (CMO:0001615)3133230976Rat
61468Bp15Blood pressure QTL 154.4blood pressure trait (VT:0000183)diastolic blood pressure (CMO:0000005)3133278763Rat
61468Bp15Blood pressure QTL 154.4blood pressure trait (VT:0000183)systolic blood pressure (CMO:0000004)3133278763Rat
61468Bp15Blood pressure QTL 154.4blood pressure trait (VT:0000183)pulse pressure (CMO:0000292)3133278763Rat
631545Bp85Blood pressure QTL 853.1arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)3133278763Rat
4889966Bss95Bone structure and strength QTL 954.4tibia area (VT:1000281)tibia-fibula cross-sectional area (CMO:0001718)3136847613Rat
2312664Scl62Serum cholesterol level QTL 620.05blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)3138710544Rat
631568Bp92Blood pressure QTL 922.20.005arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)3139874793Rat
2290452Scl56Serum cholesterol level QTL 562.26blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)3191609953Rat
1358185Ept6Estrogen-induced pituitary tumorigenesis QTL 66.7pituitary gland mass (VT:0010496)pituitary gland wet weight (CMO:0000853)3653764510778823Rat
2292615Ept17Estrogen-induced pituitary tumorigenesis QTL 176.7pituitary gland mass (VT:0010496)pituitary gland wet weight (CMO:0000853)3653764510778823Rat


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 renal system reproductive system respiratory system appendage
High
Medium 7 12 1 1 8 9 8 1
Low 3 11 21 12 7 12 7 9 5 13 20 3 7
Below cutoff 12 25 25 25 1 55 20 11

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000013335   ⟹   ENSRNOP00000013335
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl38,033,246 - 8,037,961 (+)Ensembl
Rnor_6.0 Ensembl32,438,089 - 2,441,706 (+)Ensembl
RefSeq Acc Id: NM_001025694   ⟹   NP_001020865
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8328,429,413 - 28,436,122 (+)NCBI
mRatBN7.238,031,252 - 8,037,961 (+)NCBI
Rnor_6.032,434,997 - 2,441,706 (+)NCBI
Rnor_5.032,415,630 - 2,422,989 (+)NCBI
RGSC_v3.433,380,458 - 3,387,167 (+)RGD
Celera32,857,966 - 2,864,675 (+)RGD
Sequence:
RefSeq Acc Id: XM_039105192   ⟹   XP_038961120
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8328,433,312 - 28,437,210 (+)NCBI
mRatBN7.238,035,132 - 8,038,370 (+)NCBI
RefSeq Acc Id: XM_039105194   ⟹   XP_038961122
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8328,432,855 - 28,435,241 (+)NCBI
mRatBN7.238,031,675 - 8,037,092 (+)NCBI
Reference Protein Sequences
RefSeq Acc Id: NP_001020865   ⟸   NM_001025694
- UniProtKB: Q4QR77 (UniProtKB/Swiss-Prot),   A6JT16 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000013335   ⟸   ENSRNOT00000013335
RefSeq Acc Id: XP_038961122   ⟸   XM_039105194
- Peptide Label: isoform X2
RefSeq Acc Id: XP_038961120   ⟸   XM_039105192
- Peptide Label: isoform X1
Protein Domains
Ciliary microtubule inner protein 2A-C-like

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q4QR77-F1-model_v2 AlphaFold Q4QR77 1-321 view protein structure

Transcriptome

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


Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1562762 AgrOrtholog
BioCyc Gene G2FUF-50477 BioCyc
Ensembl Genes ENSRNOG00000010019 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
  ENSRNOG00055000492 UniProtKB/Swiss-Prot
  ENSRNOG00060029686 UniProtKB/Swiss-Prot
  ENSRNOG00065024892 UniProtKB/Swiss-Prot
Ensembl Transcript ENSRNOT00000013335 ENTREZGENE
  ENSRNOT00000013335.5 UniProtKB/Swiss-Prot
  ENSRNOT00055000844 UniProtKB/Swiss-Prot
  ENSRNOT00060051547 UniProtKB/Swiss-Prot
  ENSRNOT00065042757 UniProtKB/Swiss-Prot
IMAGE_CLONE IMAGE:7453380 IMAGE-MGC_LOAD
InterPro FAM166/UPF0605 UniProtKB/TrEMBL, UniProtKB/Swiss-Prot
KEGG Report rno:311797 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
MGC_CLONE MGC:114439 IMAGE-MGC_LOAD
NCBI Gene 311797 ENTREZGENE
PANTHER PROTEIN FAM166A UniProtKB/Swiss-Prot
  PROTEIN FAM166A UniProtKB/Swiss-Prot
  PROTEIN FAM166A UniProtKB/TrEMBL
  PROTEIN FAM166A UniProtKB/TrEMBL
Pfam DUF2475 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Cimip2a PhenoGen
RatGTEx ENSRNOG00000010019 RatGTEx
  ENSRNOG00055000492 RatGTEx
  ENSRNOG00060029686 RatGTEx
  ENSRNOG00065024892 RatGTEx
UniProt A6JT16 ENTREZGENE, UniProtKB/TrEMBL
  F166A_RAT UniProtKB/Swiss-Prot, ENTREZGENE


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2023-05-05 Cimip2a  ciliary microtubule inner protein 2A  Fam166a  family with sequence similarity 166, member A  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-08-29 Fam166a  family with sequence similarity 166, member A  MGC114439  similar to 4931415M17 protein  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2006-02-09 MGC114439  similar to 4931415M17 protein      Symbol and Name status set to provisional 70820 PROVISIONAL