Cimip2c (ciliary microtubule inner protein 2C) - Rat Genome Database

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Pathways
Gene: Cimip2c (ciliary microtubule inner protein 2C) Rattus norvegicus
Analyze
Symbol: Cimip2c (Ensembl: Fam166c)
Name: ciliary microtubule inner protein 2C (Ensembl:family with sequence similarity 166 member C)
RGD ID: 1559683
Description: Predicted to be located in axonemal microtubule. Orthologous to human CIMIP2C (ciliary microtubule inner protein 2C); INTERACTS WITH 6-propyl-2-thiouracil; bisphenol A; copper atom.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: Fam166c; family with sequence similarity 166 member C; hypothetical protein LOC500620; LOC500620; RGD1559683; similar to RIKEN cDNA 1700001C02; uncharacterized protein LOC500620; UPF0573 protein C2orf70 homolog
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
mRatBN7.2625,905,294 - 25,923,615 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl625,905,294 - 25,923,615 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx626,197,967 - 26,216,277 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0626,513,848 - 26,532,158 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0625,992,822 - 26,011,126 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0627,305,402 - 27,323,992 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl627,305,402 - 27,323,992 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0637,117,774 - 37,136,364 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4625,889,215 - 25,908,084 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera625,383,869 - 25,401,938 (-)NCBICelera
Cytogenetic Map6q14NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

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

Cellular Component

References

References - curated
# Reference Title Reference Citation
1. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
2. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:21630459  


Genomics

Comparative Map Data
Cimip2c
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2625,905,294 - 25,923,615 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl625,905,294 - 25,923,615 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx626,197,967 - 26,216,277 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0626,513,848 - 26,532,158 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0625,992,822 - 26,011,126 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0627,305,402 - 27,323,992 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl627,305,402 - 27,323,992 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0637,117,774 - 37,136,364 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4625,889,215 - 25,908,084 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera625,383,869 - 25,401,938 (-)NCBICelera
Cytogenetic Map6q14NCBI
CIMIP2C
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38226,562,587 - 26,579,524 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl226,562,585 - 26,579,532 (+)EnsemblGRCh38hg38GRCh38
GRCh37226,785,455 - 26,802,392 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36226,638,985 - 26,655,899 (+)NCBINCBI36Build 36hg18NCBI36
Celera226,629,117 - 26,646,026 (+)NCBICelera
Cytogenetic Map2p23.3NCBI
HuRef226,524,922 - 26,541,831 (+)NCBIHuRef
CHM1_1226,715,533 - 26,732,444 (+)NCBICHM1_1
T2T-CHM13v2.0226,601,745 - 26,618,672 (+)NCBIT2T-CHM13v2.0
Cimip2c
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39530,623,395 - 30,641,433 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl530,623,391 - 30,641,432 (+)EnsemblGRCm39 Ensembl
GRCm38530,466,029 - 30,484,089 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl530,466,047 - 30,484,088 (+)EnsemblGRCm38mm10GRCm38
MGSCv37530,768,450 - 30,786,460 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36530,742,658 - 30,760,668 (+)NCBIMGSCv36mm8
Celera527,944,260 - 27,962,270 (+)NCBICelera
Cytogenetic Map5B1NCBI
cM Map516.57NCBI
Cimip2c
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554698,588,900 - 8,604,337 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049554698,588,820 - 8,603,333 (+)NCBIChiLan1.0ChiLan1.0
CIMIP2C
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan12A99,940,080 - 99,960,894 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v02A26,558,826 - 26,578,005 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.12A26,651,265 - 26,668,192 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl2A26,651,283 - 26,668,192 (+)Ensemblpanpan1.1panPan2
CIMIP2C
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11720,618,642 - 20,633,418 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl1720,618,329 - 20,633,403 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha1720,512,905 - 20,527,668 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.01720,940,005 - 20,954,785 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl1720,939,689 - 20,954,785 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.11720,626,951 - 20,641,726 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.01720,638,105 - 20,652,860 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.01720,684,449 - 20,699,207 (+)NCBIUU_Cfam_GSD_1.0
Cimip2c
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440629264,927,300 - 64,943,438 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049364935,896,206 - 5,912,182 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049364935,896,206 - 5,912,182 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
CIMIP2C
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl3112,458,916 - 112,474,437 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.13112,458,914 - 112,474,431 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.23119,458,324 - 119,473,737 (-)NCBISscrofa10.2Sscrofa10.2susScr3
CIMIP2C
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11481,059,408 - 81,077,554 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl1481,057,764 - 81,076,400 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366604531,071,037 - 31,089,094 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Cimip2c
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_0046247388,702,652 - 8,716,962 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Cimip2c
78 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:32
Count of miRNA genes:31
Interacting mature miRNAs:32
Transcripts:ENSRNOT00000013198
Prediction methods: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
738023Alc17Alcohol consumption QTL 173.10.003consumption behavior trait (VT:0002069)ethanol drink intake rate to body weight ratio (CMO:0001616)6127574569Rat
1354616Despr12Despair related QTL 120.0012locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)6127574569Rat
1549905Stresp10Stress response QTL 106.830.0066stress-related behavior trait (VT:0010451)number of approaches toward negative stimulus before onset of defensive burying response (CMO:0001960)6127574569Rat
2300176Bmd51Bone mineral density QTL 5111.70.0001femur mineral mass (VT:0010011)bone mineral density (CMO:0001226)6127574569Rat
2300190Bmd52Bone mineral density QTL 5211.20.0001femur mineral mass (VT:0010011)volumetric bone mineral density (CMO:0001553)6127574569Rat
1331743Uae28Urinary albumin excretion QTL 284.5urine albumin amount (VT:0002871)urine albumin level (CMO:0000130)6134235784Rat
1578758Tcas9Tongue tumor susceptibility QTL 93.29tongue integrity trait (VT:0010553)number of squamous cell tumors of the tongue with diameter greater than 3 mm (CMO:0001950)6137618905Rat
1598843Cm63Cardiac mass QTL 632.6heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)6139036266Rat
7411603Foco13Food consumption QTL 135.50.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)6141223769Rat
8552962Pigfal16Plasma insulin-like growth factor 1 level QTL 169.4blood insulin-like growth factor amount (VT:0010479)plasma insulin-like growth factor 1 level (CMO:0001299)6141223769Rat
7411542Bw127Body weight QTL 1275.50.001body mass (VT:0001259)body weight gain (CMO:0000420)6141223769Rat
9589129Insul24Insulin level QTL 2419.060.001blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)6141223769Rat
9589048Scfw3Subcutaneous fat weight QTL 34.570.001subcutaneous adipose mass (VT:1000472)abdominal subcutaneous fat pad weight (CMO:0002069)6141223769Rat
2293709Bss23Bone structure and strength QTL 235.180.0001femur morphology trait (VT:0000559)femur cross-sectional area (CMO:0001661)6142487980Rat
2293650Bss31Bone structure and strength QTL 315.050.0001femur strength trait (VT:0010010)femur midshaft polar moment of inertia (CMO:0001669)6142487980Rat
2293656Bss28Bone structure and strength QTL 286.790.0001femur morphology trait (VT:0000559)femur midshaft cortical cross-sectional area (CMO:0001663)6142487980Rat
7411584Foco4Food consumption QTL 44.30.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)6142838846Rat
738024Sach5Saccharine consumption QTL 53.90.00039consumption behavior trait (VT:0002069)saccharin intake volume to total fluid intake volume ratio (CMO:0001601)6143394190Rat
2301972Bp325Blood pressure QTL 3254.8arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)6172227641Rat
1300128Rf16Renal function QTL 163.89renal blood flow trait (VT:2000006)absolute change in renal blood flow rate (CMO:0001168)6507449734434305Rat
1300164Rf15Renal function QTL 153.12renal blood flow trait (VT:2000006)absolute change in renal blood flow rate (CMO:0001168)6507449754641141Rat
4145119Mcs25Mammary carcinoma susceptibility QTL 250.0001mammary gland integrity trait (VT:0010552)ratio of deaths to total study population during a period of time (CMO:0001023)610894415110548006Rat
1578665Bss16Bone structure and strength QTL 164.4femur morphology trait (VT:0000559)bone trabecular cross-sectional area (CMO:0002311)61173566972593685Rat
1578668Bmd14Bone mineral density QTL 143.8femur mineral mass (VT:0010011)total volumetric bone mineral density (CMO:0001728)61173566972593685Rat
10401812Kidm54Kidney mass QTL 54kidney mass (VT:0002707)both kidneys wet weight (CMO:0000085)61436878859368788Rat
10401800Kidm49Kidney mass QTL 49kidney mass (VT:0002707)both kidneys wet weight (CMO:0000085)61436878859368788Rat
1576309Emca7Estrogen-induced mammary cancer QTL 74mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)615107216107351382Rat
1359023Bp272Blood pressure QTL 2722.5arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)61653614027261739Rat
2292589Emca10Estrogen-induced mammary cancer QTL 100.048mammary gland integrity trait (VT:0010552)post-insult time to mammary tumor formation (CMO:0000345)61653614061536140Rat
1354664Slep2Serum leptin concentration QTL 24.49blood leptin amount (VT:0005667)serum leptin level (CMO:0000780)61653614071636405Rat
1641898Colcr4Colorectal carcinoma resistance QTL43.710.0007intestine integrity trait (VT:0010554)well differentiated malignant colorectal tumor surface area measurement (CMO:0002077)62033877762613667Rat
2293839Kiddil2Kidney dilation QTL 24.8kidney pelvis morphology trait (VT:0004194)hydronephrosis severity score (CMO:0001208)62086642281133036Rat
2293841Kiddil4Kidney dilation QTL 44.4kidney pelvis morphology trait (VT:0004194)hydronephrosis severity score (CMO:0001208)62086642281133036Rat


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 appendage
High
Medium 7
Low 5 1
Below cutoff 1 2 3 1 3 1 1 3 28 7 7 1

Sequence


RefSeq Acc Id: ENSRNOT00000013198   ⟹   ENSRNOP00000013198
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl625,905,294 - 25,923,615 (-)Ensembl
Rnor_6.0 Ensembl627,305,402 - 27,323,992 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000113552   ⟹   ENSRNOP00000091220
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl625,905,294 - 25,912,986 (-)Ensembl
RefSeq Acc Id: NM_001109275   ⟹   NP_001102745
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2625,905,294 - 25,923,615 (-)NCBI
Rnor_6.0627,305,402 - 27,323,992 (-)NCBI
Rnor_5.0637,117,774 - 37,136,364 (-)NCBI
RGSC_v3.4625,889,215 - 25,908,084 (-)RGD
Celera625,383,869 - 25,401,938 (-)RGD
Sequence:
RefSeq Acc Id: XM_039112708   ⟹   XP_038968636
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2625,905,381 - 25,923,609 (-)NCBI
Protein Sequences
Protein RefSeqs NP_001102745 (Get FASTA)   NCBI Sequence Viewer  
  XP_038968636 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein EDM02989 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000013198
  ENSRNOP00000013198.6
  ENSRNOP00000091220.1
RefSeq Acc Id: NP_001102745   ⟸   NM_001109275
- UniProtKB: D3ZW52 (UniProtKB/TrEMBL),   A6HAD4 (UniProtKB/TrEMBL),   A0A8I6AF65 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000013198   ⟸   ENSRNOT00000013198
RefSeq Acc Id: XP_038968636   ⟸   XM_039112708
- Peptide Label: isoform X1
RefSeq Acc Id: ENSRNOP00000091220   ⟸   ENSRNOT00000113552

Transcriptome

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

Promoters
RGD ID:13694464
Promoter ID:EPDNEW_R4988
Type:multiple initiation site
Name:RGD1559683_1
Description:similar to RIKEN cDNA 1700001C02
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_6.0627,323,976 - 27,324,036EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1559683 AgrOrtholog
BioCyc Gene G2FUF-38310 BioCyc
Ensembl Genes ENSRNOG00000009905 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000013198 ENTREZGENE
  ENSRNOT00000013198.6 UniProtKB/TrEMBL
  ENSRNOT00000113552.1 UniProtKB/TrEMBL
InterPro UPF0573/UPF0605 UniProtKB/TrEMBL
KEGG Report rno:500620 UniProtKB/TrEMBL
NCBI Gene 500620 ENTREZGENE
PANTHER PROTEIN FAM166C UniProtKB/TrEMBL
  UPF0573 PROTEIN C2ORF70 UniProtKB/TrEMBL
Pfam DUF2475 UniProtKB/TrEMBL
PhenoGen Cimip2c PhenoGen
RatGTEx ENSRNOG00000009905 RatGTEx
UniProt A0A8I6AF65 ENTREZGENE, UniProtKB/TrEMBL
  A6HAD4 ENTREZGENE, UniProtKB/TrEMBL
  D3ZW52 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2023-05-05 Cimip2c  ciliary microtubule inner protein 2C  Fam166c  family with sequence similarity 166 member C  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2019-09-30 Fam166c  family with sequence similarity 166 member C  RGD1559683  similar to RIKEN cDNA 1700001C02  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-04-30 RGD1559683  similar to RIKEN cDNA 1700001C02   RGD1559683_predicted  similar to RIKEN cDNA 1700001C02 (predicted)  'predicted' is removed 2292626 APPROVED
2006-03-07 RGD1559683_predicted  similar to RIKEN cDNA 1700001C02 (predicted)  LOC500620  similar to RIKEN cDNA 1700001C02  Symbol and Name status set to approved 1299863 APPROVED
2006-02-09 LOC500620  similar to RIKEN cDNA 1700001C02      Symbol and Name status set to provisional 70820 PROVISIONAL