Cimip3 (ciliary microtubule inner protein 3) - Rat Genome Database

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Gene: Cimip3 (ciliary microtubule inner protein 3) Rattus norvegicus
Analyze
Symbol: Cimip3 (Ensembl: LOC100912849)
Name: ciliary microtubule inner protein 3 (Ensembl:uncharacterized LOC100912849)
RGD ID: 6485345
Description: PARTICIPATES IN calcium/calcium-mediated signaling pathway; visual phototransduction pathway; ASSOCIATED WITH cone-rod dystrophy 14 (ortholog); Hereditary Eye Diseases (ortholog)
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: Guca1a neighbor; Guca1anb; hypothetical protein LOC681205; LOC100912849; LOC681205; putative uncharacterized protein CIMIP3; putative uncharacterized protein GUCA1ANB; uncharacterized LOC100912849; uncharacterized protein LOC100912849
RGD Orthologs
Human
Mouse
Bonobo
Dog
Squirrel
Green Monkey
Alliance Genes
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8921,058,433 - 21,080,642 (+)NCBIGRCr8
mRatBN7.2913,560,669 - 13,582,987 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl913,560,876 - 13,582,814 (+)EnsemblmRatBN7.2 Ensembl
Rnor_6.0915,580,166 - 15,604,282 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl915,582,564 - 15,604,100 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0914,503,869 - 14,525,930 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.499,019,445 - 9,041,032 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera911,309,102 - 11,333,180 (+)NCBICelera
Cytogenetic Map9q12NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Molecular Pathway Annotations     Click to see Annotation Detail View
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
Cimip3
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8921,058,433 - 21,080,642 (+)NCBIGRCr8
mRatBN7.2913,560,669 - 13,582,987 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl913,560,876 - 13,582,814 (+)EnsemblmRatBN7.2 Ensembl
Rnor_6.0915,580,166 - 15,604,282 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl915,582,564 - 15,604,100 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0914,503,869 - 14,525,930 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.499,019,445 - 9,041,032 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera911,309,102 - 11,333,180 (+)NCBICelera
Cytogenetic Map9q12NCBI
CIMIP3
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38642,155,406 - 42,163,418 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl642,155,406 - 42,163,418 (+)EnsemblGRCh38hg38GRCh38
GRCh37642,123,144 - 42,131,156 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36642,231,152 - 42,255,772 (+)NCBINCBI36Build 36hg18NCBI36
Build 34642,231,151 - 42,255,770NCBI
Celera643,675,605 - 43,700,255 (+)NCBICelera
Cytogenetic Map6p21.1NCBI
HuRef641,841,195 - 41,865,841 (+)NCBIHuRef
CHM1_1642,125,578 - 42,150,298 (+)NCBICHM1_1
T2T-CHM13v2.0641,983,624 - 41,991,617 (+)NCBIT2T-CHM13v2.0
Cimip3
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391747,723,659 - 47,748,690 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1747,723,659 - 47,748,301 (-)EnsemblGRCm39 Ensembl
GRCm381747,412,734 - 47,437,765 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1747,412,734 - 47,437,376 (-)EnsemblGRCm38mm10GRCm38
MGSCv371747,549,683 - 47,574,324 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361746,875,938 - 46,900,516 (-)NCBIMGSCv36mm8
Celera1750,847,402 - 50,871,940 (-)NCBICelera
Cytogenetic Map17CNCBI
cM Map1723.12NCBI
CIMIP3
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2556,651,257 - 56,662,318 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1652,521,207 - 52,532,269 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0641,743,396 - 41,751,883 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1643,045,307 - 43,053,377 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl643,045,307 - 43,053,377 (+)Ensemblpanpan1.1panPan2
GUCA1A
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11210,786,284 - 10,795,974 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl1210,788,424 - 10,795,442 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha1210,815,374 - 10,825,292 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.01211,266,757 - 11,277,279 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl1211,269,730 - 11,276,747 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.11210,796,184 - 10,806,913 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.01210,880,167 - 10,890,678 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.01210,975,262 - 10,984,952 (+)NCBIUU_Cfam_GSD_1.0
Cimip3
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440494646,245,031 - 46,250,338 (+)NCBIHiC_Itri_2
CIMIP3
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11729,987,083 - 29,995,791 (-)NCBIChlSab1.1ChlSab1.1chlSab2
Vero_WHO_p1.0NW_02366604442,178,536 - 42,186,762 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0

Variants

.
Variants in Cimip3
132 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:105
Count of miRNA genes:83
Interacting mature miRNAs:90
Transcripts:ENSRNOT00000020640
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
10054141Gmadr4Adrenal mass QTL 42.450.0074adrenal gland mass (VT:0010420)both adrenal glands wet weight (CMO:0000164)9114209783Rat
70226Eae4Experimental allergic encephalomyelitis QTL 4nervous system integrity trait (VT:0010566)experimental autoimmune encephalomyelitis incidence/prevalence measurement (CMO:0001046)9125661317Rat
9589055Scfw5Subcutaneous fat weight QTL 55.550.001subcutaneous adipose mass (VT:1000472)abdominal subcutaneous fat pad weight (CMO:0002069)9137999212Rat
7411592Foco8Food consumption QTL 87.40.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)9137999212Rat
9589158Gluco65Glucose level QTL 656.820.001blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)9137999212Rat
1300124Cm4Cardiac mass QTL 43.55heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)9140594091Rat
1298088Edpm11Estrogen-dependent pituitary mass QTL 112.5pituitary gland mass (VT:0010496)pituitary gland wet weight (CMO:0000853)9143718459Rat
1641911Alcrsp13Alcohol response QTL 13response to alcohol trait (VT:0010489)brain neurotensin receptor 1 density (CMO:0002068)9143718459Rat
10054125Srcrt7Stress Responsive Cort QTL 73.330.0011blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)9187073594Rat
1331757Cdexp1CD45RC expression in CD8 T cells QTL 14.3CD8-positive T cell quantity (VT:0008077)blood CD45RC(high) CD8 T cell count to CD45RC(low) CD8 T cell count ratio (CMO:0001990)9102453767509080Rat
1354650Despr5Despair related QTL 54.010.0017locomotor behavior trait (VT:0001392)amount of time spent in voluntary immobility (CMO:0001043)9125408446254084Rat
2303559Gluco54Glucose level QTL 542blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)9125408446254084Rat
61425Cia15Collagen induced arthritis QTL 154.6joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)9510982642921101Rat
631211Bw4Body weight QTL45.31retroperitoneal fat pad mass (VT:0010430)retroperitoneal fat pad weight to body weight ratio (CMO:0000635)9510982650109826Rat
11353947Bp392Blood pressure QTL 392arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)9728325252283252Rat
61450Ciaa3CIA Autoantibody QTL 36.5blood autoantibody amount (VT:0003725)calculated serum anti-type 2 collagen antibody titer (CMO:0001279)9795472022071169Rat
9589133Insul26Insulin level QTL 2617.960.001blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)9895256053952560Rat
7411609Foco16Food consumption QTL 1625.60.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)9895256053952560Rat
1600365Mcs20Mammary carcinoma susceptibility QTL 203mammary gland integrity trait (VT:0010552)mammary tumor growth rate (CMO:0000344)91353377042791750Rat

Markers in Region
RH133921  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2913,564,640 - 13,565,517 (+)MAPPERmRatBN7.2
Rnor_6.0915,585,930 - 15,586,805NCBIRnor6.0
Rnor_5.0914,507,777 - 14,508,652UniSTSRnor5.0
RGSC_v3.499,022,528 - 9,023,403UniSTSRGSC3.4
Celera911,314,865 - 11,315,740UniSTS
RH 3.4 Map960.2UniSTS
AW530537  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2913,582,812 - 13,582,970 (+)MAPPERmRatBN7.2
Rnor_6.0915,604,108 - 15,604,265NCBIRnor6.0
Rnor_5.0914,525,756 - 14,525,913UniSTSRnor5.0
RGSC_v3.499,040,858 - 9,041,015UniSTSRGSC3.4
Celera911,333,006 - 11,333,163UniSTS
RH 3.4 Map959.7UniSTS
Cytogenetic Map9q12UniSTS


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
Low 1 10 42 41 6 41 2 2 9 14 13 5 2
Below cutoff 2 18 12 11 4 6 48 19 18 6 4

Sequence

Nucleotide Sequences
RefSeq Transcripts NM_001417783 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_003754503 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006226725 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006226726 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006226732 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006226733 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008757963 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017603802 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017603803 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017603804 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017603805 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017603806 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017603807 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017603808 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039084492 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039084493 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039084495 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039084496 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039084498 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039084500 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039084501 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_063266517 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide CH473987 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JAXUCZ010000009 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENSRNOT00000020640   ⟹   ENSRNOP00000020640
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl913,560,876 - 13,582,814 (+)Ensembl
Rnor_6.0 Ensembl915,582,564 - 15,604,100 (+)Ensembl
RefSeq Acc Id: NM_001417783   ⟹   NP_001404712
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8921,058,433 - 21,080,642 (+)NCBI
mRatBN7.2913,560,775 - 13,582,987 (+)NCBI
RefSeq Acc Id: XM_039084492   ⟹   XP_038940420
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8921,058,449 - 21,080,642 (+)NCBI
mRatBN7.2913,560,669 - 13,582,987 (+)NCBI
RefSeq Acc Id: XM_039084493   ⟹   XP_038940421
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8921,079,150 - 21,080,642 (+)NCBI
mRatBN7.2913,581,531 - 13,582,987 (+)NCBI
RefSeq Acc Id: XM_039084495   ⟹   XP_038940423
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8921,079,213 - 21,080,642 (+)NCBI
mRatBN7.2913,581,559 - 13,582,987 (+)NCBI
RefSeq Acc Id: XM_039084496   ⟹   XP_038940424
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8921,074,373 - 21,080,642 (+)NCBI
mRatBN7.2913,576,731 - 13,582,987 (+)NCBI
RefSeq Acc Id: XM_039084498   ⟹   XP_038940426
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8921,074,413 - 21,080,642 (+)NCBI
mRatBN7.2913,576,760 - 13,582,987 (+)NCBI
RefSeq Acc Id: XM_039084500   ⟹   XP_038940428
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8921,074,375 - 21,080,642 (+)NCBI
mRatBN7.2913,576,731 - 13,582,987 (+)NCBI
RefSeq Acc Id: XM_039084501   ⟹   XP_038940429
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8921,074,354 - 21,080,642 (+)NCBI
mRatBN7.2913,576,717 - 13,582,987 (+)NCBI
RefSeq Acc Id: XM_063266517   ⟹   XP_063122587
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8921,074,415 - 21,080,642 (+)NCBI
Reference Protein Sequences
RefSeq Acc Id: ENSRNOP00000020640   ⟸   ENSRNOT00000020640
RefSeq Acc Id: XP_038940420   ⟸   XM_039084492
- Peptide Label: isoform X1
- UniProtKB: A6JIK2 (UniProtKB/TrEMBL),   F1M098 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038940429   ⟸   XM_039084501
- Peptide Label: isoform X6
RefSeq Acc Id: XP_038940424   ⟸   XM_039084496
- Peptide Label: isoform X4
RefSeq Acc Id: XP_038940428   ⟸   XM_039084500
- Peptide Label: isoform X5
RefSeq Acc Id: XP_038940426   ⟸   XM_039084498
- Peptide Label: isoform X4
RefSeq Acc Id: XP_038940421   ⟸   XM_039084493
- Peptide Label: isoform X2
RefSeq Acc Id: XP_038940423   ⟸   XM_039084495
- Peptide Label: isoform X4
RefSeq Acc Id: NP_001404712   ⟸   NM_001417783
- UniProtKB: A6JIK1 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_063122587   ⟸   XM_063266517
- Peptide Label: isoform X3

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-F1M098-F1-model_v2 AlphaFold F1M098 1-207 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:6485345 AgrOrtholog
BioCyc Gene G2FUF-28264 BioCyc
Ensembl Genes ENSRNOG00000015386 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000020640 ENTREZGENE
  ENSRNOT00000020640.7 UniProtKB/TrEMBL
KEGG Report rno:100912849 UniProtKB/TrEMBL
NCBI Gene LOC100912849 ENTREZGENE
PANTHER RIKEN CDNA 1700001C19 GENE UniProtKB/TrEMBL
  RIKEN CDNA 1700001C19 GENE UniProtKB/TrEMBL
PhenoGen Cimip3 PhenoGen
RatGTEx ENSRNOG00000015386 RatGTEx
UniProt A6JIK1 ENTREZGENE, UniProtKB/TrEMBL
  A6JIK2 ENTREZGENE, UniProtKB/TrEMBL
  F1M098 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2023-05-12 Cimip3  ciliary microtubule inner protein 3  Guca1anb  Guca1a neighbor  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2023-04-10 Guca1anb  Guca1a neighbor  LOC100912849  uncharacterized LOC100912849  Name and Symbol changed 629549 APPROVED
2015-07-29 LOC100912849  uncharacterized LOC100912849  LOC681205  hypothetical protein LOC681205  Data merged from RGD:1598066 737654 PROVISIONAL
2012-07-05 LOC100912849  uncharacterized LOC100912849      Symbol and Name status set to provisional 70820 PROVISIONAL
2008-01-09 LOC681205  hypothetical protein LOC681205  LOC683188  hypothetical protein LOC683188  Data merged from RGD:1590378 1643240 APPROVED
2006-11-20 LOC681205  hypothetical protein LOC681205      Symbol and Name status set to provisional 70820 PROVISIONAL
2006-11-20 LOC683188  hypothetical protein LOC683188      Symbol and Name status set to provisional 70820 PROVISIONAL