Cggbp1 (CGG triplet repeat binding protein 1) - Rat Genome Database

Send us a Message
Submit Data |  Help |  Video Tutorials |  News |  Publications |  Download |  REST API |  Citing RGD |  Contact   
Search RGD Grant Resources Citing RGD About Us Contact Us
Genes Variants Community Projects QTLs Strains Markers Genome Information Ontologies Cell Lines References Download Submit Data
OntoMate (Literature Search) JBrowse (Genome Browser) Synteny Browser (VCMap) Variant Visualizer Multi-Ontology Enrichment (MOET) Gene-Ortholog Location Finder (GOLF) InterViewer (Protein-Protein Interactions) PhenoMiner (Quatitative Phenotypes) Gene Annotator OLGA (Gene List Generator) AllianceMine GViewer (Genome Viewer)
Aging & Age-Related Disease Cancer & Neoplastic Disease Cardiovascular Disease Coronavirus Disease Developmental Disease Diabetes Hematologic Disease Immune & Inflammatory Disease Infectious Disease Liver Disease Neurological Disease Obesity & Metabolic Syndrome Renal Disease Respiratory Disease Sensory Organ Disease
Find Models Genetic Models Autism Models Rat PhenoMiner (Quantitative Phenotypes) Chinchilla PhenoMiner Expected Ranges (Quantitative Phenotype) PhenoMiner Term Comparison Hybrid Rat Diversity Panel Phenotypes Phenotypes in Other Animal Models Animal Husbandry Strain Medical Records Phylogenetics Strain Availability Calendar Rats 101 Submissions Photo Archive
Pathways
Rat Community Forum Directory of Rat Laboratories Video Tutorials News RGD Publications RGD Presentations Archive Nomenclature Guidelines Resource Links Laboratory Resources Employment Resources
Advanced Search (OLGA)
Gene: Cggbp1 (CGG triplet repeat binding protein 1) Rattus norvegicus
Analyze
Symbol: Cggbp1
Name: CGG triplet repeat binding protein 1
RGD ID: 1308129
Description: Predicted to enable DNA-binding transcription factor binding activity; double-stranded DNA binding activity; and identical protein binding activity. Predicted to be involved in epigenetic regulation of gene expression and negative regulation of transcription by RNA polymerase II. Predicted to be located in nucleoplasm. Predicted to be active in nucleus. Orthologous to human CGGBP1 (CGG triplet repeat binding protein 1); INTERACTS WITH 1-naphthyl isothiocyanate; 2,3,7,8-tetrachlorodibenzodioxine; bisphenol A.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: CGG triplet repeat-binding protein 1; LOC288353
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81116,012,251 - 16,019,388 (+)NCBIGRCr8
mRatBN7.2112,565,629 - 2,572,869 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl112,565,484 - 2,573,031 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1111,161,781 - 11,168,914 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0113,954,834 - 3,961,967 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0113,059,866 - 3,066,999 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0111,896,166 - 1,915,603 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl111,896,209 - 1,915,587 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0111,876,785 - 1,893,698 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4112,182,858 - 2,190,461 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.1112,182,888 - 2,187,112 (+)NCBI
Celera112,548,043 - 2,555,104 (+)NCBICelera
Cytogenetic Map11p12NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component
nucleoplasm  (IEA,ISO)
nucleus  (IBA,ISO)

Molecular Function

References

References - curated
# Reference Title Reference Citation
1. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
2. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:10692448   PMID:16169070   PMID:25416956  


Genomics

Comparative Map Data
Cggbp1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81116,012,251 - 16,019,388 (+)NCBIGRCr8
mRatBN7.2112,565,629 - 2,572,869 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl112,565,484 - 2,573,031 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1111,161,781 - 11,168,914 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0113,954,834 - 3,961,967 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0113,059,866 - 3,066,999 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0111,896,166 - 1,915,603 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl111,896,209 - 1,915,587 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0111,876,785 - 1,893,698 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4112,182,858 - 2,190,461 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.1112,182,888 - 2,187,112 (+)NCBI
Celera112,548,043 - 2,555,104 (+)NCBICelera
Cytogenetic Map11p12NCBI
CGGBP1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38388,051,950 - 88,149,870 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl388,051,944 - 88,149,885 (-)EnsemblGRCh38hg38GRCh38
GRCh37388,101,100 - 88,199,020 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36388,183,790 - 88,190,836 (-)NCBINCBI36Build 36hg18NCBI36
Build 34388,183,790 - 88,190,836NCBI
Celera388,855,191 - 88,862,231 (-)NCBICelera
Cytogenetic Map3p11.1NCBI
HuRef388,114,832 - 88,212,523 (-)NCBIHuRef
CHM1_1388,054,221 - 88,152,134 (-)NCBICHM1_1
T2T-CHM13v2.0388,127,798 - 88,225,703 (-)NCBIT2T-CHM13v2.0
Cggbp1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391664,672,364 - 64,679,854 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1664,672,359 - 64,679,870 (+)EnsemblGRCm39 Ensembl
GRCm381664,852,001 - 64,859,491 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1664,851,996 - 64,859,507 (+)EnsemblGRCm38mm10GRCm38
MGSCv371664,851,911 - 64,859,317 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361664,794,287 - 64,801,693 (+)NCBIMGSCv36mm8
Celera1665,146,563 - 65,153,921 (+)NCBICelera
Cytogenetic Map16C1.3NCBI
cM Map1637.1NCBI
Cggbp1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0NW_0049554075,434,954 - 5,443,713 (+)NCBIChiLan1.0ChiLan1.0
LOC100974639
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2288,209,315 - 88,216,363 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1388,214,220 - 88,221,166 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0388,190,366 - 88,197,367 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1390,301,865 - 90,400,416 (-)NCBIpanpan1.1PanPan1.1panPan2
CGGBP1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.131207,383 - 214,075 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl31210,547 - 211,050 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha31250,507 - 257,539 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.031190,831 - 197,873 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl31190,836 - 195,933 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.131170,542 - 177,568 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.031217,820 - 224,830 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.031522,514 - 529,544 (+)NCBIUU_Cfam_GSD_1.0
Cggbp1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_0244049711,683,228 - 1,690,399 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049366101,683,259 - 1,686,936 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049366101,683,315 - 1,690,402 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
CGGBP1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl13167,896,037 - 167,902,932 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.113167,895,973 - 167,902,672 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
CGGBP1
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12288,774,978 - 88,871,528 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl2288,867,675 - 88,868,175 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366604177,842,864 - 77,937,728 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Cggbp1
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046247894,444,979 - 4,448,135 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046247894,443,540 - 4,448,702 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Cggbp1
15 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:417
Count of miRNA genes:216
Interacting mature miRNAs:291
Transcripts:ENSRNOT00000000909
Prediction methods:Miranda, 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 (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1300147Bp187Blood pressure QTL 1873.67arterial blood pressure trait (VT:2000000)blood pressure time series experimental set point of the baroreceptor response (CMO:0002593)11169446234Rat
1598842Glom10Glomerulus QTL 103.4kidney glomerulus morphology trait (VT:0005325)index of glomerular damage (CMO:0001135)11135331169Rat
1558659Tescar1Testicular tumor resistance QTL 13.9testis integrity trait (VT:0010572)percentage of study population developing testis tumors during a period of time (CMO:0001261)11104193166113562Rat
634341Bw121Body weight QTL 1213.56abdominal fat pad mass (VT:1000711)abdominal fat pad weight (CMO:0000088)11121836709Rat

Markers in Region
RH143271  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2112,566,505 - 2,566,645 (+)MAPPERmRatBN7.2
Rnor_6.0111,909,241 - 1,909,380NCBIRnor6.0
Rnor_6.0111,905,531 - 1,905,669NCBIRnor6.0
Rnor_5.0111,887,336 - 1,887,475UniSTSRnor5.0
RGSC_v3.4112,183,641 - 2,183,780UniSTSRGSC3.4
Celera112,548,745 - 2,548,884UniSTS
Cytogenetic Map11p12UniSTS
RH137099  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2112,572,474 - 2,572,689 (+)MAPPERmRatBN7.2
Rnor_6.0111,915,209 - 1,915,423NCBIRnor6.0
Rnor_5.0111,893,304 - 1,893,518UniSTSRnor5.0
RGSC_v3.4112,190,071 - 2,190,285UniSTSRGSC3.4
Celera112,554,714 - 2,554,928UniSTS
Cytogenetic Map11p12UniSTS
RH125452  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2112,566,433 - 2,566,514 (+)MAPPERmRatBN7.2
Rnor_6.0111,909,169 - 1,909,249NCBIRnor6.0
Rnor_6.0111,905,662 - 1,905,741NCBIRnor6.0
Rnor_5.0111,887,264 - 1,887,344UniSTSRnor5.0
RGSC_v3.4112,183,569 - 2,183,649UniSTSRGSC3.4
Celera112,548,673 - 2,548,753UniSTS
Cytogenetic Map11p12UniSTS


Expression

RNA-SEQ Expression

alimentary part of gastrointestinal system
appendage
circulatory system
ectoderm
endocrine system
endoderm
exocrine system
hemolymphoid system
hepatobiliary system
integumental system
mesenchyme
mesoderm
nervous system
renal system
reproductive system
respiratory system
9 11 49 113 91 90 59 25 59 6 218 97 93 45 60 31

Sequence


Ensembl Acc Id: ENSRNOT00000000909   ⟹   ENSRNOP00000000909
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl112,565,484 - 2,573,031 (+)Ensembl
Rnor_6.0 Ensembl111,896,209 - 1,915,587 (+)Ensembl
RefSeq Acc Id: NM_001105900   ⟹   NP_001099370
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81116,012,251 - 16,019,384 (+)NCBI
mRatBN7.2112,565,732 - 2,572,865 (+)NCBI
Rnor_6.0111,896,209 - 1,915,599 (+)NCBI
Rnor_5.0111,876,785 - 1,893,698 (+)NCBI
RGSC_v3.4112,182,858 - 2,190,461 (+)RGD
Celera112,548,043 - 2,555,104 (+)RGD
Sequence:
RefSeq Acc Id: XM_006247975   ⟹   XP_006248037
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81116,012,263 - 16,019,388 (+)NCBI
mRatBN7.2112,565,629 - 2,572,869 (+)NCBI
Rnor_6.0111,896,166 - 1,915,603 (+)NCBI
Rnor_5.0111,876,785 - 1,893,698 (+)NCBI
Sequence:
Protein Sequences
Protein RefSeqs NP_001099370 (Get FASTA)   NCBI Sequence Viewer  
  XP_006248037 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein EDL75902 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000000909.5
RefSeq Acc Id: NP_001099370   ⟸   NM_001105900
- UniProtKB: D4ADB4 (UniProtKB/TrEMBL),   A6K4W2 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006248037   ⟸   XM_006247975
- Peptide Label: isoform X1
- UniProtKB: D4ADB4 (UniProtKB/TrEMBL),   A6K4W2 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000000909   ⟸   ENSRNOT00000000909

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-D4ADB4-F1-model_v2 AlphaFold D4ADB4 1-167 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:1308129 AgrOrtholog
BioCyc Gene G2FUF-22320 BioCyc
Ensembl Genes ENSRNOG00000000718 Ensembl, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000000909.8 UniProtKB/TrEMBL
InterPro Cggbp1 UniProtKB/TrEMBL
KEGG Report rno:288353 UniProtKB/TrEMBL
NCBI Gene 288353 ENTREZGENE
PANTHER PTHR32344 UniProtKB/TrEMBL
  U1-TYPE DOMAIN-CONTAINING PROTEIN UniProtKB/TrEMBL
PhenoGen Cggbp1 PhenoGen
RatGTEx ENSRNOG00000000718 RatGTEx
UniProt A6K4W2 ENTREZGENE, UniProtKB/TrEMBL
  D4ADB4 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2008-04-30 Cggbp1  CGG triplet repeat binding protein 1   Cggbp1_predicted  CGG triplet repeat binding protein 1 (predicted)  'predicted' is removed 2292626 APPROVED
2005-01-12 Cggbp1_predicted  CGG triplet repeat binding protein 1 (predicted)      Symbol and Name status set to approved 70820 APPROVED