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   
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 have double-stranded DNA binding activity and identical protein binding activity. Predicted to be involved in dsDNA loop formation and negative regulation of transcription by RNA polymerase II. Predicted to localize to nucleoplasm. Orthologous to human CGGBP1 (CGG triplet repeat binding protein 1); INTERACTS WITH 1-naphthyl isothiocyanate; bisphenol A; dibutyl phthalate.
Type: protein-coding
RefSeq Status: PROVISIONAL
Also known as: CGG triplet repeat-binding protein 1; LOC288353
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: Rnor_6.0 - RGSC Genome Assembly v6.0
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2112,565,629 - 2,572,869 (+)NCBI
Rnor_6.0 Ensembl111,896,209 - 1,915,587 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.0111,896,166 - 1,915,603 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.0111,876,785 - 1,893,698 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4112,182,858 - 2,190,461 (+)NCBIRGSC3.4rn4RGSC3.4
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

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
mRatBN7.2112,565,629 - 2,572,869 (+)NCBI
Rnor_6.0 Ensembl111,896,209 - 1,915,587 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.0111,896,166 - 1,915,603 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.0111,876,785 - 1,893,698 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4112,182,858 - 2,190,461 (+)NCBIRGSC3.4rn4RGSC3.4
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
GRCh38.p13 Ensembl388,051,944 - 88,149,885 (-)EnsemblGRCh38hg38GRCh38
GRCh38388,051,950 - 88,149,870 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh37388,101,100 - 88,199,020 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36388,183,790 - 88,190,836 (-)NCBINCBI36hg18NCBI36
Build 34388,183,790 - 88,190,836NCBI
Celera388,855,191 - 88,862,231 (-)NCBI
Cytogenetic Map3p11.1NCBI
HuRef388,114,832 - 88,212,523 (-)NCBIHuRef
CHM1_1388,054,221 - 88,152,134 (-)NCBICHM1_1
Cggbp1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391664,672,364 - 64,679,854 (+)NCBIGRCm39mm39
GRCm39 Ensembl1664,672,359 - 64,679,870 (+)Ensembl
GRCm381664,852,001 - 64,859,491 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1664,851,996 - 64,859,507 (+)EnsemblGRCm38mm10GRCm38
MGSCv371664,851,911 - 64,859,317 (+)NCBIGRCm37mm9NCBIm37
MGSCv361664,794,287 - 64,801,693 (+)NCBImm8
Celera1665,146,563 - 65,153,921 (+)NCBICelera
Cytogenetic Map16C1.3NCBI
Cggbp1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0NW_0049554075,434,954 - 5,443,713 (+)NCBIChiLan1.0ChiLan1.0
CGGBP1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.1390,301,865 - 90,400,416 (-)NCBIpanpan1.1PanPan1.1panPan2
Mhudiblu_PPA_v0388,190,366 - 88,197,367 (-)NCBIMhudiblu_PPA_v0panPan3
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 (+)NCBI
ROS_Cfam_1.031190,831 - 197,873 (+)NCBI
UMICH_Zoey_3.131170,542 - 177,568 (+)NCBI
UNSW_CanFamBas_1.031217,820 - 224,830 (+)NCBI
UU_Cfam_GSD_1.031522,514 - 529,544 (+)NCBI
Cggbp1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_0244049711,683,228 - 1,690,399 (+)NCBI
SpeTri2.0NW_0049366101,683,315 - 1,690,402 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
CGGBP1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl13167,895,997 - 167,902,937 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.113167,895,973 - 167,902,672 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
CGGBP1
(Chlorocebus sabaeus - African green monkey)
Vervet AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12288,774,978 - 88,871,528 (+)NCBI
ChlSab1.1 Ensembl2288,867,675 - 88,868,175 (+)Ensembl
Cggbp1
(Heterocephalus glaber - naked mole-rat)
Molerat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_0046247894,443,540 - 4,448,702 (-)NCBI

Position Markers
RH143271  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2112,566,505 - 2,566,645 (+)MAPPER
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 (+)MAPPER
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 (+)MAPPER
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


QTLs in Region (Rnor_6.0)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1598842Glom10Glomerulus QTL 103.4kidney glomerulus morphology trait (VT:0005325)index of glomerular damage (CMO:0001135)11133867429Rat
1300147Bp187Blood pressure QTL 1873.67arterial blood pressure trait (VT:2000000)blood pressure time series experimental set point of the baroreceptor response (CMO:0002593)11172720192Rat
1558659Tescar1Testicular tumor resistance QTL 13.9testis integrity trait (VT:0010572)percentage of study population developing testis tumors during a period of time (CMO:0001261)1132503169342559Rat

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.


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 3 40 56 40 19 40 7 7 74 35 39 11 7
Low 3 1 1 1 1 4 2 1
Below cutoff

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000000909   ⟹   ENSRNOP00000000909
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
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
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
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
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:
RefSeq Acc Id: XM_008768528   ⟹   XP_008766750
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0111,910,818 - 1,915,603 (+)NCBI
Sequence:
RefSeq Acc Id: XM_039088230   ⟹   XP_038944158
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2112,565,629 - 2,572,869 (+)NCBI
Protein Sequences
Protein RefSeqs NP_001099370 (Get FASTA)   NCBI Sequence Viewer  
  XP_006248037 (Get FASTA)   NCBI Sequence Viewer  
  XP_038944158 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein EDL75902 (Get FASTA)   NCBI Sequence Viewer  
Reference Sequences
RefSeq Acc Id: NP_001099370   ⟸   NM_001105900
- UniProtKB: D4ADB4 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006248037   ⟸   XM_006247975
- Peptide Label: isoform X1
- UniProtKB: D4ADB4 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_008766750   ⟸   XM_008768528
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: ENSRNOP00000000909   ⟸   ENSRNOT00000000909
RefSeq Acc Id: XP_038944158   ⟸   XM_039088230
- Peptide Label: isoform X1

Transcriptome

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


Strain Variation

Strain Sequence Variants (Rnor 6.0)
ACI/EurMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
ACI/EurMcwi (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
ACI/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
BBDP/Wor (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
BN/SsN (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
Buf/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
COP/CrCrl (MCW & UW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
University of Wisconsin (Dr. James Shull)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Charles River Laboratories
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob) and UW Madison (Dr. James Shull)
F344/NCrl (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
F344/NRrrc (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
FHH/EurMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
FHH/EurMcwi (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
FHL/EurMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
FHL/EurMcwi (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
GH/OmrMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
GK/Ox (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LE/Stm (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LEW/Crl (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LEW/NCrlBR (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LH/MavRrrc (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LL/MavRrrc (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LN/MavRrrc (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
M520/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
MHS/Gib (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
MNS/Gib (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
MR/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
SBH/Ygl (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: SBH/Ygl sequenced by MCW
SBH/Ygl (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SBN/Ygl (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: SBN/Ygl sequenced by MCW
SBN/Ygl (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SHR/NHsd (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SHRSP/Gcrc (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SR/JrHsd (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Harlan Laboratories
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
SR/JrHsd (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SS/Jr (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SS/JrHsdMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
SS/JrHsdMcwi (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WAG/Rij (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/Gcrc (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
WKY/NCrl (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/NHsd (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WN/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1308129 AgrOrtholog
Ensembl Genes ENSRNOG00000000718 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000000909 ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000000909 ENTREZGENE, UniProtKB/TrEMBL
InterPro Cggbp1 UniProtKB/TrEMBL
KEGG Report rno:288353 UniProtKB/TrEMBL
NCBI Gene 288353 ENTREZGENE
PANTHER PTHR32344 UniProtKB/TrEMBL
PhenoGen Cggbp1 PhenoGen
UniProt 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