Rbbp8 (RB binding protein 8, endonuclease) - Rat Genome Database

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Gene: Rbbp8 (RB binding protein 8, endonuclease) Rattus norvegicus
Analyze
Symbol: Rbbp8
Name: RB binding protein 8, endonuclease
RGD ID: 1308872
Description: Predicted to have several functions, including DNA binding activity; RNA polymerase II repressing transcription factor binding activity; and single-stranded DNA endodeoxyribonuclease activity. Involved in response to estradiol. Predicted to localize to nucleoplasm; site of double-strand break; and transcription repressor complex. Human ortholog(s) of this gene implicated in Seckel syndrome 2. Orthologous to human RBBP8 (RB binding protein 8, endonuclease); PARTICIPATES IN ataxia telangiectasia-mutated (ATM) signaling pathway; homologous recombination pathway of double-strand break repair; Notch signaling pathway; INTERACTS WITH acetamide; bisphenol A; endosulfan.
Type: protein-coding
RefSeq Status: PROVISIONAL
Also known as: ctBP-interacting protein; CtIP; DNA endonuclease RBBP8; LOC291787; RBBP-8; retinoblastoma binding protein 8; retinoblastoma-binding protein 8; retinoblastoma-interacting protein and myosin-like; RGD1308872; RIM; SAE2; similar to Retinoblastoma-binding protein 8 (RBBP-8) (CtBP interacting protein) (CtIP) (Retinoblastoma-interacting protein and myosin-like) (RIM); sporulation in the absence of SPO11 protein 2 homolog
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
mRatBN7.2182,922,985 - 2,988,851 (+)NCBI
Rnor_6.0 Ensembl183,162,543 - 3,227,688 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.0183,134,630 - 3,227,702 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.0183,173,428 - 3,239,961 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4183,266,565 - 3,333,153 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.1183,269,885 - 3,333,117 (+)NCBI
Celera182,790,129 - 2,855,180 (+)NCBICelera
Cytogenetic Map18p13NCBI
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
(-)-demecolcine  (ISO)
1,2-dichloroethane  (ISO)
1,2-dimethylhydrazine  (ISO)
17alpha-ethynylestradiol  (ISO)
17beta-estradiol  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (ISO)
2,3-dimethoxynaphthalene-1,4-dione  (ISO)
2-methylcholine  (ISO)
acetamide  (EXP)
aflatoxin M1  (ISO)
all-trans-retinoic acid  (ISO)
amiodarone  (ISO)
Aroclor 1254  (ISO)
benzo[a]pyrene  (ISO)
bisphenol A  (EXP,ISO)
Brevetoxin B  (ISO)
cadmium dichloride  (ISO)
calcitriol  (ISO)
ciguatoxin CTX1B  (ISO)
clomiphene  (ISO)
copper(II) sulfate  (ISO)
coumestrol  (ISO)
CU-O LINKAGE  (ISO)
cyclosporin A  (ISO)
cyproconazole  (ISO)
daidzein  (ISO)
diclofenac  (ISO)
dicrotophos  (ISO)
doxorubicin  (ISO)
endosulfan  (EXP)
Enterolactone  (ISO)
epoxiconazole  (ISO)
estrone  (ISO)
ethanol  (ISO)
flutamide  (EXP)
folic acid  (ISO)
fulvestrant  (ISO)
genistein  (ISO)
hexestrol  (ISO)
ketamine  (EXP)
lead(0)  (ISO)
lead(2+)  (ISO)
mestranol  (ISO)
mitoxantrone  (ISO)
oxaliplatin  (EXP)
paracetamol  (ISO)
paraquat  (ISO)
phenobarbital  (ISO)
phorbol 13-acetate 12-myristate  (ISO)
pinosylvin  (ISO)
pirinixic acid  (ISO)
pregnenolone 16alpha-carbonitrile  (ISO)
progesterone  (ISO)
propiconazole  (ISO)
quercetin  (ISO)
raloxifene  (ISO)
resveratrol  (ISO)
sodium fluoride  (ISO)
succimer  (ISO)
sunitinib  (ISO)
tert-butyl hydroperoxide  (ISO)
testosterone  (ISO)
tetrachloromethane  (ISO)
topotecan  (EXP)
trans-pinosylvin  (ISO)
triadimefon  (ISO)
trichostatin A  (ISO)
trimellitic anhydride  (ISO)
troglitazone  (ISO)
tungsten  (ISO)
valdecoxib  (EXP)
valproic acid  (ISO)
vinclozolin  (EXP)
vincristine  (ISO)

References

Additional References at PubMed
PMID:12477932   PMID:15632090   PMID:15831459   PMID:16287852   PMID:18716619   PMID:19202191   PMID:23144634   PMID:25558984  


Genomics

Comparative Map Data
Rbbp8
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2182,922,985 - 2,988,851 (+)NCBI
Rnor_6.0 Ensembl183,162,543 - 3,227,688 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.0183,134,630 - 3,227,702 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.0183,173,428 - 3,239,961 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4183,266,565 - 3,333,153 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.1183,269,885 - 3,333,117 (+)NCBI
Celera182,790,129 - 2,855,180 (+)NCBICelera
Cytogenetic Map18p13NCBI
RBBP8
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl1822,798,261 - 23,026,488 (+)EnsemblGRCh38hg38GRCh38
GRCh381822,914,121 - 23,026,486 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh371820,513,291 - 20,606,449 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361818,767,293 - 18,860,447 (+)NCBINCBI36hg18NCBI36
Build 341818,767,836 - 18,860,445NCBI
Celera1817,326,979 - 17,420,514 (+)NCBI
Cytogenetic Map18q11.2NCBI
HuRef1817,367,932 - 17,460,782 (+)NCBIHuRef
CHM1_11820,440,466 - 20,533,636 (+)NCBICHM1_1
Rbbp8
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391811,766,333 - 11,876,264 (+)NCBIGRCm39mm39
GRCm39 Ensembl1811,766,333 - 11,878,278 (+)Ensembl
GRCm381811,633,276 - 11,743,207 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1811,633,276 - 11,745,221 (+)EnsemblGRCm38mm10GRCm38
MGSCv371811,816,351 - 11,901,716 (+)NCBIGRCm37mm9NCBIm37
MGSCv361811,776,812 - 11,886,743 (+)NCBImm8
Celera1811,932,048 - 11,982,146 (+)NCBICelera
Cytogenetic Map18A1NCBI
Rbbp8
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495540211,245,819 - 11,335,367 (+)EnsemblChiLan1.0
ChiLan1.0NW_00495540211,245,857 - 11,331,872 (+)NCBIChiLan1.0ChiLan1.0
RBBP8
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.11819,811,478 - 19,903,522 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1819,811,989 - 19,903,522 (+)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v01816,181,652 - 16,274,597 (+)NCBIMhudiblu_PPA_v0panPan3
RBBP8
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1765,218,288 - 65,319,696 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl765,218,297 - 65,297,099 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha764,671,375 - 64,772,805 (-)NCBI
ROS_Cfam_1.0765,281,737 - 65,383,259 (-)NCBI
UMICH_Zoey_3.1764,950,000 - 65,050,453 (-)NCBI
UNSW_CanFamBas_1.0764,971,408 - 65,071,512 (-)NCBI
UU_Cfam_GSD_1.0765,270,573 - 65,371,708 (-)NCBI
Rbbp8
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440494461,262,082 - 61,350,225 (-)NCBI
SpeTri2.0NW_0049365502,482,915 - 2,554,077 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
RBBP8
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl6107,924,002 - 108,022,669 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.16107,923,921 - 108,020,067 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.26100,453,140 - 100,534,616 (+)NCBISscrofa10.2Sscrofa10.2susScr3
RBBP8
(Chlorocebus sabaeus - African green monkey)
Vervet AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11857,501,070 - 57,617,301 (-)NCBI
ChlSab1.1 Ensembl1857,501,271 - 57,597,670 (-)Ensembl
Rbbp8
(Heterocephalus glaber - naked mole-rat)
Molerat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_0046247709,026,592 - 9,100,818 (-)NCBI


QTLs in Region (Rnor_6.0)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
9590248Scort10Serum corticosterone level QTL 1019.710.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)18125999214Rat
8552968Pigfal19Plasma insulin-like growth factor 1 level QTL 1911.4blood insulin-like growth factor amount (VT:0010479)plasma insulin-like growth factor 1 level (CMO:0001299)18125999214Rat
61388Bp2Blood pressure QTL 23.23arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)18135097280Rat
2300180Bmd67Bone mineral density QTL 674.80.0001femur mineral mass (VT:0010011)bone mineral density (CMO:0001226)18138195967Rat
2293661Bss50Bone structure and strength QTL 504.640.0003lumbar vertebra size trait (VT:0010518)lumbar vertebra trabecular cross-sectional area (CMO:0001692)18138195967Rat
9589153Insul31Insulin level QTL 317.150.05blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)18138753381Rat
1641910Colcr3Colorectal carcinoma resistance QTL 35.020.000007intestine integrity trait (VT:0010554)poorly differentiated malignant colorectal tumor surface area measurement (CMO:0002078)18247709623184414Rat
1641910Colcr3Colorectal carcinoma resistance QTL 35.020.000007intestine integrity trait (VT:0010554)poorly differentiated malignant colorectal tumor number (CMO:0002076)18247709623184414Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:168
Count of miRNA genes:134
Interacting mature miRNAs:145
Transcripts:ENSRNOT00000017291
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.


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 26 36 21 19 21 74 35 38 11
Low 17 21 20 20 8 10 3 8
Below cutoff 1

Sequence

Nucleotide Sequences
RefSeq Transcripts NM_001134417 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006254407 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006254408 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008771939 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008771940 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017600925 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017600926 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017600927 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039096747 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039096748 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039096749 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039096750 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039096751 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039096752 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039096753 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039096754 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide BC162012 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CH474073 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ209715 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ230337 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JACYVU010000298 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENSRNOT00000017291   ⟹   ENSRNOP00000017291
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl183,163,214 - 3,227,688 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000078615   ⟹   ENSRNOP00000069577
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl183,162,543 - 3,216,996 (+)Ensembl
RefSeq Acc Id: NM_001134417   ⟹   NP_001127889
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2182,923,687 - 2,988,851 (+)NCBI
Rnor_6.0183,163,214 - 3,227,702 (+)NCBI
Rnor_5.0183,173,428 - 3,239,961 (+)NCBI
RGSC_v3.4183,266,565 - 3,333,153 (+)RGD
Celera182,790,129 - 2,855,180 (+)RGD
Sequence:
RefSeq Acc Id: XM_006254407   ⟹   XP_006254469
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0183,163,070 - 3,227,431 (+)NCBI
Rnor_5.0183,173,428 - 3,239,961 (+)NCBI
Sequence:
RefSeq Acc Id: XM_006254408   ⟹   XP_006254470
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0183,162,731 - 3,227,431 (+)NCBI
Rnor_5.0183,173,428 - 3,239,961 (+)NCBI
Sequence:
RefSeq Acc Id: XM_008771939   ⟹   XP_008770161
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0183,162,490 - 3,227,702 (+)NCBI
Sequence:
RefSeq Acc Id: XM_008771940   ⟹   XP_008770162
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0183,134,630 - 3,227,431 (+)NCBI
Sequence:
RefSeq Acc Id: XM_017600925   ⟹   XP_017456414
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0183,162,489 - 3,227,431 (+)NCBI
Sequence:
RefSeq Acc Id: XM_017600926   ⟹   XP_017456415
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0183,162,489 - 3,227,431 (+)NCBI
Sequence:
RefSeq Acc Id: XM_017600927   ⟹   XP_017456416
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0183,162,731 - 3,227,431 (+)NCBI
Sequence:
RefSeq Acc Id: XM_039096747   ⟹   XP_038952675
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2182,923,234 - 2,988,851 (+)NCBI
RefSeq Acc Id: XM_039096748   ⟹   XP_038952676
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2182,923,233 - 2,988,851 (+)NCBI
RefSeq Acc Id: XM_039096749   ⟹   XP_038952677
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2182,922,985 - 2,988,851 (+)NCBI
RefSeq Acc Id: XM_039096750   ⟹   XP_038952678
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2182,923,234 - 2,988,851 (+)NCBI
RefSeq Acc Id: XM_039096751   ⟹   XP_038952679
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2182,923,234 - 2,988,851 (+)NCBI
RefSeq Acc Id: XM_039096752   ⟹   XP_038952680
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2182,923,233 - 2,988,851 (+)NCBI
RefSeq Acc Id: XM_039096753   ⟹   XP_038952681
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2182,923,232 - 2,988,851 (+)NCBI
RefSeq Acc Id: XM_039096754   ⟹   XP_038952682
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2182,927,003 - 2,988,851 (+)NCBI
Reference Sequences
RefSeq Acc Id: NP_001127889   ⟸   NM_001134417
- UniProtKB: B1WC58 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: XP_006254470   ⟸   XM_006254408
- Peptide Label: isoform X4
- Sequence:
RefSeq Acc Id: XP_006254469   ⟸   XM_006254407
- Peptide Label: isoform X4
- Sequence:
RefSeq Acc Id: XP_008770162   ⟸   XM_008771940
- Peptide Label: isoform X4
- Sequence:
RefSeq Acc Id: XP_008770161   ⟸   XM_008771939
- Peptide Label: isoform X5
- Sequence:
RefSeq Acc Id: XP_017456414   ⟸   XM_017600925
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_017456415   ⟸   XM_017600926
- Peptide Label: isoform X2
- Sequence:
RefSeq Acc Id: XP_017456416   ⟸   XM_017600927
- Peptide Label: isoform X3
- Sequence:
RefSeq Acc Id: ENSRNOP00000017291   ⟸   ENSRNOT00000017291
RefSeq Acc Id: ENSRNOP00000069577   ⟸   ENSRNOT00000078615
RefSeq Acc Id: XP_038952677   ⟸   XM_039096749
- Peptide Label: isoform X3
RefSeq Acc Id: XP_038952681   ⟸   XM_039096753
- Peptide Label: isoform X5
RefSeq Acc Id: XP_038952676   ⟸   XM_039096748
- Peptide Label: isoform X2
RefSeq Acc Id: XP_038952680   ⟸   XM_039096752
- Peptide Label: isoform X4
RefSeq Acc Id: XP_038952678   ⟸   XM_039096750
- Peptide Label: isoform X3
RefSeq Acc Id: XP_038952675   ⟸   XM_039096747
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038952679   ⟸   XM_039096751
- Peptide Label: isoform X3
RefSeq Acc Id: XP_038952682   ⟸   XM_039096754
- Peptide Label: isoform X6
Protein Domains
CtIP_N

Transcriptome

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

Promoters
RGD ID:13700638
Promoter ID:EPDNEW_R11157
Type:initiation region
Name:Rbbp8_1
Description:RB binding protein 8, endonuclease
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_6.0183,162,516 - 3,162,576EPDNEW

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)
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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)
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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)
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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)
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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)
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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)
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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)
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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)
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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)
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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)
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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)
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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)
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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)
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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)
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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)
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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)
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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)
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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)
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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)
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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)
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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)
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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)
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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)
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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)
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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)
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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)
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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)
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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)
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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)
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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)
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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)
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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)
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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)
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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)
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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)
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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)
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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:1308872 AgrOrtholog
Ensembl Genes ENSRNOG00000012899 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000017291 UniProtKB/Swiss-Prot
  ENSRNOP00000069577 UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000017291 UniProtKB/Swiss-Prot
  ENSRNOT00000078615 UniProtKB/TrEMBL
IMAGE_CLONE IMAGE:9091712 IMAGE-MGC_LOAD
InterPro CtIP_N UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Ctp1_C UniProtKB/Swiss-Prot
  RBBP8 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  RBBP8-like UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:291787 UniProtKB/Swiss-Prot
MGC_CLONE MGC:187882 IMAGE-MGC_LOAD
NCBI Gene 291787 ENTREZGENE
PANTHER PTHR15107 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PTHR15107:SF4 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam CtIP_N UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SAE2 UniProtKB/Swiss-Prot
PharmGKB RBBP8 RGD
PhenoGen Rbbp8 PhenoGen
UniProt A0A0G2JVQ4_RAT UniProtKB/TrEMBL
  B1WC58 ENTREZGENE, UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2016-06-03 Rbbp8  RB binding protein 8, endonuclease  Rbbp8  retinoblastoma binding protein 8  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-09-24 Rbbp8  retinoblastoma binding protein 8  RGD1308872  similar to Retinoblastoma-binding protein 8 (RBBP-8) (CtBP interacting protein) (CtIP) (Retinoblastoma-interacting protein and myosin-like) (RIM)   Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-04-30 RGD1308872  similar to Retinoblastoma-binding protein 8 (RBBP-8) (CtBP interacting protein) (CtIP) (Retinoblastoma-interacting protein and myosin-like) (RIM)   RGD1308872_predicted  similar to Retinoblastoma-binding protein 8 (RBBP-8) (CtBP interacting protein) (CtIP) (Retinoblastoma-interacting protein and myosin-like) (RIM) (predicted)  'predicted' is removed 2292626 APPROVED
2005-01-20 RGD1308872_predicted  similar to Retinoblastoma-binding protein 8 (RBBP-8) (CtBP interacting protein) (CtIP) (Retinoblastoma-interacting protein and myosin-like) (RIM) (predicted)  LOC291787_predicted    Symbol and Name status set to approved 1331353 APPROVED
2005-01-12 LOC291787_predicted  similar to Retinoblastoma-binding protein 8 (RBBP-8) (CtBP interacting protein) (CtIP) (Retinoblastoma-interacting protein and myosin-like) (RIM) (predicted)      Symbol and Name status set to provisional 70820 PROVISIONAL