Gjb1 (gap junction protein, beta 1) - Rat Genome Database

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Gene: Gjb1 (gap junction protein, beta 1) Rattus norvegicus
Analyze
Symbol: Gjb1
Name: gap junction protein, beta 1
RGD ID: 61926
Description: Exhibits gap junction channel activity. Involved in epididymis development and purine ribonucleotide transport. Localizes to gap junction; lateral plasma membrane; and protein-containing complex. Biomarker of autoimmune thyroiditis and extrahepatic cholestasis. Human ortholog(s) of this gene implicated in Charcot-Marie-Tooth disease X-linked dominant 1. Orthologous to human GJB1 (gap junction protein beta 1); INTERACTS WITH (+)-schisandrin B; 1,2-dimethylhydrazine; 1-naphthyl isothiocyanate.
Type: protein-coding
RefSeq Status: VALIDATED
Also known as: connexin 32; connexin g; connexin-32; Cx32; Cxng; GAP junction 28 kDa liver protein; gap junction beta-1 protein; gap junction membrane channel protein beta 1
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
mRatBN7.2X66,501,848 - 66,509,783 (+)NCBI
Rnor_6.0 EnsemblX71,272,042 - 71,279,977 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.0X71,272,030 - 71,279,973 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.0X72,123,958 - 72,131,901 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4X89,448,873 - 89,456,812 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.1X89,522,360 - 89,530,242 (+)NCBI
CeleraX66,857,755 - 66,865,686 (+)NCBICelera
Cytogenetic MapXq22NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(+)-schisandrin B  (EXP)
1,2-dimethylhydrazine  (EXP,ISO)
1-naphthyl isothiocyanate  (EXP)
17beta-estradiol  (EXP,ISO)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
2-acetamidofluorene  (EXP)
4-hydroxyphenyl retinamide  (ISO)
5-aza-2'-deoxycytidine  (ISO)
5-methoxy-2-\{[(4-methoxy-3,5-dimethylpyridin-2-yl)methyl]sulfinyl\}-1H-benzimidazole  (EXP)
6-propyl-2-thiouracil  (EXP)
acetamide  (EXP)
aflatoxin B1  (EXP,ISO)
aflatoxin B2  (ISO)
all-trans-retinoic acid  (ISO)
amiodarone  (EXP)
ammonium chloride  (EXP)
atrazine  (EXP)
benzbromarone  (EXP)
benzene  (ISO)
benzo[a]pyrene  (ISO)
benzo[b]fluoranthene  (ISO)
benzo[e]pyrene  (ISO)
bis(2-chloroethyl) sulfide  (ISO)
bisphenol A  (EXP,ISO)
buta-1,3-diene  (ISO)
C60 fullerene  (EXP)
carbon nanotube  (ISO)
chlorendic acid  (EXP)
chloroform  (EXP)
cholesterol  (ISO)
choline  (ISO)
chrysene  (ISO)
ciguatoxin CTX1B  (ISO)
ciprofibrate  (EXP)
cisplatin  (ISO)
clofibrate  (EXP)
cobalt dichloride  (EXP)
cocaine  (EXP)
copper(II) sulfate  (ISO)
cyclophosphamide  (ISO)
cyclosporin A  (ISO)
cylindrospermopsin  (ISO)
DDT  (EXP)
dexamethasone  (EXP,ISO)
dimethyl sulfoxide  (EXP)
dimethylarsinic acid  (EXP)
elemental selenium  (ISO)
endosulfan  (EXP)
entinostat  (ISO)
fluoranthene  (EXP,ISO)
flutamide  (EXP)
folic acid  (ISO)
fucoxanthin  (ISO)
gliotoxin  (EXP)
hexachlorobenzene  (EXP)
hydrogen peroxide  (ISO)
L-ethionine  (EXP)
L-methionine  (ISO)
linoleic acid  (ISO)
LY294002  (EXP)
malonaldehyde  (ISO)
mercury dichloride  (EXP,ISO)
methapyrilene  (ISO)
methylarsonic acid  (EXP)
N-acetyl-L-cysteine  (ISO)
N-ethyl-N-(2-hydroxyethyl)nitrosamine  (EXP)
N-ethyl-N-nitrosourea  (EXP)
N-methyl-N-nitrosourea  (ISO)
N-nitrosodiethylamine  (EXP,ISO)
nickel dichloride  (EXP)
ochratoxin A  (EXP)
oleamide  (ISO)
omeprazole  (EXP)
paracetamol  (EXP,ISO)
paraquat  (ISO)
pentachlorophenol  (ISO)
pentobarbital  (EXP)
perfluorononanoic acid  (ISO)
phenanthrene  (EXP)
phenethyl caffeate  (EXP)
phenobarbital  (EXP,ISO)
pirinixic acid  (EXP,ISO)
prednisolone  (ISO)
propanal  (ISO)
pyrene  (EXP)
quercetin  (ISO)
SB 203580  (ISO)
selenium atom  (ISO)
silicon dioxide  (ISO)
sodium arsenite  (ISO)
sodium dodecyl sulfate  (ISO)
tacrolimus hydrate  (ISO)
tamoxifen  (EXP)
tetrachloromethane  (EXP,ISO)
tetraphene  (ISO)
thioacetamide  (EXP)
trimethylarsine oxide  (EXP)
urethane  (ISO)
valproic acid  (ISO)
vancomycin  (ISO)
zoledronic acid  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component

Molecular Function

References

Additional References at PubMed
PMID:1667015   PMID:2987225   PMID:3017758   PMID:3034905   PMID:7593302   PMID:12829745   PMID:12850269   PMID:14637306   PMID:15239104   PMID:15489334   PMID:16679308   PMID:16731531  
PMID:17546509   PMID:18809458   PMID:19297523   PMID:19960225   PMID:20089884   PMID:20578039   PMID:22718765   PMID:22871113   PMID:23023213   PMID:23149765   PMID:24812055   PMID:25254904  
PMID:25530438   PMID:25969535   PMID:26268619   PMID:26494227   PMID:26655499   PMID:27246301   PMID:29116012   PMID:29790387   PMID:30268116  


Genomics

Comparative Map Data
Gjb1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2X66,501,848 - 66,509,783 (+)NCBI
Rnor_6.0 EnsemblX71,272,042 - 71,279,977 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.0X71,272,030 - 71,279,973 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.0X72,123,958 - 72,131,901 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4X89,448,873 - 89,456,812 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.1X89,522,360 - 89,530,242 (+)NCBI
CeleraX66,857,755 - 66,865,686 (+)NCBICelera
Cytogenetic MapXq22NCBI
GJB1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 EnsemblX71,215,194 - 71,225,516 (+)EnsemblGRCh38hg38GRCh38
GRCh38.p13 EnsemblX71,212,811 - 71,225,516 (+)EnsemblGRCh38hg38GRCh38
GRCh38X71,215,239 - 71,225,516 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh37X70,435,089 - 70,445,366 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36X70,351,787 - 70,361,777 (+)NCBINCBI36hg18NCBI36
Build 34X70,226,096 - 70,228,065NCBI
CeleraX70,788,947 - 70,798,946 (+)NCBI
Cytogenetic MapXq13.1NCBI
HuRefX64,252,835 - 64,262,404 (+)NCBIHuRef
CHM1_1X70,328,093 - 70,338,111 (+)NCBICHM1_1
Gjb1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39X100,419,982 - 100,429,235 (+)NCBIGRCm39mm39
GRCm39 EnsemblX100,419,984 - 100,429,235 (+)Ensembl
GRCm38X101,376,376 - 101,385,629 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 EnsemblX101,376,378 - 101,385,629 (+)EnsemblGRCm38mm10GRCm38
MGSCv37X98,572,676 - 98,580,964 (+)NCBIGRCm37mm9NCBIm37
MGSCv36X97,580,056 - 97,588,344 (+)NCBImm8
CeleraX88,294,129 - 88,302,410 (+)NCBICelera
Cytogenetic MapXDNCBI
cM MapX44.06NCBI
Gjb1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495547510,785,996 - 10,787,910 (+)EnsemblChiLan1.0
ChiLan1.0NW_00495547510,779,415 - 10,787,910 (+)NCBIChiLan1.0ChiLan1.0
GJB1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.1X70,538,213 - 70,548,917 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 EnsemblX70,547,110 - 70,547,961 (+)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v0X60,490,579 - 60,492,606 (+)NCBIMhudiblu_PPA_v0panPan3
GJB1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1X55,565,995 - 55,575,332 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 EnsemblX55,573,808 - 55,574,659 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_TashaX46,392,855 - 46,402,183 (+)NCBI
ROS_Cfam_1.0X56,534,870 - 56,544,201 (+)NCBI
UMICH_Zoey_3.1X54,502,814 - 54,512,141 (+)NCBI
UNSW_CanFamBas_1.0X55,834,274 - 55,843,612 (+)NCBI
UU_Cfam_GSD_1.0X55,761,402 - 55,770,733 (+)NCBI
Gjb1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2X46,627,492 - 46,635,864 (-)NCBI
SpeTri2.0NW_004936762389,655 - 398,035 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
GJB1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 EnsemblX57,196,999 - 57,249,886 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1X57,241,990 - 57,249,496 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2X64,844,639 - 64,852,103 (-)NCBISscrofa10.2Sscrofa10.2susScr3
GJB1
(Chlorocebus sabaeus - African green monkey)
Vervet AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1X61,013,991 - 61,019,222 (+)NCBI
ChlSab1.1 EnsemblX61,017,716 - 61,018,567 (+)Ensembl
Gjb1
(Heterocephalus glaber - naked mole-rat)
Molerat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_0046249031,511,347 - 1,519,265 (+)NCBI


QTLs in Region (Rnor_6.0)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
61430Cia18Collagen induced arthritis QTL 183.1joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)X15688119127888215Rat
1598837Memor13Memory QTL 133.2exploratory behavior trait (VT:0010471)difference between time of physical contact/close proximity of test subject and social stimulus during sample phase and test phase (CMO:0002678)X44320616158345622Rat
738035Stresp1Stress response QTL 14.960.000011stress-related behavior trait (VT:0010451)defensive burying - copingX44557974120045269Rat
61431Cia19Collagen induced arthritis QTL 194.4joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)X70352120127888215Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:174
Count of miRNA genes:135
Interacting mature miRNAs:151
Transcripts:ENSRNOT00000004979
Prediction methods:Miranda, Pita, Rnahybrid, 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 1 1 1
Medium 3 40 40 40 21 29 2 3
Low 2 5 7 6 7 21 6 37 8 6
Below cutoff 13 11 10 2 3 18 2 2

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000076034   ⟹   ENSRNOP00000068485
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 EnsemblX71,272,042 - 71,278,791 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000076816   ⟹   ENSRNOP00000068248
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 EnsemblX71,272,045 - 71,279,977 (+)Ensembl
RefSeq Acc Id: NM_017251   ⟹   NP_058947
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2X66,501,848 - 66,509,779 (+)NCBI
Rnor_6.0X71,272,030 - 71,279,969 (+)NCBI
Rnor_5.0X72,123,958 - 72,131,901 (+)NCBI
RGSC_v3.4X89,448,873 - 89,456,812 (+)RGD
CeleraX66,857,755 - 66,865,686 (+)RGD
Sequence:
RefSeq Acc Id: XM_008773255   ⟹   XP_008771477
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2X66,502,799 - 66,509,783 (+)NCBI
Rnor_6.0X71,273,845 - 71,279,973 (+)NCBI
Sequence:
RefSeq Acc Id: XM_017601945   ⟹   XP_017457434
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2X66,501,902 - 66,509,783 (+)NCBI
Rnor_6.0X71,278,037 - 71,279,973 (+)NCBI
Sequence:
Reference Sequences
RefSeq Acc Id: NP_058947   ⟸   NM_017251
- UniProtKB: P08033 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: XP_008771477   ⟸   XM_008773255
- Peptide Label: isoform X1
- UniProtKB: P08033 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: XP_017457434   ⟸   XM_017601945
- Peptide Label: isoform X1
- UniProtKB: P08033 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: ENSRNOP00000068248   ⟸   ENSRNOT00000076816
RefSeq Acc Id: ENSRNOP00000068485   ⟸   ENSRNOT00000076034
Protein Domains
CNX   Connexin_CCC

Transcriptome

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

Promoters
RGD ID:13701876
Promoter ID:EPDNEW_R12400
Type:initiation region
Name:Gjb1_1
Description:gap junction protein, beta 1
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_6.0X71,272,051 - 71,272,111EPDNEW

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)
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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:61926 AgrOrtholog
Ensembl Genes ENSRNOG00000003746 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000068248 ENTREZGENE, UniProtKB/Swiss-Prot
  ENSRNOP00000068485 UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000076034 UniProtKB/TrEMBL
  ENSRNOT00000076816 ENTREZGENE, UniProtKB/Swiss-Prot
Gene3D-CATH 1.20.1440.80 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
IMAGE_CLONE IMAGE:7127952 IMAGE-MGC_LOAD
InterPro Connexin UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Connexin32 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Connexin_CCC UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Connexin_CS UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Connexin_N UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Connexin_N_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:29584 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
MGC_CLONE MGC:93534 IMAGE-MGC_LOAD
NCBI Gene 29584 ENTREZGENE
PANTHER PTHR11984 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam Connexin UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Gjb1 PhenoGen
PRINTS CONNEXIN UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  CONNEXINB1 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PROSITE CONNEXINS_1 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  CONNEXINS_2 UniProtKB/Swiss-Prot
SMART CNX UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Connexin_CCC UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
TIGR TC219925
UniProt A0A096MKE6_RAT UniProtKB/TrEMBL
  A0A654IET2_RAT UniProtKB/TrEMBL
  CXB1_RAT UniProtKB/Swiss-Prot, ENTREZGENE


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2008-05-20 Gjb1  gap junction protein, beta 1  Gjb1  gap junction membrane channel protein beta 1   Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2002-06-10 Gjb1  gap junction membrane channel protein beta 1       Name updated 70584 APPROVED

RGD Curation Notes
Note Type Note Reference
gene_expression expressed in adult epididymis; present between apical cells and principal cells, between narrow cells and principal cells and between clear and principal cells 628541
gene_physical_interaction interacts with other subunits as homomers and heteromers to form gap junction 628541
gene_process may play a role in epididymal development 628541
gene_regulation expression is low throughout the epididymis in young animals and begins to increase in the second and third weeks postnatally 628541