Ephb2 (Eph receptor B2) - Rat Genome Database
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Gene: Ephb2 (Eph receptor B2) Rattus norvegicus
Analyze
Symbol: Ephb2
Name: Eph receptor B2
RGD ID: 1564232
Description: Predicted to have several functions, including amyloid-beta binding activity; identical protein binding activity; and transmembrane signaling receptor activity. Involved in positive regulation of gene expression and positive regulation of protein localization to plasma membrane. Predicted to localize to several cellular components, including glutamatergic synapse; integral component of synaptic membrane; and neuronal cell body. Human ortholog(s) of this gene implicated in blood platelet disease. Orthologous to human EPHB2 (EPH receptor B2); PARTICIPATES IN ephrin - ephrin receptor bidirectional signaling axis; syndecan signaling pathway; INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; 2,3,7,8-Tetrachlorodibenzofuran; 6-propyl-2-thiouracil.
Type: protein-coding
RefSeq Status: VALIDATED
Also known as: ephrin type-B receptor 2; LOC313633; RGD1564232; similar to Ephb2 protein
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
NCBI Annotation Information: Annotation category: partial on reference assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rnor_6.05155,024,478 - 155,143,539 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl5155,022,493 - 155,204,456 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.05158,789,192 - 158,907,248 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
Rnor_5.05156,786,985 - 156,811,195 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.45155,423,035 - 155,605,384 (-)NCBIRGSC3.4rn4RGSC3.4
Celera5147,297,353 - 147,415,432 (-)NCBICelera
Cytogenetic Map5q36NCBI
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
Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process
angiogenesis  (ISO)
animal organ morphogenesis  (ISO)
axon guidance  (IBA,ISO)
axonal fasciculation  (ISO)
biological_process  (ND)
camera-type eye morphogenesis  (ISO)
cell morphogenesis  (ISO)
central nervous system projection neuron axonogenesis  (IBA,ISO)
commissural neuron axon guidance  (ISO)
corpus callosum development  (ISO)
dendritic spine development  (ISO)
dendritic spine morphogenesis  (ISO)
ephrin receptor signaling pathway  (ISO)
inactivation of MAPKK activity  (ISO)
inner ear morphogenesis  (ISO)
learning  (ISO)
learning or memory  (ISO)
multicellular organism development  (IBA)
negative regulation of axonogenesis  (ISO)
negative regulation of ERK1 and ERK2 cascade  (ISO)
negative regulation of NMDA glutamate receptor activity  (ISO)
negative regulation of protein phosphorylation  (ISO)
negative regulation of Ras protein signal transduction  (ISO)
neuron projection retraction  (ISO)
optic nerve morphogenesis  (ISO)
peptidyl-tyrosine phosphorylation  (ISO)
phosphorylation  (ISO)
positive regulation of gene expression  (IMP)
positive regulation of kinase activity  (IBA)
positive regulation of long-term neuronal synaptic plasticity  (ISO)
positive regulation of long-term synaptic potentiation  (ISO)
positive regulation of NMDA glutamate receptor activity  (ISO)
positive regulation of protein localization to plasma membrane  (IMP)
positive regulation of synapse assembly  (ISO)
positive regulation of synaptic plasticity  (ISO)
postsynaptic membrane assembly  (IDA,IMP)
protein phosphorylation  (ISO)
regulation of axonogenesis  (ISO)
regulation of blood coagulation  (ISO)
regulation of body fluid levels  (ISO)
regulation of neuronal synaptic plasticity  (ISO)
regulation of synapse assembly  (ISO)
retinal ganglion cell axon guidance  (ISO)
roof of mouth development  (ISO)
trans-synaptic signaling by trans-synaptic complex, modulating synaptic transmission  (ISO)
transmembrane receptor protein tyrosine kinase signaling pathway  (IBA,ISO)
urogenital system development  (ISO)

Molecular Pathway Annotations     Click to see Annotation Detail View
References

Additional References at PubMed
PMID:8689685   PMID:8947026   PMID:9883737   PMID:9990854   PMID:10839360   PMID:11532925   PMID:11585923   PMID:11754835   PMID:11754836   PMID:11780069   PMID:12052960   PMID:12971893  
PMID:14691139   PMID:14988728   PMID:15223334   PMID:16977320   PMID:17122040   PMID:17310244   PMID:17440041   PMID:17686994   PMID:18410519   PMID:19302865   PMID:21029865   PMID:21364901  
PMID:21471370   PMID:21608225   PMID:21746865   PMID:23831214   PMID:23881165   PMID:25834064   PMID:25922200   PMID:28276447   PMID:28358367   PMID:29731254   PMID:30213874  


Genomics

Comparative Map Data
Ephb2
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rnor_6.05155,024,478 - 155,143,539 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl5155,022,493 - 155,204,456 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.05158,789,192 - 158,907,248 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
Rnor_5.05156,786,985 - 156,811,195 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.45155,423,035 - 155,605,384 (-)NCBIRGSC3.4rn4RGSC3.4
Celera5147,297,353 - 147,415,432 (-)NCBICelera
Cytogenetic Map5q36NCBI
EPHB2
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl122,710,839 - 22,921,500 (+)EnsemblGRCh38hg38GRCh38
GRCh38122,710,770 - 22,921,500 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh37123,037,263 - 23,241,823 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36122,909,918 - 23,114,410 (+)NCBINCBI36hg18NCBI36
Celera121,361,651 - 21,563,983 (+)NCBI
Cytogenetic Map1p36.12NCBI
HuRef121,351,920 - 21,485,793 (+)NCBIHuRef
CHM1_1123,149,831 - 23,360,325 (+)NCBICHM1_1
Ephb2
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm394136,374,850 - 136,563,637 (-)NCBIGRCm39mm39
GRCm384136,647,536 - 136,836,326 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl4136,647,539 - 136,835,988 (-)EnsemblGRCm38mm10GRCm38
MGSCv374136,209,523 - 136,391,850 (-)NCBIGRCm37mm9NCBIm37
MGSCv364135,925,684 - 136,108,011 (-)NCBImm8
Celera4134,853,290 - 135,040,552 (-)NCBICelera
Cytogenetic Map4D3NCBI
cM Map469.0NCBI
Ephb2
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554522,844,713 - 2,980,445 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049554522,844,713 - 2,986,790 (+)NCBIChiLan1.0ChiLan1.0
EPHB2
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.1122,914,584 - 23,054,752 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl122,912,570 - 23,047,118 (+)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v0121,895,961 - 22,107,649 (+)NCBIMhudiblu_PPA_v0panPan3
EPHB2
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1 Ensembl276,428,203 - 76,612,786 (-)EnsemblCanFam3.1canFam3CanFam3.1
CanFam3.1276,427,112 - 76,551,494 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
Ephb2
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
SpeTri2.0NW_0049364748,109,800 - 8,203,106 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
EPHB2
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl680,649,143 - 80,843,567 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1680,649,098 - 80,849,979 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2674,689,973 - 74,878,715 (+)NCBISscrofa10.2Sscrofa10.2susScr3
EPHB2
(Chlorocebus sabaeus - African green monkey)
Vervet AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1 Ensembl20109,746,925 - 109,890,777 (-)Ensembl
ChlSab1.120109,747,883 - 109,954,936 (-)NCBI
Ephb2
(Heterocephalus glaber - naked mole-rat)
Molerat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_0046247647,421,818 - 7,599,800 (+)NCBI

Position Markers
D5Rat41  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.05155,051,873 - 155,052,001NCBIRnor6.0
Rnor_5.05158,816,587 - 158,816,715UniSTSRnor5.0
RGSC_v3.45155,450,540 - 155,450,798RGDRGSC3.4
RGSC_v3.45155,450,641 - 155,450,769UniSTSRGSC3.4
RGSC_v3.15155,460,680 - 155,460,808RGD
Celera5147,324,795 - 147,324,923UniSTS
Cytogenetic Map5q36UniSTS
RH 3.4 Map51008.9RGD
RH 3.4 Map51008.9UniSTS
FHH x ACI Map584.23UniSTS
FHH x ACI Map584.23RGD
D5Uwm43  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.05155,136,406 - 155,136,543NCBIRnor6.0
Rnor_5.05158,900,115 - 158,900,252UniSTSRnor5.0
RGSC_v3.45155,536,222 - 155,536,392RGDRGSC3.4
RGSC_v3.45155,536,223 - 155,536,392UniSTSRGSC3.4
RGSC_v3.15155,546,261 - 155,546,431RGD
Celera5147,408,299 - 147,408,436UniSTS
Cytogenetic Map5q36UniSTS
RH131438  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.05155,022,880 - 155,023,080NCBIRnor6.0
Rnor_5.05158,787,594 - 158,787,794UniSTSRnor5.0
RGSC_v3.45155,421,437 - 155,421,637UniSTSRGSC3.4
Celera5147,295,755 - 147,295,955UniSTS
Cytogenetic Map5q36UniSTS
RH 3.4 Map51007.9UniSTS
UNH1020  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.05155,115,890 - 155,116,431NCBIRnor6.0
Rnor_5.05158,879,599 - 158,880,140UniSTSRnor5.0
RGSC_v3.45155,516,031 - 155,516,572UniSTSRGSC3.4
Celera5147,388,128 - 147,388,669UniSTS
Cytogenetic Map5q36UniSTS


QTLs in Region (Rnor_6.0)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
2302369Scl60Serum cholesterol level QTL 603.13blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)5149568588167739697Rat
631263Cm24Cardiac mass QTL 243.5heart mass (VT:0007028)heart left ventricle weight to body weight ratio (CMO:0000530)5149832180164807402Rat
61444Strs2Sensitivity to stroke QTL 24.7cerebrum integrity trait (VT:0010549)post-insult time to onset of cerebrovascular lesion (CMO:0002343)5142309061173707219Rat
70156Niddm30Non-insulin dependent diabetes mellitus QTL 303.98blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)5134502140157212422Rat
724525Bp147Blood pressure QTL 1474.30.0001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)5132551937173707219Rat
1331721Bp210Blood pressure QTL 2103.413arterial blood pressure trait (VT:2000000)blood pressure time series experimental set point of the baroreceptor response (CMO:0002593)5149029982173687766Rat
1298089Scl14Serum cholesterol level QTL 145.80.0004blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)5114140832159140832Rat
631562Apr2Acute phase response QTL 23.7blood murinoglobulin 1 amount (VT:0010597)plasma murinoglobulin 1 level (CMO:0001931)5142307322173707219Rat
738018Anxrr4Anxiety related response QTL 45.1exploratory behavior trait (VT:0010471)percentage of entries into a discrete space in an experimental apparatus (CMO:0000961)5136354114173707219Rat
631505Bp103Blood pressure QTL 1033.2arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)5138154677172402610Rat
1302790Scl20Serum cholesterol level QTL 206.40.0001blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)584963058173504662Rat
1641920Colcs1Colorectal carcinoma susceptibility QTL 12.990.0055intestine integrity trait (VT:0010554)benign colorectal tumor surface area measurement (CMO:0001799)5128687766173687766Rat
1598819Bp292Blood pressure QTL 2924.3arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)5133943857173707219Rat
1598847Cm62Cardiac mass QTL 623.4heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)5114140832159140832Rat
1598861Cm64Cardiac mass QTL 642.9heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)5133943857173707219Rat
2293642Bss37Bone structure and strength QTL 374.640.0001femur strength trait (VT:0010010)femur ultimate force (CMO:0001675)5125455818157225114Rat
634349Bp139Blood pressure QTL 1390.001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)5134197905173707219Rat
1578766Tcas11Tongue tumor susceptibility QTL 114.12tongue integrity trait (VT:0010553)number of squamous cell tumors of the tongue with diameter greater than 3 mm (CMO:0001950)547745646167946134Rat
1300119Bp180Blood pressure QTL 1803.82arterial blood pressure trait (VT:2000000)blood pressure time series experimental set point of the baroreceptor response (CMO:0002593)5150340838164298744Rat
1354598Srn6Serum renin concentration QTL 63.8blood renin amount (VT:0003349)plasma renin activity level (CMO:0000116)571552569157225114Rat
2317056Wbc3White blood cell count QTL 32.510.01leukocyte quantity (VT:0000217)white blood cell count (CMO:0000027)5111278451156278451Rat
1549838Bss4Bone structure and strength QTL 49.2femur strength trait (VT:0010010)femur midshaft polar moment of inertia (CMO:0001669)5112279412157279412Rat
2313096Bmd78Bone mineral density QTL 783.10.0001tibia mineral mass (VT:1000283)total volumetric bone mineral density (CMO:0001728)5150360936167946134Rat
61393Bp7Blood pressure QTL 74.50.0001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)561612600168109659Rat
8694441Bw169Body weight QTL 16917.610.001retroperitoneal fat pad mass (VT:0010430)retroperitoneal fat pad weight to body weight ratio (CMO:0000635)5116767924161767924Rat
7794791Mcs33Mammary carcinoma susceptibility QTL 331.93mammary gland integrity trait (VT:0010552)mammary tumor incidence/prevalence measurement (CMO:0000946)5136640731173707219Rat
8552908Pigfal4Plasma insulin-like growth factor 1 level QTL 46.6blood insulin-like growth factor amount (VT:0010479)plasma insulin-like growth factor 1 level (CMO:0001299)5134712342173707219Rat
8694198Abfw3Abdominal fat weight QTL 316.130.001visceral adipose mass (VT:0010063)abdominal fat pad weight to body weight ratio (CMO:0000095)5116767924161767924Rat
8694389Bw160Body weight QTL 1606.170.001body lean mass (VT:0010483)lean tissue morphological measurement (CMO:0002184)5116767924161767924Rat
8552960Pigfal15Plasma insulin-like growth factor 1 level QTL 15blood insulin-like growth factor amount (VT:0010479)plasma insulin-like growth factor 1 level (CMO:0001299)5116767924161767924Rat
8694169Bw148Body weight QTL 14850.001body mass (VT:0001259)body weight gain (CMO:0000420)5134712342173707219Rat
7207488Bss110Bone structure and strength QTL 18.4femur strength trait (VT:0010010)femur stiffness (CMO:0001674)5112279412157279412Rat
7207491Bss112Bone structure and strength QTL 1127femur morphology trait (VT:0000559)femur midshaft cortical cross-sectional area (CMO:0001663)5112279412157279412Rat
7207481Bss106Bone structure and strength QTL 1067.9femur strength trait (VT:0010010)femur ultimate force (CMO:0001675)5112279412157279412Rat
7207486Bss109Bone structure and strength QTL 109femur strength trait (VT:0010010)femur total energy absorbed before break (CMO:0001677)5112279412157279412Rat
10053720Scort26Serum corticosterone level QTL 262.060.0147blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)5131077716173707219Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:60
Count of miRNA genes:60
Interacting mature miRNAs:60
Transcripts:ENSRNOT00000016983
Prediction methods:Miranda, 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
Medium 2 6 10 4 6 4 59 20 28
Low 1 23 20 10 13 10 5 5 15 15 10 11 5
Below cutoff 14 25 25 25 3 6 3 3

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000016983   ⟹   ENSRNOP00000016983
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl5155,023,006 - 155,143,539 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000089574   ⟹   ENSRNOP00000070517
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl5155,022,493 - 155,204,456 (-)Ensembl
RefSeq Acc Id: NM_001127319   ⟹   NP_001120791
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.05155,024,478 - 155,143,539 (-)NCBI
Rnor_5.05158,789,192 - 158,907,248 (-)NCBI
RGSC_v3.45155,423,035 - 155,605,384 (-)RGD
Celera5147,297,353 - 147,415,432 (-)RGD
Sequence:
Protein Sequences
Protein RefSeqs NP_001120791 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAY67785 (Get FASTA)   NCBI Sequence Viewer  
  EDL80822 (Get FASTA)   NCBI Sequence Viewer  
Reference Sequences
RefSeq Acc Id: NP_001120791   ⟸   NM_001127319
- Peptide Label: precursor
- Sequence:
RefSeq Acc Id: ENSRNOP00000070517   ⟸   ENSRNOT00000089574
RefSeq Acc Id: ENSRNOP00000016983   ⟸   ENSRNOT00000016983
Protein Domains
Eph LBD   Fibronectin type-III   Protein kinase   SAM

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)
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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)
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)
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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:1564232 AgrOrtholog
Ensembl Genes ENSRNOG00000012531 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000016983 ENTREZGENE, UniProtKB/TrEMBL
  ENSRNOP00000070517 UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000016983 ENTREZGENE, UniProtKB/TrEMBL
  ENSRNOT00000089574 UniProtKB/TrEMBL
Gene3D-CATH 1.10.150.50 UniProtKB/TrEMBL
  2.60.120.260 UniProtKB/TrEMBL
  2.60.40.10 UniProtKB/TrEMBL
InterPro Eph_TM UniProtKB/TrEMBL
  EphB2_rcpt_lig-bd UniProtKB/TrEMBL
  Ephrin_rcpt_lig-bd UniProtKB/TrEMBL
  FN3_sf UniProtKB/TrEMBL
  FN_III UniProtKB/TrEMBL
  Galactose-bd-like UniProtKB/TrEMBL
  Growth_fac_rcpt UniProtKB/TrEMBL
  Ig-like_fold UniProtKB/TrEMBL
  Kinase-like_dom UniProtKB/TrEMBL
  Prot_kinase_cat_dom UniProtKB/TrEMBL
  Protein_kinase_ATP_BS UniProtKB/TrEMBL
  SAM UniProtKB/TrEMBL
  SAM_type UniProtKB/TrEMBL
  Ser-Thr/Tyr_kinase UniProtKB/TrEMBL
  Tyr-kin_ephrin_A/B_rcpt-like UniProtKB/TrEMBL
  Tyr_kinase_AS UniProtKB/TrEMBL
  Tyr_kinase_cat_dom UniProtKB/TrEMBL
  Tyr_kinase_ephrin_rcpt UniProtKB/TrEMBL
  Tyr_kinase_rcpt_V_CS UniProtKB/TrEMBL
KEGG Report rno:313633 UniProtKB/TrEMBL
NCBI Gene 313633 ENTREZGENE
Pfam EphA2_TM UniProtKB/TrEMBL
  Ephrin_lbd UniProtKB/TrEMBL
  fn3 UniProtKB/TrEMBL
  GCC2_GCC3 UniProtKB/TrEMBL
  Pkinase_Tyr UniProtKB/TrEMBL
  SAM_1 UniProtKB/TrEMBL
PhenoGen Ephb2 PhenoGen
PIRSF TyrPK_ephrin_receptor UniProtKB/TrEMBL
PRINTS TYRKINASE UniProtKB/TrEMBL
PROSITE EPH_LBD UniProtKB/TrEMBL
  FN3 UniProtKB/TrEMBL
  PROTEIN_KINASE_ATP UniProtKB/TrEMBL
  PROTEIN_KINASE_DOM UniProtKB/TrEMBL
  PROTEIN_KINASE_TYR UniProtKB/TrEMBL
  RECEPTOR_TYR_KIN_V_1 UniProtKB/TrEMBL
  RECEPTOR_TYR_KIN_V_2 UniProtKB/TrEMBL
  SAM_DOMAIN UniProtKB/TrEMBL
SMART EPH_lbd UniProtKB/TrEMBL
  Ephrin_rec_like UniProtKB/TrEMBL
  FN3 UniProtKB/TrEMBL
  SAM UniProtKB/TrEMBL
  TyrKc UniProtKB/TrEMBL
Superfamily-SCOP FN_III-like UniProtKB/TrEMBL
  Gal_bind_like UniProtKB/TrEMBL
  Grow_fac_recept UniProtKB/TrEMBL
  Kinase_like UniProtKB/TrEMBL
  SAM_homology UniProtKB/TrEMBL
UniGene Rn.229866 ENTREZGENE
UniProt A0A0G2JY48_RAT UniProtKB/TrEMBL
  B2B9B0_RAT UniProtKB/TrEMBL
  F1MAJ0_RAT UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2008-04-30 Ephb2  Eph receptor B2   Ephb2_predicted  Eph receptor B2 (predicted)  'predicted' is removed 2292626 APPROVED
2006-03-30 Ephb2_predicted  Eph receptor B2 (predicted)  RGD1564232_predicted  similar to Ephb2 protein (predicted)  Symbol and Name updated 1299863 APPROVED
2006-03-07 RGD1564232_predicted  similar to Ephb2 protein (predicted)  LOC313633  similar to Ephb2 protein  Symbol and Name status set to approved 1299863 APPROVED
2006-02-09 LOC313633  similar to Ephb2 protein      Symbol and Name status set to provisional 70820 PROVISIONAL