Efnb2 (ephrin B2) - Rat Genome Database

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Gene: Efnb2 (ephrin B2) Rattus norvegicus
Analyze
Symbol: Efnb2
Name: ephrin B2
RGD ID: 1309497
Description: Predicted to enable ephrin receptor binding activity; receptor ligand activity; and transmembrane receptor protein tyrosine kinase activator activity. Involved in cellular response to lipopolysaccharide and presynapse assembly. Located in dendrite. Is active in glutamatergic synapse and presynaptic membrane. Biomarker of irritable bowel syndrome. Human ortholog(s) of this gene implicated in colon carcinoma; colorectal carcinoma; and esophagus squamous cell carcinoma. Orthologous to human EFNB2 (ephrin B2); PARTICIPATES IN ephrin - ephrin receptor bidirectional signaling axis; INTERACTS WITH 17beta-estradiol; 17beta-estradiol 3-benzoate; 2,3,7,8-tetrachlorodibenzodioxine.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: ephrin-B2; LOC306636
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Black Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81687,485,215 - 87,529,224 (+)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl1687,485,198 - 87,529,208 (+)EnsemblGRCr8
mRatBN7.21680,783,389 - 80,827,420 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1680,783,417 - 80,824,391 (+)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx1686,062,447 - 86,103,384 (+)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01689,515,058 - 89,556,010 (+)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01684,759,477 - 84,800,448 (+)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.01686,631,151 - 86,672,050 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1686,631,064 - 86,675,049 (+)Ensemblrn6Rnor6.0
Rnor_5.01686,044,304 - 86,085,652 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.41686,187,639 - 86,228,023 (+)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera1678,561,525 - 78,602,409 (+)NCBICelera
RGSC_v3.11686,173,265 - 86,214,062 (+)NCBI
Cytogenetic Map16q12.5NCBI
JBrowse:




Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(-)-epigallocatechin 3-gallate  (ISO)
1,2-dimethylhydrazine  (ISO)
17beta-estradiol  (EXP,ISO)
17beta-estradiol 3-benzoate  (EXP)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
2,4-dibromophenyl 2,4,5-tribromophenyl ether  (ISO)
2-methylcholine  (ISO)
4,4'-diaminodiphenylmethane  (ISO)
4,4'-sulfonyldiphenol  (ISO)
4-hydroxyphenyl retinamide  (ISO)
5-aza-2'-deoxycytidine  (ISO)
5-fluorouracil  (ISO)
7,12-dimethyltetraphene  (ISO)
acrylamide  (EXP)
actinomycin D  (ISO)
afimoxifene  (ISO)
all-trans-retinoic acid  (ISO)
amphetamine  (EXP)
aristolochic acid A  (ISO)
Aroclor 1254  (EXP)
arsane  (ISO)
arsenic atom  (ISO)
arsenite(3-)  (ISO)
atrazine  (ISO)
benzo[a]pyrene  (ISO)
benzo[a]pyrene diol epoxide I  (ISO)
Benzo[k]fluoranthene  (ISO)
bis(2-ethylhexyl) phthalate  (ISO)
bisphenol A  (EXP,ISO)
bisphenol F  (ISO)
butanal  (ISO)
cadmium atom  (ISO)
cadmium dichloride  (EXP,ISO)
calcitriol  (ISO)
carbon nanotube  (ISO)
celastrol  (ISO)
chlordecone  (ISO)
chloropicrin  (ISO)
chlorpyrifos  (EXP)
choline  (ISO)
chromium(6+)  (ISO)
cisplatin  (ISO)
cocaine  (EXP)
copper atom  (EXP,ISO)
copper(0)  (EXP,ISO)
copper(II) chloride  (ISO)
coumestrol  (ISO)
dibenz[a,h]anthracene  (ISO)
dorsomorphin  (ISO)
Enterolactone  (ISO)
entinostat  (ISO)
flutamide  (EXP)
folic acid  (ISO)
formaldehyde  (ISO)
furan  (EXP)
gedunin  (ISO)
genistein  (ISO)
gentamycin  (EXP)
hydrogen peroxide  (ISO)
isobutanol  (ISO)
L-methionine  (ISO)
lead diacetate  (ISO)
Licochalcone B  (ISO)
lithocholic acid  (ISO)
menadione  (ISO)
methylisothiazolinone  (ISO)
mono(2-ethylhexyl) phthalate  (EXP)
N-acetyl-L-cysteine  (ISO)
nitrofen  (EXP)
ozone  (ISO)
paracetamol  (EXP,ISO)
pentanal  (ISO)
phenobarbital  (ISO)
pirinixic acid  (ISO)
potassium chromate  (ISO)
progesterone  (ISO)
propanal  (ISO)
quercetin  (ISO)
resveratrol  (ISO)
SB 431542  (ISO)
silicon dioxide  (ISO)
sodium arsenite  (EXP,ISO)
streptozocin  (ISO)
sulforaphane  (ISO)
sunitinib  (ISO)
testosterone  (EXP,ISO)
testosterone enanthate  (ISO)
tetrachloromethane  (ISO)
thioacetamide  (EXP)
thiram  (ISO)
titanium dioxide  (ISO)
trichostatin A  (ISO)
trimellitic anhydride  (ISO)
triptonide  (ISO)
tris(2-butoxyethyl) phosphate  (ISO)
troglitazone  (ISO)
tunicamycin  (ISO)
urethane  (ISO)
valproic acid  (ISO)
vinclozolin  (EXP)
zinc atom  (ISO)
zinc(0)  (ISO)
zoledronic acid  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

Molecular Function

Molecular Pathway Annotations     Click to see Annotation Detail View
References

References - curated
# Reference Title Reference Citation
1. DNA damage-induced ephrin-B2 reverse signaling promotes chemoresistance and drives EMT in colorectal carcinoma harboring mutant p53. Alam SK, etal., Cell Death Differ. 2016 Apr;23(4):707-22. doi: 10.1038/cdd.2015.133. Epub 2015 Oct 23.
2. Postsynaptic ephrinB3 promotes shaft glutamatergic synapse formation. Aoto J, etal., J Neurosci. 2007 Jul 11;27(28):7508-19. doi: 10.1523/JNEUROSCI.0705-07.2007.
3. Ephrin-B2 and EphB2 regulation of astrocyte-meningeal fibroblast interactions in response to spinal cord lesions in adult rats. Bundesen LQ, etal., J Neurosci. 2003 Aug 27;23(21):7789-800.
4. Reversing EphB2 depletion rescues cognitive functions in Alzheimer model. Cissé M, etal., Nature. 2011 Jan 6;469(7328):47-52. doi: 10.1038/nature09635. Epub 2010 Nov 28.
5. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
6. Rat ISS GO annotations from GOA human gene data--August 2006 GOA data from the GO Consortium
7. Expression profile of EFNB1, EFNB2, two ligands of EPHB2 in human gastric cancer. Kataoka H, etal., J Cancer Res Clin Oncol. 2002 Jul;128(7):343-8. doi: 10.1007/s00432-002-0355-0. Epub 2002 Jun 26.
8. Increased EphB2 expression predicts cholangiocarcinoma metastasis. Khansaard W, etal., Tumour Biol. 2014 Oct;35(10):10031-41. doi: 10.1007/s13277-014-2295-0. Epub 2014 Jul 11.
9. Effects of overexpression of ephrin-B2 on tumour growth in human colorectal cancer. Liu W, etal., Br J Cancer. 2004 Apr 19;90(8):1620-6. doi: 10.1038/sj.bjc.6601723.
10. Ephrin-B1 and ephrin-B2 mediate EphB-dependent presynaptic development via syntenin-1. McClelland AC, etal., Proc Natl Acad Sci U S A. 2009 Dec 1;106(48):20487-92. doi: 10.1073/pnas.0811862106. Epub 2009 Nov 13.
11. Rat ISS GO annotations from MGI mouse gene data--August 2006 MGD data from the GO Consortium
12. Expression levels of EPHB4, EFNB2 and caspase-8 are associated with clinicopathological features and progression of esophageal squamous cell cancer. Ni Q, etal., Oncol Lett. 2020 Jan;19(1):917-929. doi: 10.3892/ol.2019.11160. Epub 2019 Nov 28.
13. PID Annotation Import Pipeline Pipeline to import Pathway Interaction Database annotations from NCI into RGD
14. GOA pipeline RGD automated data pipeline
15. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
16. BIBF1120 (Vargatef) Inhibits Preretinal Neovascularization and Enhances Normal Vascularization in a Model of Vasoproliferative Retinopathy. Rivera JC, etal., Invest Ophthalmol Vis Sci. 2015 Dec;56(13):7897-907. doi: 10.1167/iovs.15-17146.
17. Downregulation of the endothelial genes Notch1 and ephrinB2 in patients with nodular regenerative hyperplasia. Rothweiler S, etal., Liver Int. 2014 Apr;34(4):594-603. doi: 10.1111/liv.12261. Epub 2013 Jul 21.
18. Ephrin-B2 reverse signaling regulates progression and lymph node metastasis of oral squamous cell carcinoma. Sasabe E, etal., PLoS One. 2017 Nov 30;12(11):e0188965. doi: 10.1371/journal.pone.0188965. eCollection 2017.
19. Arterialization and anomalous vein wall remodeling in varicose veins is associated with upregulated FoxC2-Dll4 pathway. Surendran S, etal., Lab Invest. 2016 Apr;96(4):399-408. doi: 10.1038/labinvest.2015.167. Epub 2016 Jan 25.
20. Expression and prognostic significance of EFNB2 and EphB4 genes in patients with oesophageal squamous cell carcinoma. Tachibana M, etal., Dig Liver Dis. 2007 Aug;39(8):725-32. doi: 10.1016/j.dld.2007.05.013. Epub 2007 Jul 3.
21. EphB2 knockdown decreases the formation of astroglial-fibrotic scars to promote nerve regeneration after spinal cord injury in rats. Wu J, etal., CNS Neurosci Ther. 2021 Jun;27(6):714-724. doi: 10.1111/cns.13641. Epub 2021 Apr 1.
22. EphrinB2/ephB2-mediated myenteric synaptic plasticity: mechanisms underlying the persistent muscle hypercontractility and pain in postinfectious IBS. Zhang L, etal., FASEB J. 2019 Dec;33(12):13644-13659. doi: 10.1096/fj.201901192R. Epub 2019 Oct 25.
23. [The expressions of EphrinB2 and VEGF in nasopharyngeal carcinoma and their clinical significance]. Zhang R, etal., Lin Chung Er Bi Yan Hou Tou Jing Wai Ke Za Zhi. 2013 Feb;27(4):178-80.
Additional References at PubMed
PMID:10066262   PMID:11754836   PMID:11780069   PMID:12734395   PMID:14699416   PMID:15223334   PMID:15458844   PMID:15599401   PMID:15687262   PMID:16511561   PMID:16867992   PMID:17251577  
PMID:17336907   PMID:17621205   PMID:18627264   PMID:18694808   PMID:18952909   PMID:19160501   PMID:19571816   PMID:20886601   PMID:21423176   PMID:25139858   PMID:25834064   PMID:26268439  
PMID:28660300   PMID:28834283   PMID:28931592   PMID:29624118   PMID:30639848   PMID:32585189   PMID:34750029   PMID:37924857   PMID:38442009  


Genomics

Comparative Map Data
Efnb2
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81687,485,215 - 87,529,224 (+)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl1687,485,198 - 87,529,208 (+)EnsemblGRCr8
mRatBN7.21680,783,389 - 80,827,420 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1680,783,417 - 80,824,391 (+)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx1686,062,447 - 86,103,384 (+)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01689,515,058 - 89,556,010 (+)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01684,759,477 - 84,800,448 (+)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.01686,631,151 - 86,672,050 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1686,631,064 - 86,675,049 (+)Ensemblrn6Rnor6.0
Rnor_5.01686,044,304 - 86,085,652 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.41686,187,639 - 86,228,023 (+)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera1678,561,525 - 78,602,409 (+)NCBICelera
RGSC_v3.11686,173,265 - 86,214,062 (+)NCBI
Cytogenetic Map16q12.5NCBI
EFNB2
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh3813106,489,745 - 106,535,662 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl13106,489,745 - 106,535,662 (-)Ensemblhg38GRCh38
GRCh3713107,142,093 - 107,188,010 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 3613105,940,094 - 105,985,338 (-)NCBIBuild 36Build 36hg18NCBI36
Build 3413105,940,097 - 105,985,338NCBI
Celera1387,986,327 - 88,031,570 (-)NCBICelera
Cytogenetic Map13q33.3NCBI
HuRef1387,733,581 - 87,778,804 (-)NCBIHuRef
CHM1_113107,110,751 - 107,156,066 (-)NCBICHM1_1
T2T-CHM13v2.013105,710,156 - 105,756,072 (-)NCBIT2T-CHM13v2.0
Efnb2
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm3988,667,235 - 8,711,242 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl88,667,434 - 8,711,242 (-)EnsemblGRCm39 EnsemblGRCm39
GRCm3888,617,235 - 8,661,242 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl88,617,434 - 8,661,242 (-)Ensemblmm10GRCm38
MGSCv3788,617,439 - 8,660,773 (-)NCBIMGSCv37MGSCv37mm9NCBIm37
MGSCv3688,617,406 - 8,660,745 (-)NCBIMGSCv36mm8
Celera88,790,063 - 8,833,410 (-)NCBICelera
Cytogenetic Map8A1.1NCBI
cM Map83.42NCBI
Efnb2
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554045,000,906 - 5,030,126 (+)Ensembl
ChiLan1.0NW_0049554045,000,906 - 5,030,068 (+)NCBIChiLan1.0ChiLan1.0
EFNB2
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v214107,986,859 - 108,032,680 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan113106,667,225 - 106,713,015 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01387,629,831 - 87,675,652 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.113106,770,296 - 106,815,542 (-)NCBIPanPan1.1PanPan1.1panPan2
PanPan1.1 Ensembl13106,770,296 - 106,815,548 (-)EnsemblpanPan2panpan1.1
EFNB2
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12255,567,992 - 55,609,210 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl2255,566,039 - 55,609,443 (-)EnsemblcanFam3CanFam3.1
Dog10K_Boxer_Tasha2255,325,721 - 55,366,922 (-)NCBIDog10K_Boxer_TashaDog10K_Boxer_Tasha
ROS_Cfam_1.02256,079,969 - 56,121,281 (-)NCBIROS_Cfam_1.0ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl2256,078,458 - 56,121,514 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.12255,672,831 - 55,714,054 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.02255,659,581 - 55,700,849 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.02255,698,309 - 55,739,598 (-)NCBIUU_Cfam_GSD_1.0UU_Cfam_GSD_1.0
Efnb2
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024404945190,770,785 - 190,813,404 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049364725,138,745 - 5,181,668 (+)EnsemblSpeTri2.0 Ensembl
SpeTri2.0NW_0049364725,138,751 - 5,181,630 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
EFNB2
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1174,186,640 - 74,233,354 (-)EnsemblsusScr11Sscrofa11.1
Sscrofa11.11174,188,337 - 74,232,768 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21181,565,082 - 81,609,512 (-)NCBISscrofa10.2Sscrofa10.2susScr3
EFNB2
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1384,904,421 - 84,949,292 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl384,904,435 - 84,949,465 (-)EnsemblChlSab1.1 EnsemblchlSab2Vervet-AGM
Vero_WHO_p1.0NW_02366604641,467,321 - 41,512,883 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Efnb2
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046247935,089,639 - 5,130,503 (+)EnsemblHetGla_female_1.0 EnsemblhetGla2HetGla_female_1.0 Ensembl
HetGla 1.0NW_0046247935,089,675 - 5,130,022 (+)NCBIHetGla 1.0HetGla 1.0hetGla2
Efnb2
(Rattus rattus - black rat)
Black Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rrattus_CSIRO_v11375,120,354 - 75,161,587 (+)NCBIRrattus_CSIRO_v1

miRNA Target Status (No longer updated)

Predicted Target Of
Summary Value
Count of predictions:61
Count of miRNA genes:56
Interacting mature miRNAs:61
Transcripts:ENSRNOT00000019675
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.


QTLs in Region (GRCr8)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
2300163Bmd64Bone mineral density QTL 645.30.0001lumbar vertebra mineral mass (VT:0010511)volumetric bone mineral density (CMO:0001553)164445512389455123Rat
7411648Foco22Food consumption QTL 22150.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)165942871491442908Rat
2293690Bss45Bone structure and strength QTL 455.130.0001lumbar vertebra morphology trait (VT:0010494)lumbar vertebra cortical cross-sectional area (CMO:0001690)164445512389455123Rat
8694364Abfw7Abdominal fat weight QTL 712.220.001visceral adipose mass (VT:0010063)abdominal fat pad weight to body weight ratio (CMO:0000095)165942871491442908Rat
8694429Bw164Body weight QTL 16450.001body lean mass (VT:0010483)lean tissue morphological measurement (CMO:0002184)165942871491442908Rat
7205510Activ5Activity QTL 53.780.00028locomotor behavior trait (VT:0001392)number of entries into a discrete space in an experimental apparatus (CMO:0000960)164909919691442908Rat

Markers in Region
RH143318  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21680,826,828 - 80,827,118 (+)MAPPERmRatBN7.2
Rnor_6.01686,674,488 - 86,674,777NCBIRnor6.0
Rnor_5.01686,088,090 - 86,088,379UniSTSRnor5.0
Celera1678,604,847 - 78,605,136UniSTS
RH 3.4 Map16788.5UniSTS
Cytogenetic Map16q12.5UniSTS
BE098957  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21680,806,455 - 80,806,647 (+)MAPPERmRatBN7.2
Rnor_6.01686,653,441 - 86,653,632NCBIRnor6.0
Rnor_5.01686,067,043 - 86,067,234UniSTSRnor5.0
RGSC_v3.41686,210,572 - 86,210,763UniSTSRGSC3.4
Celera1678,584,479 - 78,584,670UniSTS
RH 3.4 Map16787.5UniSTS
Cytogenetic Map16q12.5UniSTS
Efnb2  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21680,825,304 - 80,825,530 (+)MAPPERmRatBN7.2
Rnor_6.01686,672,964 - 86,673,189NCBIRnor6.0
Rnor_5.01686,086,566 - 86,086,791UniSTSRnor5.0
RGSC_v3.41686,229,195 - 86,229,420UniSTSRGSC3.4
Celera1678,603,323 - 78,603,548UniSTS
Cytogenetic Map16q12.5UniSTS


Expression

RNA-SEQ Expression

alimentary part of gastrointestinal system
appendage
circulatory system
ectoderm
endocrine system
endoderm
exocrine system
hemolymphoid system
hepatobiliary system
integumental system
mesenchyme
mesoderm
musculoskeletal system
nervous system
renal system
reproductive system
respiratory system
sensory system
visual system
16 12 67 164 91 90 59 92 59 6 356 192 11 143 81 92 31 17 17

Sequence


Ensembl Acc Id: ENSRNOT00000019675   ⟹   ENSRNOP00000019675
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl1686,631,064 - 86,675,049 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000093850   ⟹   ENSRNOP00000093640
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1680,783,417 - 80,824,391 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000103879   ⟹   ENSRNOP00000084601
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1680,783,417 - 80,824,391 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000147422   ⟹   ENSRNOP00000109743
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl1687,485,198 - 87,529,208 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000157813   ⟹   ENSRNOP00000110791
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl1687,485,198 - 87,529,208 (+)Ensembl
RefSeq Acc Id: NM_001107328   ⟹   NP_001100798
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81687,485,215 - 87,526,184 (+)NCBI
mRatBN7.21680,783,417 - 80,824,391 (+)NCBI
Rnor_6.01686,631,151 - 86,672,050 (+)NCBI
Rnor_5.01686,044,304 - 86,085,652 (+)NCBI
RGSC_v3.41686,187,639 - 86,228,023 (+)RGD
Celera1678,561,525 - 78,602,409 (+)RGD
Sequence:
RefSeq Acc Id: XM_039094605   ⟹   XP_038950533
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81687,485,221 - 87,529,224 (+)NCBI
mRatBN7.21680,783,389 - 80,827,420 (+)NCBI
Protein Sequences
Protein RefSeqs NP_001100798 (Get FASTA)   NCBI Sequence Viewer  
  XP_038950533 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAY67784 (Get FASTA)   NCBI Sequence Viewer  
  EDM08786 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000109743
  ENSRNOP00000109743.1
  ENSRNOP00000110791
  ENSRNOP00000110791.1
RefSeq Acc Id: NP_001100798   ⟸   NM_001107328
- UniProtKB: B2B9A9 (UniProtKB/TrEMBL),   A6IWT6 (UniProtKB/TrEMBL),   A0A8I5ZYG5 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000019675   ⟸   ENSRNOT00000019675
RefSeq Acc Id: XP_038950533   ⟸   XM_039094605
- Peptide Label: isoform X1
- UniProtKB: A0A8I6AJ66 (UniProtKB/TrEMBL)
Ensembl Acc Id: ENSRNOP00000093640   ⟸   ENSRNOT00000093850
Ensembl Acc Id: ENSRNOP00000084601   ⟸   ENSRNOT00000103879
Ensembl Acc Id: ENSRNOP00000110791   ⟸   ENSRNOT00000157813
Ensembl Acc Id: ENSRNOP00000109743   ⟸   ENSRNOT00000147422
Protein Domains
Ephrin RBD

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-B2B9A9-F1-model_v2 AlphaFold B2B9A9 1-336 view protein structure

Transcriptome

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

Promoters
RGD ID:13700251
Promoter ID:EPDNEW_R10775
Type:initiation region
Name:Efnb2_1
Description:ephrin B2
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_6.01686,630,974 - 86,631,034EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1309497 AgrOrtholog
BioCyc Gene G2FUF-10597 BioCyc
Ensembl Genes ENSRNOG00000014648 Ensembl
  ENSRNOG00000064362 Ensembl
  ENSRNOG00000078208 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000147422 ENTREZGENE
  ENSRNOT00000147422.1 UniProtKB/TrEMBL
  ENSRNOT00000157813 ENTREZGENE
  ENSRNOT00000157813.1 UniProtKB/TrEMBL
Gene3D-CATH 2.60.40.420 UniProtKB/TrEMBL
InterPro Cupredoxin UniProtKB/TrEMBL
  Ephrin UniProtKB/TrEMBL
  Ephrin UniProtKB/TrEMBL
  Ephrin-B_Ecto UniProtKB/TrEMBL
  Ephrin_CS UniProtKB/TrEMBL
KEGG Report rno:306636 UniProtKB/TrEMBL
NCBI Gene 306636 ENTREZGENE
PANTHER Ephrin UniProtKB/TrEMBL
  EPHRIN-B2 UniProtKB/TrEMBL
Pfam Ephrin UniProtKB/TrEMBL
PharmGKB EFNB2 RGD
PhenoGen Efnb2 PhenoGen
PRINTS EPHRIN UniProtKB/TrEMBL
PROSITE EPHRIN UniProtKB/TrEMBL
  EPHRIN_RBD_2 UniProtKB/TrEMBL
RatGTEx ENSRNOG00000014648 RatGTEx
  ENSRNOG00000064362 RatGTEx
  ENSRNOG00000078208 RatGTEx
Superfamily-SCOP Cupredoxin UniProtKB/TrEMBL
UniProt A0A8I5ZYG5 ENTREZGENE, UniProtKB/TrEMBL
  A0A8I6AJ66 ENTREZGENE
  A0ABK0LUD1_RAT UniProtKB/TrEMBL
  A6IWT6 ENTREZGENE, UniProtKB/TrEMBL
  B2B9A9 ENTREZGENE
UniProt Secondary B2B9A9 UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2008-04-30 Efnb2  ephrin B2   Efnb2_predicted  ephrin B2 (predicted)  'predicted' is removed 2292626 APPROVED
2005-01-12 Efnb2_predicted  ephrin B2 (predicted)      Symbol and Name status set to approved 70820 APPROVED