Efnb2 MGI Mouse Gene Detail - MGI:105097

Symbol

Efnb2
Name

ephrin B2
Synonyms

ELF-2, Epl5, Eplg5, Htk-L, Lerk5, LERK-5, NLERK-1

Feature Type

protein coding gene
IDs

MGI:105097
NCBI Gene: 13642
Alliance

gene page
Transcription Start Sites

5 TSS

Sequence Map

Chr8:8667434-8711242 bp, - strand
From Ensembl annotation of GRCm39
View this region in JBrowse
Genome Browsers

Ensembl | UCSC | NCBI

Genetic Map

Chromosome 8, 3.42 cM
Mapping Data

2 experiments

SNPs within 2kb

996 from dbSNP Build 142
Strain Annotations

18
RFLP

2

For selected strains:

Strain	Gene Model ID	Feature Type	Coordinates
C57BL/6J	MGI_C57BL6J_105097	protein coding gene	Chr8:8667235-8711242 (-)
129S1/SvImJ	MGP_129S1SvImJ_G0033341	protein coding gene	Chr8:5690612-5733731 (-)
A/J	MGP_AJ_G0033321	protein coding gene	Chr8:5505824-5549059 (-)
AKR/J	MGP_AKRJ_G0033253	protein coding gene	Chr8:5686204-5729736 (-)
BALB/cJ	MGP_BALBcJ_G0033322	protein coding gene	Chr8:5639724-5684692 (-)
C3H/HeJ	MGP_C3HHeJ_G0033036	protein coding gene	Chr8:5840381-5884824 (-)
C57BL/6NJ	MGP_C57BL6NJ_G0033834	protein coding gene	Chr8:5962494-6006662 (-)
CAROLI/EiJ	MGP_CAROLIEiJ_G0030805	protein coding gene	Chr8:5097626-5141090 (-)
CAST/EiJ	MGP_CASTEiJ_G0032358	protein coding gene	Chr8:5505220-5550842 (-)
CBA/J	MGP_CBAJ_G0033009	protein coding gene	Chr8:6210411-6265324 (-)
DBA/2J	MGP_DBA2J_G0033162	protein coding gene	Chr8:5515629-5559275 (-)
FVB/NJ	MGP_FVBNJ_G0033110	protein coding gene	Chr8:5457460-5501796 (-)
LP/J	MGP_LPJ_G0033256	protein coding gene	Chr8:5598317-5641461 (-)
NOD/ShiLtJ	MGP_NODShiLtJ_G0033145	protein coding gene	Chr8:6646169-6689393 (-)
NZO/HlLtJ	MGP_NZOHlLtJ_G0033851	protein coding gene	Chr8:5678932-5722102 (-)
PWK/PhJ	MGP_PWKPhJ_G0032071	protein coding gene	Chr8:5447081-5490699 (-)
SPRET/EiJ	MGP_SPRETEiJ_G0031913	protein coding gene	Chr8:5570510-5613766 (-)
WSB/EiJ	MGP_WSBEiJ_G0032474	protein coding gene	Chr8:5734058-5780018 (-)

Human Ortholog

EFNB2, ephrin B2

Vertebrate Orthologs

4

Vertebrate Orthology Source

Alliance of Genome Resources

Human Ortholog

EFNB2, ephrin B2
Synonyms

ephrin-B2, EPLG5, Htk-L, HTKL, LERK5
Links

HGNC:3227

NCBI Gene ID: 1948

neXtProt AC: NX_P52799

UniProt: P52799
Chr Location

13q33.3; chr13:106489745-106535662 (-) GRCh38

MGI Vertebrate Homology

Efnb2 stringent orthology
1 human;1 mouse;1 rat;2 zebrafish
HCOP

vertebrate homology predictions: EFNB2
Gene Tree

Efnb2

Diseases

3 with human EFNB2 associations

				Human Disease	Mouse Models
				colon carcinoma IDs colon carcinoma DOID:1520 NCI:C4910 UMLS_CUI:C0699790
				colorectal carcinoma IDs colorectal carcinoma DOID:0080199 EFO:1001951 MESH:D015179 NCI:C2955 UMLS_CUI:C0009402
				esophagus squamous cell carcinoma IDs esophagus squamous cell carcinoma DOID:3748 MESH:D000077277 NCI:C4024 UMLS_CUI:C0279626

Click on a disease name to see all genes associated with that disease.

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Phenotype Summary

98 phenotypes from 13 alleles in 14 genetic backgrounds
36 phenotypes from multigenic genotypes
1 images
138 phenotype references

Phenotype Overview

Blue squares indicate phenotypes directly attributed to mutations/alleles of this gene.

adipose tissue	behavior/neurological	cardiovascular system	cellular	craniofacial	digestive/alimentary system	embryo	endocrine/exocrine glands	growth/size/body	hearing/vestibular/ear	hematopoietic system	homeostasis/metabolism	integument	immune system	limbs/digits/tail	liver/biliary system	mortality/aging	muscle	nervous system	pigmentation	renal/urinary system	reproductive system	respiratory system	skeleton	taste/olfaction	neoplasm	vision/eye

Click cells to view annotations.

All Mutations and Alleles

29
Endonuclease-mediated

4
Gene trapped

2
Targeted

23
Incidental Mutations

APF , CvDC
Find Mice (IMSR)

29 strains or lines available
Comparison Matrix

Gene Expression + Phenotype

Homozygotes for targeted null mutations exhibit defects in angiogenesis of both arteries and veins and die by embryonic day 11.5.

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All GO Annotations

67
GO References

22

Molecular Function

carbohydrate derivative binding	cytoskeletal protein binding	DNA binding	enzyme regulator	hydrolase	ligase	lipid binding	oxidoreductase	RNA binding	signaling receptor activity	signaling receptor binding	transcription	transferase	transporter

Biological Process

carbohydrate derivative metabolism	cell differentiation	cell population proliferation	cellular component organization	DNA-templated transcription	establishment of localization	homeostatic process	immune system process	lipid metabolic process	programmed cell death	protein metabolic process	response to stimulus	signaling	system development

Cellular Component

cell projection	cytoplasmic vesicle	cytoskeleton	cytosol	endoplasmic reticulum	endosome	extracellular region	Golgi apparatus	mitochondrion	membraneless organelle	nucleus	organelle envelope	organelle lumen	plasma membrane	protein-containing complex	synapse	vacuole

Click cells to view annotations.

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Expression Overview

GXD's primary emphasis is on endogenous gene expression during development. Click on grid cells to view annotations.

Blue cells = expressed in wild-type.
Gray triangles = other expression annotations only
(e.g. absence of expression or data from mutants).

early conceptus	embryo ectoderm	embryo endoderm	embryo mesoderm	embryo mesenchyme	extraembryonic component	alimentary system	auditory system	branchial arches	cardiovascular system	connective tissue	endocrine system	exocrine system	hemolymphoid system	integumental system	limbs	liver and biliary system	musculoskeletal system	nervous system	olfactory system	reproductive system	respiratory system	urinary system	visual system

Click cells to view annotations.

Assay Results

1329
Tissues

315
cDNA Data

89
Literature Summary

237

Images

Tissue x Stage Matrix

Comparison Matrix

Gene Expression + Phenotype

Other Mouse Links

Allen Institute

GENSAT

GEO

Expression Atlas
Other Vertebrate Links

GEISHA EFNB2

Xenbase efnb2

ZFIN efnb2a

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All Sequences

50
RefSeq

6
UniProt

4
CCDS

CCDS22090.1

Ensembl

ENSMUSG00000001300 (Evidence)
NCBI Gene

13642

			Length	Strain/Species	Flank
genomic	ENSMUSG00000001300	Ensembl Gene Model \| MGI Sequence Detail	43809	C57BL/6J	± kb
transcript	ENSMUST00000001319	Ensembl \| MGI Sequence Detail	4793	Not Applicable
polypeptide	ENSMUSP00000001319	Ensembl \| MGI Sequence Detail	336	Not Applicable

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UniProt

4 Sequences
Protein Ontology

PR:000006922 ephrin-B2

(term hierarchy)
PDB

1IKO, 1KGY
InterPro Domains

IPR008972 Cupredoxin

IPR031328 Ephrin

IPR034255 Ephrin-B ectodomain

IPR019765 Ephrin, conserved site

IPR001799 Ephrin receptor-binding domain
GlyGen

P52800 2 sites, 3 N-linked glycans (2 sites)

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All nucleic 121

cDNA 92

Primer pair 13

Other 16

Microarray probesets 6

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MGD-MRK-32137

Summaries

All 378

Developmental Gene Expression 237

Gene Ontology 22

Phenotypes 138
Earliest

J:45123 Bonaldo MF, et al., Selection of cDNAs using chromosome-specific genomic clones: application to human chromosome 13. Hum Mol Genet. 1994 Sep;3(9):1663-73
Latest

J:357525 Urban MW, et al., EphrinB2 knockdown in cervical spinal cord preserves diaphragm innervation in a mutant SOD1 mouse model of ALS. Elife. 2024 Jan 15;12

TSS for Efnb2:

(View these features in JBrowse)

Transcription Start Site	Location	Distance from Gene 5'-end
Tssr80304	Chr8:8711232-8711249 (-)	1 bp
Tssr80303	Chr8:8707739-8707744 (-)	3,500 bp
Tssr80302	Chr8:8671291-8671320 (-)	39,936 bp
Tssr80301	Chr8:8668705-8668709 (-)	42,535 bp
Tssr80300	Chr8:8667553-8667558 (-)	43,686 bp

Contributing Projects: Mouse Genome Database (MGD), Gene Expression Database (GXD), Mouse Models of Human Cancer database (MMHCdb) (formerly Mouse Tumor Biology (MTB)), Gene Ontology (GO)
Citing These Resources Funding Information Warranty Disclaimer, Privacy Notice, Licensing, & Copyright Send questions and comments to User Support.	last database update 12/10/2024 MGI 6.24