Efna1 (ephrin A1) - Rat Genome Database

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Gene: Efna1 (ephrin A1) Rattus norvegicus
Analyze
Symbol: Efna1
Name: ephrin A1
RGD ID: 620388
Description: Predicted to enable ephrin receptor binding activity. Predicted to be involved in several processes, including ephrin receptor signaling pathway; heart valve morphogenesis; and regulation of primary metabolic process. Predicted to act upstream of or within several processes, including negative regulation of thymocyte apoptotic process; nervous system development; and regulation of MAPK cascade. Predicted to be located in extracellular region and side of membrane. Predicted to be active in plasma membrane. Orthologous to human EFNA1 (ephrin A1); PARTICIPATES IN altered ephrin - ephrin receptor bidirectional signaling pathway; E-cadherin signaling pathway; ephrin - ephrin receptor bidirectional signaling axis; INTERACTS WITH 17beta-estradiol; 2,3,7,8-tetrachlorodibenzodioxine; 2,4-dinitrotoluene.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: B61; EPH-related receptor tyrosine kinase ligand 1; ephrin-A1; immediate early response protein B61; LERK-1
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr82176,979,434 - 176,988,675 (-)NCBIGRCr8
mRatBN7.22174,681,676 - 174,689,061 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl2174,681,682 - 174,690,866 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx2181,827,299 - 181,834,468 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.02179,849,677 - 179,856,846 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.02174,449,638 - 174,457,020 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.02188,588,808 - 188,596,156 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl2188,588,796 - 188,596,222 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.02208,002,153 - 208,010,763 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.42181,444,599 - 181,451,944 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.12181,394,706 - 181,402,050 (-)NCBI
Celera2168,623,896 - 168,631,240 (-)NCBICelera
RH 3.4 Map21155.2RGD
Cytogenetic Map2q34NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(-)-epigallocatechin 3-gallate  (ISO)
1-methyl-4-phenyl-1,2,3,6-tetrahydropyridine  (ISO)
17beta-estradiol  (EXP,ISO)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
2,4-dinitrotoluene  (EXP)
2,6-dinitrotoluene  (EXP)
2-hydroxypropanoic acid  (ISO)
2-methylcholine  (ISO)
3,7-dihydropurine-6-thione  (EXP)
3H-1,2-dithiole-3-thione  (EXP)
4,4'-sulfonyldiphenol  (ISO)
4-hydroxyphenyl retinamide  (ISO)
5-aza-2'-deoxycytidine  (ISO)
6-propyl-2-thiouracil  (EXP)
acetaldehyde  (ISO)
acetamide  (EXP)
adefovir pivoxil  (ISO)
afimoxifene  (ISO)
all-trans-retinoic acid  (EXP,ISO)
ammonium chloride  (EXP)
antirheumatic drug  (ISO)
aristolochic acid A  (ISO)
arsane  (ISO)
arsenic atom  (ISO)
arsenite(3-)  (ISO)
arsenous acid  (ISO)
azoxystrobin  (ISO)
belinostat  (ISO)
benzo[a]pyrene  (ISO)
benzo[a]pyrene diol epoxide I  (ISO)
benzo[b]fluoranthene  (ISO)
beta-lapachone  (ISO)
bis(2-chloroethyl) sulfide  (ISO)
bis(2-ethylhexyl) phthalate  (ISO)
bisphenol A  (EXP,ISO)
bisphenol F  (ISO)
cadmium atom  (ISO)
cadmium dichloride  (ISO)
caffeine  (ISO)
calcitriol  (ISO)
carbon nanotube  (ISO)
chloroacetaldehyde  (ISO)
chlorohydrocarbon  (EXP)
cholanic acid  (ISO)
choline  (ISO)
chromium(6+)  (ISO)
chrysene  (ISO)
cidofovir anhydrous  (ISO)
ciglitazone  (ISO)
ciguatoxin CTX1B  (ISO)
cisplatin  (ISO)
clodronic acid  (ISO)
clofibrate  (ISO)
clomiphene  (ISO)
cocaine  (EXP)
copper atom  (ISO)
copper(0)  (ISO)
copper(II) chloride  (ISO)
copper(II) sulfate  (ISO)
coumestrol  (ISO)
Cuprizon  (EXP)
cyclosporin A  (ISO)
cytarabine  (ISO)
dextran sulfate  (ISO)
diarsenic trioxide  (ISO)
diazinon  (ISO)
dibenz[a,h]anthracene  (ISO)
diethylstilbestrol  (ISO)
dioxygen  (ISO)
dorsomorphin  (ISO)
doxorubicin  (ISO)
endosulfan  (EXP)
Enterolactone  (ISO)
entinostat  (ISO)
epoxiconazole  (ISO)
estrone  (ISO)
Evodiamine  (ISO)
flavonoids  (EXP)
flusilazole  (ISO)
flutamide  (EXP)
folic acid  (ISO)
fulvestrant  (ISO)
furan  (EXP)
genistein  (ISO)
gentamycin  (EXP)
glyphosate  (ISO)
GW 1929  (EXP)
hemin  (ISO)
Heptachlor epoxide  (ISO)
hydrogen peroxide  (ISO)
hydroquinone  (ISO)
ifosfamide  (ISO)
indole-3-methanol  (EXP)
L-methionine  (ISO)
lead diacetate  (ISO)
leflunomide  (ISO)
lipopolysaccharide  (EXP,ISO)
lithocholic acid  (ISO)
mancozeb  (ISO)
mercaptopurine  (EXP)
mercury dibromide  (ISO)
mestranol  (ISO)
metformin  (EXP)
methylmercury chloride  (EXP)
methylparaben  (ISO)
mifepristone  (EXP)
monosodium L-glutamate  (ISO)
N-acetyl-L-cysteine  (EXP)
N-methyl-4-phenylpyridinium  (EXP)
N-nitrosodiethylamine  (EXP,ISO)
N1'-[2-[[5-[(dimethylamino)methyl]-2-furanyl]methylthio]ethyl]-N1-methyl-2-nitroethene-1,1-diamine  (EXP)
nefazodone  (EXP)
nickel dichloride  (ISO)
nickel sulfate  (ISO)
niclosamide  (ISO)
nitrofen  (EXP)
okadaic acid  (ISO)
oxaliplatin  (EXP)
p-chloromercuribenzoic acid  (ISO)
paclitaxel  (ISO)
panobinostat  (ISO)
paracetamol  (EXP,ISO)
perfluorooctane-1-sulfonic acid  (ISO)
perfluorooctanoic acid  (ISO)
phenobarbital  (EXP)
phenylmercury acetate  (ISO)
pirinixic acid  (EXP,ISO)
potassium chromate  (ISO)
progesterone  (ISO)
purine-6-thiol  (EXP)
quercetin  (ISO)
rac-lactic acid  (ISO)
raloxifene  (ISO)
ranitidine  (EXP)
resveratrol  (ISO)
rotenone  (EXP)
S-(1,2-dichlorovinyl)-L-cysteine  (ISO)
SB 431542  (ISO)
sevoflurane  (EXP)
silicon dioxide  (ISO)
sodium arsenite  (ISO)
sulforaphane  (ISO)
sunitinib  (ISO)
tamoxifen  (ISO)
temozolomide  (ISO)
testosterone  (ISO)
tetrachloromethane  (EXP,ISO)
thioacetamide  (EXP)
thiram  (ISO)
titanium dioxide  (ISO)
topotecan  (EXP)
trichostatin A  (ISO)
trimellitic anhydride  (ISO)
triphenyl phosphate  (EXP)
triptonide  (ISO)
troglitazone  (ISO)
tunicamycin  (ISO)
valdecoxib  (EXP)
valproic acid  (ISO)
vinclozolin  (EXP)
vorinostat  (ISO)
zinc sulfate  (ISO)
zoledronic acid  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

Molecular Function
ephrin receptor binding  (IBA,IEA,ISO,TAS)
protein binding  (ISO)

References

References - curated
# Reference Title Reference Citation
1. EphrinA1 inactivates integrin-mediated vascular smooth muscle cell spreading via the Rac/PAK pathway. Deroanne C, etal., J Cell Sci 2003 Apr 1;116(Pt 7):1367-76.
2. 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.
3. High-density rat radiation hybrid maps containing over 24,000 SSLPs, genes, and ESTs provide a direct link to the rat genome sequence. Kwitek AE, etal., Genome Res. 2004 Apr;14(4):750-7
4. Rat ISS GO annotations from MGI mouse gene data--August 2006 MGD data from the GO Consortium
5. Expression and function of the Eph A receptors and their ligands ephrins A in the rat thymus. Munoz JJ, etal., J Immunol 2002 Jul 1;169(1):177-84.
6. Electronic Transfer of LocusLink and RefSeq Data NCBI rat LocusLink and RefSeq merged data July 26, 2002
7. PID Annotation Import Pipeline Pipeline to import Pathway Interaction Database annotations from NCI into RGD
8. GOA pipeline RGD automated data pipeline
9. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
10. The role of ephrins and Eph receptors in cancer. Surawska H, etal., Cytokine Growth Factor Rev 2004 Dec;15(6):419-33.
11. Molecular cloning and expression of rat and mouse B61 gene: implications on organogenesis. Takahashi H and Ikeda T, Oncogene 1995 Sep 7;11(5):879-83.
Additional References at PubMed
PMID:10655584   PMID:11287184   PMID:12477932   PMID:14988728   PMID:15145949   PMID:15489334   PMID:15777695   PMID:16547242   PMID:16782872   PMID:17143272   PMID:18794797   PMID:20960543  
PMID:21603973   PMID:23376485   PMID:24217950   PMID:25677907   PMID:29350423  


Genomics

Comparative Map Data
Efna1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr82176,979,434 - 176,988,675 (-)NCBIGRCr8
mRatBN7.22174,681,676 - 174,689,061 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl2174,681,682 - 174,690,866 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx2181,827,299 - 181,834,468 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.02179,849,677 - 179,856,846 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.02174,449,638 - 174,457,020 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.02188,588,808 - 188,596,156 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl2188,588,796 - 188,596,222 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.02208,002,153 - 208,010,763 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.42181,444,599 - 181,451,944 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.12181,394,706 - 181,402,050 (-)NCBI
Celera2168,623,896 - 168,631,240 (-)NCBICelera
RH 3.4 Map21155.2RGD
Cytogenetic Map2q34NCBI
EFNA1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381155,127,876 - 155,134,899 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1155,127,876 - 155,134,899 (+)EnsemblGRCh38hg38GRCh38
GRCh371155,100,352 - 155,107,375 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361153,366,973 - 153,374,010 (+)NCBINCBI36Build 36hg18NCBI36
Celera1128,171,631 - 128,178,823 (+)NCBICelera
Cytogenetic Map1q22NCBI
HuRef1126,462,656 - 126,469,862 (+)NCBIHuRef
CHM1_11156,496,085 - 156,503,124 (+)NCBICHM1_1
T2T-CHM13v2.01154,267,224 - 154,274,255 (+)NCBIT2T-CHM13v2.0
Efna1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39389,179,037 - 89,188,258 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl389,179,040 - 89,188,449 (-)EnsemblGRCm39 Ensembl
GRCm38389,271,730 - 89,280,951 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl389,271,733 - 89,281,142 (-)EnsemblGRCm38mm10GRCm38
MGSCv37389,075,652 - 89,084,873 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36389,357,663 - 89,365,568 (-)NCBIMGSCv36mm8
Celera389,306,600 - 89,315,813 (-)NCBICelera
Cytogenetic Map3F1NCBI
cM Map339.04NCBI
Efna1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049555451,610,929 - 1,617,460 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049555451,610,929 - 1,617,217 (+)NCBIChiLan1.0ChiLan1.0
EFNA1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2194,706,485 - 94,713,499 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1194,437,935 - 94,444,930 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01130,475,128 - 130,482,531 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11134,083,855 - 134,091,228 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1134,083,855 - 134,091,228 (+)Ensemblpanpan1.1panPan2
EFNA1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1742,373,197 - 42,381,161 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl742,373,639 - 42,378,946 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha741,864,150 - 41,871,485 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0742,242,784 - 42,248,044 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl742,242,185 - 42,248,036 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1742,022,598 - 42,027,856 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0742,076,452 - 42,081,711 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0742,360,084 - 42,365,344 (-)NCBIUU_Cfam_GSD_1.0
Efna1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440505825,624,127 - 25,630,504 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365804,654,503 - 4,660,966 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049365804,654,503 - 4,660,950 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
EFNA1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl494,666,460 - 94,674,071 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1494,666,457 - 94,673,442 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.24103,449,921 - 103,455,090 (-)NCBISscrofa10.2Sscrofa10.2susScr3
EFNA1
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1208,695,446 - 8,702,556 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl208,696,241 - 8,702,379 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_0236660388,027,359 - 8,034,821 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Efna1
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046248852,383,045 - 2,389,107 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046248852,382,712 - 2,388,805 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Efna1
34 total Variants
miRNA Target Status (No longer updated)

Predicted Target Of
Summary Value
Count of predictions:473
Count of miRNA genes:248
Interacting mature miRNAs:295
Transcripts:ENSRNOT00000027920
Prediction methods:Microtar, 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
1578648Bss11Bone structure and strength QTL 114.7femur morphology trait (VT:0000559)femoral neck cortical cross-sectional area (CMO:0001702)2114837527211674221Rat
1358356Srcrt1Stress Responsive Cort QTL13.66blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)2161699179222436696Rat
1331734Bp204Blood pressure QTL 2043.61192arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)2168358098223265385Rat
1298074Bp164Blood pressure QTL 1640.003arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)242804607202447032Rat
1354648Bp239Blood pressure QTL 2390.001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)266118463226797303Rat
1354649Kidm17Kidney mass QTL 172.9kidney mass (VT:0002707)calculated kidney weight (CMO:0000160)281754530227146641Rat
10755499Bp389Blood pressure QTL 3892.61arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)218960362228801039Rat
1298076Bp166Blood pressure QTL 1660.0009arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)2136445150202447032Rat
61457Niddm8Non-insulin dependent diabetes mellitus QTL 84.10.01blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)2174543008175950118Rat
152025245Scl81Serum cholesterol level QTL 813.49blood cholesterol amount (VT:0000180)2122609194206936711Rat
70162Bp63Blood pressure QTL 635.64arterial blood pressure trait (VT:2000000)blood pressure measurement (CMO:0000003)2169745596214745596Rat
1554319Bmd2Bone mineral density QTL 213.40.0001lumbar vertebra area (VT:0010570)lumbar vertebra cross-sectional area (CMO:0001689)2114837675212549332Rat
12879836Kidm61Kidney mass QTL 610.001kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)2152413072185122374Rat
1581569Uae32Urinary albumin excretion QTL 320.0001urine protein amount (VT:0005160)urine albumin excretion rate (CMO:0000757)278665619219826953Rat
10043136Iddm54Insulin dependent diabetes mellitus QTL 543.40.0001blood glucose amount (VT:0000188)age at onset/diagnosis of type 1 diabetes mellitus (CMO:0001140)2143657411190602963Rat
12879837Am2Aortic mass QTL 20.001aorta mass (VT:0002845)aorta weight to aorta length to body weight ratio (CMO:0002722)2152413072185122374Rat
12879838Cm86Cardiac mass QTL 860.002heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)2152413072185122374Rat
1302793Bw16Body weight QTL 1650.0001body mass (VT:0001259)body weight (CMO:0000012)2157142209202446871Rat
61467Bp14Blood pressure QTL 142.2arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)243154682202446871Rat
12879839Cm85Cardiac mass QTL 850.001heart mass (VT:0007028)heart wet weight to body weight ratio (CMO:0002408)2152413072185122374Rat
61469Bp16Blood pressure QTL 165.64arterial blood pressure trait (VT:2000000)blood pressure measurement (CMO:0000003)2169745596214745596Rat
70175BpQTLCluster3Blood pressure QTL cluster 34.128arterial blood pressure trait (VT:2000000)absolute change in systolic blood pressure (CMO:0000607)2135552573202446871Rat
1549833Bp257Blood pressure QTL 2570.003arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)2168354880185122374Rat
1358900Bw48Body weight QTL 484.88body mass (VT:0001259)body weight (CMO:0000012)2157142078211086598Rat
12879845Cm89Cardiac mass QTL 890.008heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)2152413072175950118Rat
61473Bp19Blood pressure QTL 196.3arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)2172710921175950118Rat
1359030Bp277Blood pressure QTL 277arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)2114837527185876470Rat
12879846Cm90Cardiac mass QTL 900.011heart right ventricle mass (VT:0007033)heart right ventricle weight to body weight ratio (CMO:0000914)2152413072175950118Rat
12879847Am4Aortic mass QTL 40.001aorta mass (VT:0002845)aorta weight to aorta length to body weight ratio (CMO:0002722)2152413072175950118Rat
1331760Bp206Blood pressure QTL 2063.62454arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)256043031202447032Rat
12879840Bw179Body weight QTL 1790.005body mass (VT:0001259)body weight (CMO:0000012)2152413072185122374Rat
1581502Esta3Estrogen-induced thymic atrophy QTL 3thymus mass (VT:0004954)thymus wet weight (CMO:0000855)2136916935189599348Rat
1359032Hrtrt18Heart rate QTL 18heart pumping trait (VT:2000009)heart rate (CMO:0000002)2157142078192625452Rat
2301966Bp322Blood pressure QTL 3223.58arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)2150540301202447032Rat
1298080Bp163Blood pressure QTL 1630.02arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)266118275202447032Rat
8662832Vetf7Vascular elastic tissue fragility QTL 73.5aorta elastin amount (VT:0003905)aorta wall extracellular elastin dry weight to aorta wall dry weight ratio (CMO:0002002)281689826221035911Rat
1298085Bp165Blood pressure QTL 1650.0006arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)242804607202447032Rat
1359022Ppulsi1Prepulse inhibition QTL 13.63prepulse inhibition trait (VT:0003088)acoustic startle response measurement (CMO:0001519)2136916935213594495Rat
1641891Alcrsp17Alcohol response QTL 17response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)2149559561249053267Rat
724534Uae6Urinary albumin excretion QTL 610urine albumin amount (VT:0002871)urine albumin level (CMO:0000130)278665619249053267Rat
61374Edpm2Estrogen-dependent pituitary mass QTL 24.420.86pituitary gland mass (VT:0010496)pituitary gland wet weight (CMO:0000853)276539322202447032Rat
8662843Vetf9Vascular elastic tissue fragility QTL 92.05thoracic aorta molecular composition trait (VT:0010568)aorta wall extracellular elastin dry weight to aorta wall extracellular collagen weight ratio (CMO:0002003)2157142078226277316Rat
631501Bp101Blood pressure QTL 1012.4arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)2150341684202446871Rat
2301415Cm67Cardiac mass QTL 670.003heart mass (VT:0007028)heart wet weight to body weight ratio (CMO:0002408)2152413072175950118Rat
2307174Activ3Activity QTL 34.830.000058locomotor behavior trait (VT:0001392)number of entries into a discrete space in an experimental apparatus (CMO:0000960)2168594495213594495Rat
1331794Bp202Blood pressure QTL 2023.66819arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)2141194931223265385Rat
71113Cari2Carrageenan-induced inflammation QTL 22.70.009hypodermis integrity trait (VT:0010550)inflammatory exudate volume (CMO:0001429)2141596551202447032Rat
1331805Cm29Cardiac mass QTL 293.50746heart mass (VT:0007028)heart wet weight (CMO:0000069)2141194931223265385Rat
11565180Kidm56Kidney mass QTL 560.003kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)2152413072175950118Rat
634308Sach6Saccharin preference QTL 64.9taste sensitivity trait (VT:0001986)saccharin intake volume to total fluid intake volume ratio (CMO:0001601)2112456140212696837Rat
1598805Memor8Memory QTL 83exploratory behavior trait (VT:0010471)average horizontal distance between subject and target during voluntary locomotion in an experimental apparatus (CMO:0002674)2150341585189039377Rat
11565181Bw176Body weight QTL 1760.002body mass (VT:0001259)body weight (CMO:0000012)2152413072175950118Rat
1358917Cm42Cardiac mass QTL 422.82heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)225413423203928301Rat
724568Uae13Urinary albumin excretion QTL 134.4urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)2143157029210020885Rat
1358913Cm41Cardiac mass QTL 412.73heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)225413423203928301Rat
1300165Rf9Renal function QTL 93.28kidney glomerulus integrity trait (VT:0010546)index of glomerular damage (CMO:0001135)2133914684202447032Rat
61401Niddm2Non-insulin dependent diabetes mellitus QTL 24.54blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)2144599348189599348Rat
631507Bp105Blood pressure QTL 1050.001arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)2112456140212696837Rat
1641925Alcrsp2Alcohol response QTL 2response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)2149559561221167075Rat
1354609Niddm62Non-insulin dependent diabetes mellitus QTL 624.720.000006insulin secretion trait (VT:0003564)plasma insulin level (CMO:0000342)2150540301202447032Rat
1598833Bp295Blood pressure QTL 2953.5arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)2147798556192798556Rat
1354622Kidm16Kidney mass QTL 163kidney mass (VT:0002707)left kidney wet weight (CMO:0000083)281754530222436696Rat
631266Bp132Blood pressure QTL 1320.0005arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)246123260202447032Rat
631522Bp74Blood pressure QTL 740.05arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)2172710921184114403Rat
7488927Bp365Blood pressure QTL 3650.008arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)2162765032207765032Rat
1598838Bp290Blood pressure QTL 2901.9arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)2166539266211539266Rat
7488925Bp364Blood pressure QTL 3640.001arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)2160564068205564068Rat
2293843Kiddil6Kidney dilation QTL 63.1kidney pelvis morphology trait (VT:0004194)hydronephrosis severity score (CMO:0001208)242804607182042367Rat
2306901Bp337Blood pressure QTL 3370.01arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)2164073756227146641Rat
1354605Rf48Renal function QTL 482.9blood creatinine amount (VT:0005328)plasma creatinine level (CMO:0000537)274786664206665859Rat
6903312Bw112Body weight QTL 1123.20.0013body mass (VT:0001259)body weight (CMO:0000012)2143657569184114274Rat
7488904Bp363Blood pressure QTL 3630.001arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)2172982062175950118Rat
1354601Slep1Serum leptin concentration QTL 15.39blood leptin amount (VT:0005667)serum leptin level (CMO:0000780)243171017184114403Rat

Markers in Region
Efna1  
Rat AssemblyChrPosition (strand)SourceJBrowse
GRCr82176,980,204 - 176,980,509 (+)Marker Load Pipeline
mRatBN7.22174,682,446 - 174,682,751 (+)MAPPERmRatBN7.2
Rnor_6.02188,589,579 - 188,589,883NCBIRnor6.0
Rnor_5.02208,002,924 - 208,003,228UniSTSRnor5.0
RGSC_v3.42181,445,366 - 181,445,670UniSTSRGSC3.4
Celera2168,624,663 - 168,624,967UniSTS
RH 3.4 Map21155.2UniSTS
Cytogenetic Map2q34UniSTS
RH128971  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.22174,681,741 - 174,681,946 (+)MAPPERmRatBN7.2
Rnor_6.02188,588,874 - 188,589,078NCBIRnor6.0
Rnor_5.02208,002,219 - 208,002,423UniSTSRnor5.0
RGSC_v3.42181,444,661 - 181,444,865UniSTSRGSC3.4
Celera2168,623,958 - 168,624,162UniSTS
RH 3.4 Map21156.4UniSTS
Cytogenetic Map2q34UniSTS
Efna1  
Rat AssemblyChrPosition (strand)SourceJBrowse
GRCr82176,980,108 - 176,980,258 (+)Marker Load Pipeline
mRatBN7.22174,682,349 - 174,682,500 (+)MAPPERmRatBN7.2
Rnor_6.02188,589,482 - 188,589,632NCBIRnor6.0
Rnor_5.02208,002,827 - 208,002,977UniSTSRnor5.0
RGSC_v3.42181,445,269 - 181,445,419UniSTSRGSC3.4
Celera2168,624,566 - 168,624,716UniSTS
Cytogenetic Map2q34UniSTS


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
nervous system
renal system
reproductive system
respiratory system
9 11 49 113 91 90 59 25 59 6 218 97 93 45 60 31

Sequence


Ensembl Acc Id: ENSRNOT00000027920   ⟹   ENSRNOP00000027920
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl2174,681,685 - 174,689,061 (-)Ensembl
Rnor_6.0 Ensembl2188,588,796 - 188,596,222 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000117150   ⟹   ENSRNOP00000082577
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl2174,681,682 - 174,690,866 (-)Ensembl
RefSeq Acc Id: NM_053599   ⟹   NP_446051
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr82176,979,434 - 176,986,821 (-)NCBI
mRatBN7.22174,681,676 - 174,689,061 (-)NCBI
Rnor_6.02188,588,812 - 188,596,156 (-)NCBI
Rnor_5.02208,002,153 - 208,010,763 (-)NCBI
RGSC_v3.42181,444,599 - 181,451,944 (-)RGD
Celera2168,623,896 - 168,631,240 (-)RGD
Sequence:
RefSeq Acc Id: XM_008761228   ⟹   XP_008759450
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr82176,979,438 - 176,986,612 (-)NCBI
mRatBN7.22174,681,676 - 174,688,852 (-)NCBI
Rnor_6.02188,588,808 - 188,595,996 (-)NCBI
Sequence:
RefSeq Acc Id: XM_063282651   ⟹   XP_063138721
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr82176,979,438 - 176,988,675 (-)NCBI
Protein Sequences
Protein RefSeqs NP_446051 (Get FASTA)   NCBI Sequence Viewer  
  XP_008759450 (Get FASTA)   NCBI Sequence Viewer  
  XP_063138721 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAH70514 (Get FASTA)   NCBI Sequence Viewer  
  BAA07242 (Get FASTA)   NCBI Sequence Viewer  
  EDM00644 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000027920
  ENSRNOP00000082577
GenBank Protein P97553 (Get FASTA)   NCBI Sequence Viewer  
RefSeq Acc Id: NP_446051   ⟸   NM_053599
- Peptide Label: precursor
- UniProtKB: Q6NS29 (UniProtKB/Swiss-Prot),   P97553 (UniProtKB/Swiss-Prot),   A6J6E5 (UniProtKB/TrEMBL),   A0A8L2QHH8 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_008759450   ⟸   XM_008761228
- Peptide Label: isoform X2
- Sequence:
Ensembl Acc Id: ENSRNOP00000027920   ⟸   ENSRNOT00000027920
Ensembl Acc Id: ENSRNOP00000082577   ⟸   ENSRNOT00000117150
RefSeq Acc Id: XP_063138721   ⟸   XM_063282651
- Peptide Label: isoform X1
- UniProtKB: A0A8I5ZUD2 (UniProtKB/TrEMBL)
Protein Domains
Ephrin RBD

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-P97553-F1-model_v2 AlphaFold P97553 1-205 view protein structure

Transcriptome

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

Promoters
RGD ID:13691468
Promoter ID:EPDNEW_R1993
Type:initiation region
Name:Efna1_1
Description:ephrin A1
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_6.02188,596,193 - 188,596,253EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:620388 AgrOrtholog
BioCyc Gene G2FUF-52427 BioCyc
Ensembl Genes ENSRNOG00000020573 Ensembl, ENTREZGENE
Ensembl Transcript ENSRNOT00000027920 ENTREZGENE
  ENSRNOT00000117150 ENTREZGENE
Gene3D-CATH 2.60.40.420 UniProtKB/Swiss-Prot
IMAGE_CLONE IMAGE:7100462 IMAGE-MGC_LOAD
InterPro Cupredoxin UniProtKB/Swiss-Prot
  Ephrin UniProtKB/Swiss-Prot
  Ephrin-A_Ecto UniProtKB/Swiss-Prot
  Ephrin_CS UniProtKB/Swiss-Prot
  Ephrin_RBD UniProtKB/Swiss-Prot
KEGG Report rno:94268 UniProtKB/Swiss-Prot
MGC_CLONE MGC:91567 IMAGE-MGC_LOAD
NCBI Gene 94268 ENTREZGENE
PANTHER EPHRIN-A1 UniProtKB/Swiss-Prot
  PTHR11304 UniProtKB/Swiss-Prot
Pfam Ephrin UniProtKB/Swiss-Prot
PhenoGen Efna1 PhenoGen
PRINTS EPHRIN UniProtKB/Swiss-Prot
PROSITE EPHRIN_RBD_1 UniProtKB/Swiss-Prot
  EPHRIN_RBD_2 UniProtKB/Swiss-Prot
RatGTEx ENSRNOG00000020573 RatGTEx
Superfamily-SCOP SSF49503 UniProtKB/Swiss-Prot
UniProt A0A8I5ZUD2 ENTREZGENE, UniProtKB/TrEMBL
  A0A8L2QHH8 ENTREZGENE, UniProtKB/TrEMBL
  A6J6E5 ENTREZGENE, UniProtKB/TrEMBL
  EFNA1_RAT UniProtKB/Swiss-Prot, ENTREZGENE
  Q6NS29 ENTREZGENE
UniProt Secondary Q6NS29 UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2005-01-20 Efna1  ephrin A1      Symbol and Name status set to approved 1299863 APPROVED
2002-08-07 Efna1  ephrin A1      Symbol and Name status set to provisional 70820 PROVISIONAL

RGD Curation Notes
Note Type Note Reference
gene_expression expressed in thymic epithelial cells and thymocytes 625721
gene_expression expressed in the early stage of thymic development 625721
gene_expression broadly expressed in both the thymic epithelial cells and thymocytes 625721
gene_expression expressed in epithelial cells of various organs, developing skeletal system and dorsal root ganglia 632612
gene_process involved in blood vessel destabilization via the Rac/PAK pathway 1299268