Edf1 (endothelial differentiation-related factor 1) - Rat Genome Database

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Gene: Edf1 (endothelial differentiation-related factor 1) Rattus norvegicus
Analyze
Symbol: Edf1
Name: endothelial differentiation-related factor 1
RGD ID: 1308073
Description: Predicted to enable TFIID-class transcription factor complex binding activity and transcription coactivator activity. Predicted to be involved in cell differentiation and positive regulation of DNA-templated transcription. Predicted to be located in cytoplasm. Predicted to be active in nucleus. Orthologous to human EDF1 (endothelial differentiation related factor 1); INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; 2,6-dinitrotoluene; 6-propyl-2-thiouracil.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: calmodulin-associated peptide 19; calmodulin-associated peptide-19; CAP-19; EDF-1; endothelial differentiation-related factor 1 homolog; MBF1; multiprotein-bridging factor 1
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
GRCr8328,764,906 - 28,779,499 (+)NCBIGRCr8GRCr8GRCr8
mRatBN7.238,377,058 - 8,381,363 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl38,366,613 - 8,381,363 (+)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx311,482,239 - 11,486,544 (+)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0320,068,465 - 20,072,770 (+)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0318,258,308 - 18,262,613 (+)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.032,781,169 - 2,785,474 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl32,781,169 - 2,785,474 (+)Ensemblrn6Rnor6.0
Rnor_5.032,762,582 - 2,766,887 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.433,727,811 - 3,732,116 (+)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera33,202,038 - 3,206,343 (+)NCBICelera
RGSC_v3.133,727,749 - 3,732,118 (+)NCBI
Cytogenetic Map3p13NCBI
JBrowse:




Disease Annotations     Click to see Annotation Detail View

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component
cytoplasm  (IEA,ISO)
cytosol  (ISO)
nucleolus  (ISO)
nucleoplasm  (ISO)
nucleus  (IBA,IEA,ISO)

Molecular Function

References

References - curated
# Reference Title Reference Citation
1. 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.
2. Rat ISS GO annotations from GOA human gene data--August 2006 GOA data from the GO Consortium
3. Rat ISS GO annotations from MGI mouse gene data--August 2006 MGD data from the GO Consortium
4. GOA pipeline RGD automated data pipeline
5. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:9795107   PMID:10567391   PMID:12040021   PMID:12477932   PMID:12729799   PMID:15489334   PMID:16854843   PMID:22658674   PMID:22681889   PMID:23376485  


Genomics

Comparative Map Data
Edf1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8328,764,906 - 28,779,499 (+)NCBIGRCr8GRCr8GRCr8
mRatBN7.238,377,058 - 8,381,363 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl38,366,613 - 8,381,363 (+)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx311,482,239 - 11,486,544 (+)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0320,068,465 - 20,072,770 (+)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0318,258,308 - 18,262,613 (+)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.032,781,169 - 2,785,474 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl32,781,169 - 2,785,474 (+)Ensemblrn6Rnor6.0
Rnor_5.032,762,582 - 2,766,887 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.433,727,811 - 3,732,116 (+)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera33,202,038 - 3,206,343 (+)NCBICelera
RGSC_v3.133,727,749 - 3,732,118 (+)NCBI
Cytogenetic Map3p13NCBI
EDF1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh389136,862,119 - 136,866,308 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl9136,862,115 - 136,866,312 (-)Ensemblhg38GRCh38
GRCh379139,756,571 - 139,760,760 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 369138,876,392 - 138,880,559 (-)NCBIBuild 36Build 36hg18NCBI36
Build 349137,033,069 - 137,036,575NCBI
Celera9110,270,359 - 110,274,526 (-)NCBICelera
Cytogenetic Map9q34.3NCBI
HuRef9109,215,783 - 109,220,005 (-)NCBIHuRef
CHM1_19139,905,298 - 139,909,520 (-)NCBICHM1_1
T2T-CHM13v2.09149,096,300 - 149,100,489 (-)NCBIT2T-CHM13v2.0
Edf1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39225,447,838 - 25,452,096 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl225,447,859 - 25,452,094 (+)EnsemblGRCm39 EnsemblGRCm39
GRCm38225,557,824 - 25,562,084 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl225,557,847 - 25,562,082 (+)Ensemblmm10GRCm38
MGSCv37225,413,420 - 25,417,602 (+)NCBIMGSCv37MGSCv37mm9NCBIm37
MGSCv36225,379,909 - 25,384,087 (+)NCBIMGSCv36mm8
Celera225,285,667 - 25,289,849 (+)NCBICelera
Cytogenetic Map2A3NCBI
cM Map217.39NCBI
Edf1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049555134,942,268 - 4,946,000 (-)Ensembl
ChiLan1.0NW_0049555134,942,268 - 4,945,645 (-)NCBIChiLan1.0ChiLan1.0
EDF1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2112,535,939 - 2,540,242 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan192,538,330 - 2,542,577 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v09107,919,200 - 107,923,415 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.19136,889,383 - 136,892,852 (-)NCBIPanPan1.1PanPan1.1panPan2
PanPan1.1 Ensembl9136,889,383 - 136,891,133 (-)EnsemblpanPan2panpan1.1
EDF1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1948,722,918 - 48,726,358 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl948,722,658 - 48,731,723 (+)EnsemblcanFam3CanFam3.1
Dog10K_Boxer_Tasha947,936,663 - 47,940,071 (+)NCBIDog10K_Boxer_TashaDog10K_Boxer_Tasha
ROS_Cfam_1.0949,601,089 - 49,604,497 (+)NCBIROS_Cfam_1.0ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl949,600,836 - 49,604,400 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1948,377,308 - 48,380,716 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0948,676,021 - 48,679,429 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0948,722,977 - 48,726,385 (+)NCBIUU_Cfam_GSD_1.0UU_Cfam_GSD_1.0
Edf1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024404947202,319,890 - 202,323,896 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049366691,051,137 - 1,055,168 (+)EnsemblSpeTri2.0 Ensembl
SpeTri2.0NW_0049366691,051,137 - 1,055,168 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
EDF1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa10.21313,804,978 - 313,808,689 (+)NCBISscrofa10.2Sscrofa10.2susScr3
EDF1
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1121,322,424 - 1,327,241 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl121,322,311 - 1,329,789 (+)EnsemblChlSab1.1 EnsemblchlSab2Vervet-AGM
Vero_WHO_p1.0NW_0236660583,949,568 - 3,954,851 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Edf1
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_004624760986,822 - 990,019 (+)EnsemblHetGla_female_1.0 EnsemblhetGla2HetGla_female_1.0 Ensembl
HetGla 1.0NW_004624760986,820 - 990,019 (+)NCBIHetGla 1.0HetGla 1.0hetGla2
Edf1
(Rattus rattus - black rat)
Black Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rrattus_CSIRO_v1511,616,772 - 11,621,042 (-)NCBIRrattus_CSIRO_v1

Variants

.
Variants in Edf1
78 total Variants
miRNA Target Status (No longer updated)

Predicted Target Of
Summary Value
Count of predictions:48
Count of miRNA genes:46
Interacting mature miRNAs:48
Transcripts:ENSRNOT00000022196
Prediction methods:Miranda, Rnahybrid
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
1558647Cm46Cardiac mass QTL 465.40.0000055heart mass (VT:0007028)heart wet weight (CMO:0000069)32267715050766390Rat
6893355Bw101Body weight QTL 1010.40.38body mass (VT:0001259)body weight (CMO:0000012)3576639050766390Rat
10450811Scl73Serum cholesterol level QTL 734.70.001blood LDL cholesterol amount (VT:0000181)blood low density lipoprotein cholesterol level (CMO:0000053)3290432947904329Rat
2292615Ept17Estrogen-induced pituitary tumorigenesis QTL 176.7pituitary gland mass (VT:0010496)pituitary gland wet weight (CMO:0000853)3655634751556347Rat
10450808Scl72Serum cholesterol level QTL 724.40.001blood LDL cholesterol amount (VT:0000181)blood low density lipoprotein cholesterol level (CMO:0000053)3290432947904329Rat
10450806Scl71Serum cholesterol level QTL 715.80.001blood LDL cholesterol amount (VT:0000181)blood low density lipoprotein cholesterol level (CMO:0000053)3290432947904329Rat
1558654Bw56Body weight QTL 564.50.0000171body mass (VT:0001259)body weight (CMO:0000012)3576639050766390Rat
10401810Kidm53Kidney mass QTL 53kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)32862533967641995Rat
1298526Arunc3Aerobic running capacity QTL 32.2exercise endurance trait (VT:0002332)longest distance run on treadmill (CMO:0001406)3612543751125437Rat
631545Bp85Blood pressure QTL 853.1arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)3136721849Rat
1358885Bp251Blood pressure QTL 2513.8arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)31141509147Rat
631679Cm10Cardiac mass QTL 107.340.0001heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)3655634751556347Rat
1558657Cm43Cardiac mass QTL 436.63e-08heart mass (VT:0007028)heart wet weight (CMO:0000069)32267715050766390Rat
631568Bp92Blood pressure QTL 922.20.005arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)31527234860272348Rat
6893363Bw105Body weight QTL 1052.60.0036body mass (VT:0001259)body weight (CMO:0000012)3576639050766390Rat
1358888Bp264Blood pressure QTL 2644.43arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)35675975141509147Rat
1358185Ept6Estrogen-induced pituitary tumorigenesis QTL 66.7pituitary gland mass (VT:0010496)pituitary gland wet weight (CMO:0000853)3655634751556347Rat

Markers in Region
RH125844  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_5.01651,399,293 - 51,399,541NCBIRnor5.0
RGSC_v3.41651,962,979 - 51,963,226UniSTSRGSC3.4
Celera1866,208,131 - 66,208,481UniSTS
Celera1646,468,014 - 46,468,261UniSTS
Cytogenetic Map3p13UniSTS
Cytogenetic Map16q12.1UniSTS


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 67 165 91 90 59 92 59 6 356 192 11 144 81 92 31 17 17

Sequence


Ensembl Acc Id: ENSRNOT00000022196   ⟹   ENSRNOP00000022196
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl38,366,613 - 8,381,363 (+)Ensembl
Rnor_6.0 Ensembl32,781,169 - 2,785,474 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000104551   ⟹   ENSRNOP00000091633
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl38,377,477 - 8,381,363 (+)Ensembl
RefSeq Acc Id: NM_001106557   ⟹   NP_001100027
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8328,775,194 - 28,779,499 (+)NCBI
mRatBN7.238,377,058 - 8,381,363 (+)NCBI
Rnor_6.032,781,169 - 2,785,474 (+)NCBI
Rnor_5.032,762,582 - 2,766,887 (+)NCBI
RGSC_v3.433,727,811 - 3,732,116 (+)RGD
Celera33,202,038 - 3,206,343 (+)RGD
Sequence:
RefSeq Acc Id: XM_063283463   ⟹   XP_063139533
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8328,764,906 - 28,779,499 (+)NCBI
Protein Sequences
Protein RefSeqs NP_001100027 (Get FASTA)   NCBI Sequence Viewer  
  XP_063139533 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAI58850 (Get FASTA)   NCBI Sequence Viewer  
  EDL93566 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000100040
GenBank Protein P69736 (Get FASTA)   NCBI Sequence Viewer  
RefSeq Acc Id: NP_001100027   ⟸   NM_001106557
- UniProtKB: P69736 (UniProtKB/Swiss-Prot),   B0BNJ5 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000022196   ⟸   ENSRNOT00000022196
Ensembl Acc Id: ENSRNOP00000091633   ⟸   ENSRNOT00000104551
RefSeq Acc Id: XP_063139533   ⟸   XM_063283463
- Peptide Label: isoform X1
- UniProtKB: A0A8L2QBB2 (UniProtKB/TrEMBL)
Protein Domains
HTH cro/C1-type

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-P69736-F1-model_v2 AlphaFold P69736 1-148 view protein structure

Transcriptome

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

Promoters
RGD ID:13691883
Promoter ID:EPDNEW_R2407
Type:initiation region
Name:Edf1_1
Description:endothelial differentiation-related factor 1
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.032,781,168 - 2,781,228EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1308073 AgrOrtholog
BioCyc Gene G2FUF-50441 BioCyc
Ensembl Genes ENSRNOG00000016272 Ensembl
  ENSRNOG00000084601 ENTREZGENE
Ensembl Transcript ENSRNOT00000132385 ENTREZGENE
Gene3D-CATH 1.10.260.40 UniProtKB/Swiss-Prot
IMAGE_CLONE IMAGE:7445841 IMAGE-MGC_LOAD
InterPro Cro/C1-type_HTH UniProtKB/Swiss-Prot
  Lambda_DNA-bd_dom_sf UniProtKB/Swiss-Prot
  MBF1_N UniProtKB/Swiss-Prot
KEGG Report rno:296570 UniProtKB/Swiss-Prot
MGC_CLONE MGC:188333 IMAGE-MGC_LOAD
NCBI Gene 296570 ENTREZGENE
PANTHER ENDOTHELIAL DIFFERENTIATION-RELATED FACTOR 1 UniProtKB/Swiss-Prot
  ENDOTHELIAL DIFFERENTIATION-RELATED FACTOR 1 MULTIPROTEIN BRIDGING FACTOR 1 UniProtKB/Swiss-Prot
Pfam HTH_3 UniProtKB/Swiss-Prot
  MBF1 UniProtKB/Swiss-Prot
PhenoGen Edf1 PhenoGen
PROSITE HTH_CROC1 UniProtKB/Swiss-Prot
RatGTEx ENSRNOG00000016272 RatGTEx
  ENSRNOG00000084601 RatGTEx
SMART HTH_XRE UniProtKB/Swiss-Prot
Superfamily-SCOP SSF47413 UniProtKB/Swiss-Prot
UniProt A0A8L2QBB2 ENTREZGENE
  A0ABK0KYQ7_RAT UniProtKB/TrEMBL
  A0ABK0L496_RAT UniProtKB/TrEMBL
  A0ABK0M148_RAT UniProtKB/TrEMBL
  B0BNJ5 ENTREZGENE, UniProtKB/TrEMBL
  EDF1_RAT UniProtKB/Swiss-Prot, ENTREZGENE


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2008-04-30 Edf1  endothelial differentiation-related factor 1   Edf1_predicted  endothelial differentiation-related factor 1 (predicted)  'predicted' is removed 2292626 APPROVED
2005-01-12 Edf1_predicted  endothelial differentiation-related factor 1 (predicted)      Symbol and Name status set to approved 70820 APPROVED