Eaf1 (ELL associated factor 1) - Rat Genome Database

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Gene: Eaf1 (ELL associated factor 1) Mus musculus
Analyze
Symbol: Eaf1
Name: ELL associated factor 1
RGD ID: 1320739
MGI Page MGI
Description: Predicted to enable transcription elongation factor activity. Predicted to be involved in regulation of transcription elongation by RNA polymerase II and transcription elongation by RNA polymerase II. Predicted to act upstream of or within positive regulation of transcription by RNA polymerase II. Predicted to be located in intercellular bridge and nuclear body. Predicted to be part of transcription elongation factor complex. Is expressed in several structures, including alimentary system; brain; genitourinary system; respiratory system; and sensory organ. Orthologous to human EAF1 (ELL associated factor 1).
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: 4933403C17Rik; AI666536; ELL-associated factor 1
RGD Orthologs
Human
Rat
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: GRCm39 - Mouse Genome Assembly GRCm39
Position:
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391431,217,036 - 31,231,815 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1431,216,356 - 31,231,815 (+)EnsemblGRCm39 Ensembl
GRCm381431,495,079 - 31,509,858 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1431,494,399 - 31,509,858 (+)EnsemblGRCm38mm10GRCm38
MGSCv371432,308,265 - 32,323,044 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361430,324,152 - 30,338,867 (+)NCBIMGSCv36mm8
Celera1427,754,057 - 27,768,861 (+)NCBICelera
Cytogenetic Map14BNCBI
cM Map1419.14NCBI
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

Cellular Component

Molecular Function

Molecular Pathway Annotations     Click to see Annotation Detail View
References

References - curated
# Reference Title Reference Citation
1. The super elongation complex (SEC) family in transcriptional control. Luo Z, etal., Nat Rev Mol Cell Biol. 2012 Sep;13(9):543-7. doi: 10.1038/nrm3417. Epub 2012 Aug 16.
2. MGDs mouse GO annotations MGD data from the GO Consortium
3. Mouse MP Annotation Import Pipeline RGD automated import pipeline
4. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:8889548   PMID:10349636   PMID:11042159   PMID:11076861   PMID:11217851   PMID:12466851   PMID:12477932   PMID:12520002   PMID:12761297   PMID:14610273   PMID:14729942   PMID:15489334  
PMID:16141072   PMID:16141073   PMID:16602821   PMID:18799693   PMID:21267068   PMID:21677750   PMID:21873635   PMID:24194600   PMID:25849460   PMID:27626380   PMID:30418981   PMID:31229879  
PMID:34321999   PMID:38355793  


Genomics

Comparative Map Data
Eaf1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391431,217,036 - 31,231,815 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1431,216,356 - 31,231,815 (+)EnsemblGRCm39 Ensembl
GRCm381431,495,079 - 31,509,858 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1431,494,399 - 31,509,858 (+)EnsemblGRCm38mm10GRCm38
MGSCv371432,308,265 - 32,323,044 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361430,324,152 - 30,338,867 (+)NCBIMGSCv36mm8
Celera1427,754,057 - 27,768,861 (+)NCBICelera
Cytogenetic Map14BNCBI
cM Map1419.14NCBI
EAF1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38315,427,598 - 15,442,613 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl315,427,598 - 15,450,635 (+)EnsemblGRCh38hg38GRCh38
GRCh37315,469,105 - 15,484,120 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36315,444,068 - 15,459,124 (+)NCBINCBI36Build 36hg18NCBI36
Build 34315,443,865 - 15,459,123NCBI
Celera315,407,296 - 15,422,352 (+)NCBICelera
Cytogenetic Map3p25.1NCBI
HuRef315,404,403 - 15,419,455 (+)NCBIHuRef
CHM1_1315,419,949 - 15,434,999 (+)NCBICHM1_1
T2T-CHM13v2.0315,430,010 - 15,445,021 (+)NCBIT2T-CHM13v2.0
Eaf1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8166,704,727 - 6,719,476 (+)NCBIGRCr8
mRatBN7.2166,698,322 - 6,713,071 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl166,698,322 - 6,713,071 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx166,710,831 - 6,725,457 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0167,855,725 - 7,870,351 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0166,718,496 - 6,733,172 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0167,588,217 - 7,602,966 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl167,588,217 - 7,602,966 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0167,523,081 - 7,537,830 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4166,938,938 - 6,953,687 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.1166,939,794 - 6,950,565 (+)NCBI
Celera168,477,375 - 8,492,124 (-)NCBICelera
Cytogenetic Map16p16NCBI
Eaf1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554301,933,290 - 1,947,932 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049554301,933,290 - 1,946,900 (+)NCBIChiLan1.0ChiLan1.0
EAF1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2215,412,666 - 15,427,773 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1315,417,430 - 15,432,533 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0315,353,459 - 15,368,579 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1315,689,745 - 15,705,300 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl315,689,745 - 15,705,300 (+)Ensemblpanpan1.1panPan2
EAF1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12327,188,983 - 27,203,441 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl2327,159,751 - 27,203,558 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha2327,163,324 - 27,177,930 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.02327,701,202 - 27,715,545 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl2327,629,445 - 27,715,744 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.12327,390,596 - 27,404,986 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.02327,452,366 - 27,466,745 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.02327,701,137 - 27,715,537 (-)NCBIUU_Cfam_GSD_1.0
Eaf1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024405118169,811,142 - 169,825,002 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049364732,949,692 - 2,963,554 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049364732,950,321 - 2,963,560 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
EAF1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl132,654,630 - 2,671,132 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1132,654,829 - 2,671,140 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2132,581,817 - 2,597,145 (+)NCBISscrofa10.2Sscrofa10.2susScr3
EAF1
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11560,261,013 - 60,277,177 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl1560,260,967 - 60,277,626 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366604133,293,734 - 33,309,009 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Eaf1
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046248225,239,964 - 5,253,810 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046248225,240,423 - 5,253,762 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Eaf1
464 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:1231
Count of miRNA genes:614
Interacting mature miRNAs:772
Transcripts:ENSMUST00000022446
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 (GRCm39)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1357589Kdnw2_mkidney weight 2 (mouse)Not determined1420887473121269804Mouse
27226748Femd8_mfemur midshaft diameter 8, 10 week (mouse)141376927346737457Mouse
1357527Epfpq1_mepididymal fat percentage QTL 1 (mouse)Not determined142106245071885801Mouse
27226744Metcl6_mmetatarsal-calcaneal length 6, 5 week (mouse)143032195752937457Mouse
27226775Tibl7_mtibia length 7, 5 week (mouse)143032195748837457Mouse
27226774Tibl15_mtibia length 15, 10 week (mouse)143032195787937436Mouse
4142485Modor2_mmodifier of ocular retardation 2 (mouse)Not determined142492624858179769Mouse
1301372Sluc13_msusceptibility to lung cancer 13 (mouse)Not determined141882760452827726Mouse
4141550Dbm3_mdiabetes modifier 3 (mouse)Not determined514347339143596Mouse
1300544Hypn_mhyperinsulinemia (mouse)Not determined141516061649160765Mouse
1301991Wta3_mweight adult 3 (mouse)Not determined14388747337887650Mouse
1300998Cia17_mcollagen induced arthritis 17 (mouse)Not determined143033525064335381Mouse
4141864Mrdq4_mmodifier of retinal degeneration QTL 4 (mouse)Not determined992324548765082Mouse
10043886Cia49_mcollagen induced arthritis QTL 49 (mouse)Not determined142999699463997133Mouse
1300779Dyscalc4_mdystrophic cardiac calcinosis 4 (mouse)Not determined141221287146213007Mouse
14746973Manh76_mmandible shape 76 (mouse)142228721756287217Mouse
1300909Ath13_matherosclerosis 13 (mouse)Not determined143033525064335381Mouse
27226752Femd4_mfemur midshaft diameter 4, 5 week (mouse)141376927347237457Mouse
13506929Recrq10_mrecombination rate in male meiosis QTL 10 (mouse)142792195761137449Mouse

Markers in Region
AI666536  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm381431,509,392 - 31,509,471UniSTSGRCm38
MGSCv371432,322,578 - 32,322,657UniSTSGRCm37
Celera1427,768,395 - 27,768,474UniSTS
Cytogenetic Map14BUniSTS
Whitehead/MRC_RH14228.56UniSTS


Expression

RNA-SEQ Expression


Sequence


Ensembl Acc Id: ENSMUST00000022446   ⟹   ENSMUSP00000022446
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl1431,216,356 - 31,231,815 (+)Ensembl
GRCm38.p6 Ensembl1431,494,399 - 31,509,858 (+)Ensembl
Ensembl Acc Id: ENSMUST00000226564
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl1431,224,210 - 31,226,570 (+)Ensembl
GRCm38.p6 Ensembl1431,502,253 - 31,504,613 (+)Ensembl
Ensembl Acc Id: ENSMUST00000227551
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl1431,228,186 - 31,229,109 (+)Ensembl
GRCm38.p6 Ensembl1431,506,229 - 31,507,152 (+)Ensembl
Ensembl Acc Id: ENSMUST00000228952
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl1431,217,153 - 31,222,432 (+)Ensembl
GRCm38.p6 Ensembl1431,495,196 - 31,500,475 (+)Ensembl
RefSeq Acc Id: NM_028932   ⟹   NP_083208
RefSeq Status: VALIDATED
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm391431,217,036 - 31,231,815 (+)NCBI
GRCm381431,495,079 - 31,509,858 (+)ENTREZGENE
MGSCv371432,308,265 - 32,323,044 (+)RGD
Celera1427,754,057 - 27,768,861 (+)RGD
cM Map14 ENTREZGENE
Sequence:
Protein Sequences
Protein RefSeqs NP_083208 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAH79658 (Get FASTA)   NCBI Sequence Viewer  
  BAB30346 (Get FASTA)   NCBI Sequence Viewer  
  BAC31806 (Get FASTA)   NCBI Sequence Viewer  
  BAC32058 (Get FASTA)   NCBI Sequence Viewer  
  EDL24813 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSMUSP00000022446
  ENSMUSP00000022446.6
GenBank Protein Q9D4C5 (Get FASTA)   NCBI Sequence Viewer  
RefSeq Acc Id: NP_083208   ⟸   NM_028932
- UniProtKB: Q9D4C5 (UniProtKB/Swiss-Prot)
- Sequence:
Ensembl Acc Id: ENSMUSP00000022446   ⟸   ENSMUST00000022446

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q9D4C5-F1-model_v2 AlphaFold Q9D4C5 1-268 view protein structure

Promoters
RGD ID:8681836
Promoter ID:EPDNEW_M18949
Type:initiation region
Name:Eaf1_1
Description:Mus musculus ELL associated factor 1 , mRNA.
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm381431,495,109 - 31,495,169EPDNEW
RGD ID:6825165
Promoter ID:MM_KWN:16112
Type:CpG-Island
SO ACC ID:SO:0000170
Source:MPROMDB
Tissues & Cell Lines:3T3L1_Day0,   3T3L1_Day1,   3T3L1_Day2,   3T3L1_Day3,   3T3L1_Day4,   3T3L1_Day6,   BoneMarrow_0Hour,   BoneMarrow_2Hour,   BoneMarrow_4Hour,   Brain,   ES_Cell,   Kidney,   Liver,   Lung,   MEF_B4,   MEF_B6,   Spleen
Transcripts:ENSMUST00000055303,   ENSMUST00000112031,   UC007SXS.1,   UC007SXT.1
Position:
Mouse AssemblyChrPosition (strand)Source
MGSCv361432,307,984 - 32,308,484 (-)MPROMDB

Additional Information

Database Acc Id Source(s)
AGR Gene MGI:1921677 AgrOrtholog
Ensembl Genes ENSMUSG00000021890 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Transcript ENSMUST00000022446 ENTREZGENE
  ENSMUST00000022446.7 UniProtKB/Swiss-Prot
InterPro EAF_fam UniProtKB/Swiss-Prot
  Tscrpt_elong_fac_Eaf_N UniProtKB/Swiss-Prot
KEGG Report mmu:74427 UniProtKB/Swiss-Prot
MGD MGI:1921677 ENTREZGENE
NCBI Gene 74427 ENTREZGENE
PANTHER ELL-ASSOCIATED FACTOR 1 UniProtKB/Swiss-Prot
  PTHR15970 UniProtKB/Swiss-Prot
Pfam EAF UniProtKB/Swiss-Prot
PhenoGen Eaf1 PhenoGen
UniProt EAF1_MOUSE UniProtKB/Swiss-Prot, ENTREZGENE