Med4 (mediator complex subunit 4) - Rat Genome Database

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Gene: Med4 (mediator complex subunit 4) Rattus norvegicus
Analyze
Symbol: Med4
Name: mediator complex subunit 4
RGD ID: 1306671
Description: Predicted to enable nuclear thyroid hormone receptor binding activity and transcription coactivator activity. Predicted to be involved in positive regulation of transcription initiation by RNA polymerase II and transcription by RNA polymerase II. Predicted to be located in nucleus. Predicted to be part of core mediator complex and mediator complex. Orthologous to human MED4 (mediator complex subunit 4); PARTICIPATES IN RNA polymerase II transcription pathway; INTERACTS WITH 17beta-estradiol; 2,3,7,8-tetrachlorodibenzodioxine; 3-chloropropane-1,2-diol.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: LOC306030; mediator of RNA polymerase II transcription subunit 4; mediator of RNA polymerase II transcription, subunit 4 homolog; mediator of RNA polymerase II transcription, subunit 4 homolog (yeast); Vdrip; vitamin D receptor interacting protein
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
GRCr81555,106,079 - 55,116,354 (+)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl1555,105,998 - 55,116,429 (+)EnsemblGRCr8
mRatBN7.21548,696,542 - 48,706,818 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1548,696,511 - 48,706,820 (+)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx1552,837,909 - 52,848,181 (+)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01553,949,486 - 53,959,758 (+)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01550,794,276 - 50,804,563 (+)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.01555,406,543 - 55,416,816 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1555,406,543 - 55,416,815 (+)Ensemblrn6Rnor6.0
Rnor_5.01559,128,754 - 59,139,027 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.41554,158,386 - 54,168,660 (+)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera1548,344,958 - 48,355,232 (+)NCBICelera
RGSC_v3.11554,174,165 - 54,184,439 (+)NCBI
Cytogenetic Map15q11NCBI
JBrowse:




Disease Annotations     Click to see Annotation Detail View

Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component
core mediator complex  (IBA,IEA,ISO)
mediator complex  (IEA,ISO)
nucleoplasm  (IEA,ISO)
nucleus  (IEA,ISO)

Molecular Function

Molecular Pathway Annotations     Click to see Annotation Detail View
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. Gene dosage, expression, and ontology analysis identifies driver genes in the carcinogenesis and chemoradioresistance of cervical cancer. Lando M, etal., PLoS Genet. 2009 Nov;5(11):e1000719. doi: 10.1371/journal.pgen.1000719. Epub 2009 Nov 13.
3. Rat ISS GO annotations from MGI mouse gene data--August 2006 MGD data from the GO Consortium
4. The Mediator complex and transcription regulation. Poss ZC, etal., Crit Rev Biochem Mol Biol. 2013 Nov-Dec;48(6):575-608. doi: 10.3109/10409238.2013.840259. Epub 2013 Oct 3.
5. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
6. Comprehensive gene review and curation RGD comprehensive gene curation
Additional References at PubMed
PMID:10198638   PMID:10235267   PMID:10882111   PMID:11867769   PMID:12218053   PMID:12477932   PMID:14638676   PMID:15340084   PMID:19946888   PMID:20508642  


Genomics

Comparative Map Data
Med4
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81555,106,079 - 55,116,354 (+)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl1555,105,998 - 55,116,429 (+)EnsemblGRCr8
mRatBN7.21548,696,542 - 48,706,818 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1548,696,511 - 48,706,820 (+)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx1552,837,909 - 52,848,181 (+)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01553,949,486 - 53,959,758 (+)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01550,794,276 - 50,804,563 (+)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.01555,406,543 - 55,416,816 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1555,406,543 - 55,416,815 (+)Ensemblrn6Rnor6.0
Rnor_5.01559,128,754 - 59,139,027 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.41554,158,386 - 54,168,660 (+)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera1548,344,958 - 48,355,232 (+)NCBICelera
RGSC_v3.11554,174,165 - 54,184,439 (+)NCBI
Cytogenetic Map15q11NCBI
MED4
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381348,075,724 - 48,095,104 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1348,053,323 - 48,095,131 (-)Ensemblhg38GRCh38
GRCh371348,649,860 - 48,669,240 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361347,548,093 - 47,567,241 (-)NCBIBuild 36Build 36hg18NCBI36
Build 341347,548,092 - 47,567,241NCBI
Celera1329,704,843 - 29,723,982 (-)NCBICelera
Cytogenetic Map13q14.2NCBI
HuRef1329,441,920 - 29,461,323 (-)NCBIHuRef
CHM1_11348,617,590 - 48,636,992 (-)NCBICHM1_1
T2T-CHM13v2.01347,296,104 - 47,315,464 (-)NCBIT2T-CHM13v2.0
Med4
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391473,747,489 - 73,755,985 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1473,747,465 - 73,756,289 (+)EnsemblGRCm39 EnsemblGRCm39
GRCm381473,510,049 - 73,518,545 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1473,510,025 - 73,518,849 (+)Ensemblmm10GRCm38
MGSCv371473,909,856 - 73,918,352 (+)NCBIMGSCv37MGSCv37mm9NCBIm37
MGSCv361472,244,204 - 72,252,700 (+)NCBIMGSCv36mm8
Celera1471,030,090 - 71,038,619 (+)NCBICelera
Cytogenetic Map14D3NCBI
cM Map1439.05NCBI
Med4
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554311,794,115 - 1,812,889 (-)Ensembl
ChiLan1.0NW_0049554311,794,863 - 1,812,641 (-)NCBIChiLan1.0ChiLan1.0
MED4
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21449,501,810 - 49,549,339 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11348,153,026 - 48,200,552 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01329,227,620 - 29,247,082 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11347,929,918 - 47,948,836 (-)NCBIPanPan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1347,929,918 - 47,948,836 (-)EnsemblpanPan2panpan1.1
MED4
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1223,396,276 - 3,411,037 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl223,396,267 - 3,410,608 (+)EnsemblcanFam3CanFam3.1
Dog10K_Boxer_Tasha223,382,963 - 3,439,510 (+)NCBIDog10K_Boxer_TashaDog10K_Boxer_Tasha
ROS_Cfam_1.0223,468,131 - 3,524,954 (+)NCBIROS_Cfam_1.0ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl223,509,920 - 3,524,949 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1223,253,448 - 3,309,631 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0223,316,446 - 3,372,886 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0223,321,556 - 3,377,754 (+)NCBIUU_Cfam_GSD_1.0UU_Cfam_GSD_1.0
Med4
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024404945157,913,380 - 157,930,626 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365651,396,088 - 1,415,248 (-)EnsemblSpeTri2.0 Ensembl
SpeTri2.0NW_0049365651,397,434 - 1,414,674 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
MED4
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1119,551,863 - 19,566,926 (+)EnsemblsusScr11Sscrofa11.1
Sscrofa11.11119,551,858 - 19,566,915 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21120,010,002 - 20,019,435 (+)NCBISscrofa10.2Sscrofa10.2susScr3
MED4
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1325,990,203 - 26,009,472 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl325,990,159 - 26,009,438 (-)EnsemblChlSab1.1 EnsemblchlSab2Vervet-AGM
Vero_WHO_p1.0NW_02366605717,900,930 - 17,920,167 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Med4
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_0046247486,770,231 - 6,790,385 (+)NCBIHetGla 1.0HetGla 1.0hetGla2
Med4
(Rattus rattus - black rat)
Black Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rrattus_CSIRO_v11250,859,752 - 50,870,035 (-)NCBIRrattus_CSIRO_v1

Variants

.
Variants in Med4
88 total Variants
miRNA Target Status (No longer updated)

Predicted Target Of
Summary Value
Count of predictions:322
Count of miRNA genes:217
Interacting mature miRNAs:256
Transcripts:ENSRNOT00000023195
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
1300144Rf23Renal function QTL 233.61renal blood flow trait (VT:2000006)absolute change in renal vascular resistance (CMO:0001900)1544806773104695021Rat
152025253Hrtrt24Heart rate QTL 243.82heart pumping trait (VT:2000009)153185580392671517Rat
1582227Gluco30Glucose level QTL 303.60.0003blood glucose amount (VT:0000188)absolute change in blood glucose level area under curve (CMO:0002034)154367724488677244Rat
10054130Srcrt8Stress Responsive Cort QTL 82.180.0085blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)152852773273527732Rat
1582228Epfw3Epididymal fat weight QTL 34.10.0002epididymal fat pad mass (VT:0010421)epididymal fat pad weight to body weight ratio (CMO:0000658)154367724488677244Rat
1578646Bmd18Bone mineral density QTL 185.2femur mineral mass (VT:0010011)trabecular volumetric bone mineral density (CMO:0001729)1525285835104695021Rat
1578647Bmd17Bone mineral density QTL 174femur mineral mass (VT:0010011)total volumetric bone mineral density (CMO:0001728)1525285835104695021Rat
61424Scl1Serum cholesterol level QTL 17.70.001blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)151915576287086765Rat
1598828Glom14Glomerulus QTL 142.5kidney glomerulus morphology trait (VT:0005325)index of glomerular damage (CMO:0001135)154046315285463152Rat
2317750Glom26Glomerulus QTL 264.3urine protein amount (VT:0005160)urine protein level (CMO:0000591)151492659471614418Rat
631550Bw7Body weight QTL 73.6body mass (VT:0001259)body weight (CMO:0000012)152233635167336351Rat
1582242Gluco28Glucose level QTL 283.30.0008blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)154367724488677244Rat
1582244Bw79Body weight QTL 7940.0002epididymal fat pad mass (VT:0010421)epididymal fat pad weight to body weight ratio (CMO:0000658)154367724488677244Rat
1578660Bss19Bone structure and strength QTL 194.3femur morphology trait (VT:0000559)bone trabecular cross-sectional area (CMO:0002311)1525285835104695021Rat
7411725Strs7Sensitivity to stroke QTL 73.8cerebrum integrity trait (VT:0010549)percentage of study population developing cerebrovascular lesions during a period of time (CMO:0000932)154446544756583797Rat
1582214Stl21Serum triglyceride level QTL 213.10.022blood triglyceride amount (VT:0002644)serum triglyceride level (CMO:0000360)154367724488677244Rat

Markers in Region
RH134687  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21548,706,506 - 48,706,693 (+)MAPPERmRatBN7.2
Rnor_6.01555,416,505 - 55,416,691NCBIRnor6.0
Rnor_5.01559,138,716 - 59,138,902UniSTSRnor5.0
RGSC_v3.41554,168,349 - 54,168,535UniSTSRGSC3.4
Celera1548,354,921 - 48,355,107UniSTS
Cytogenetic Map15p11UniSTS


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: ENSRNOT00000023195   ⟹   ENSRNOP00000023195
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl1555,105,998 - 55,116,429 (+)Ensembl
mRatBN7.2 Ensembl1548,696,511 - 48,706,820 (+)Ensembl
Rnor_6.0 Ensembl1555,406,543 - 55,416,815 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000113571   ⟹   ENSRNOP00000077263
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1548,696,529 - 48,706,673 (+)Ensembl
RefSeq Acc Id: NM_001024256   ⟹   NP_001019427
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81555,106,079 - 55,116,354 (+)NCBI
mRatBN7.21548,696,542 - 48,706,818 (+)NCBI
Rnor_6.01555,406,543 - 55,416,816 (+)NCBI
Rnor_5.01559,128,754 - 59,139,027 (+)NCBI
RGSC_v3.41554,158,386 - 54,168,660 (+)RGD
Celera1548,344,958 - 48,355,232 (+)RGD
Sequence:
Protein Sequences
Protein RefSeqs NP_001019427 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAH93402 (Get FASTA)   NCBI Sequence Viewer  
  EDM02270 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000023195
GenBank Protein Q561Q8 (Get FASTA)   NCBI Sequence Viewer  
RefSeq Acc Id: NP_001019427   ⟸   NM_001024256
- UniProtKB: Q561Q8 (UniProtKB/Swiss-Prot),   A0A8L2QD52 (UniProtKB/TrEMBL),   A6HTQ7 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000023195   ⟸   ENSRNOT00000023195
Ensembl Acc Id: ENSRNOP00000077263   ⟸   ENSRNOT00000113571

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q561Q8-F1-model_v2 AlphaFold Q561Q8 1-270 view protein structure

Transcriptome

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

Promoters
RGD ID:13699824
Promoter ID:EPDNEW_R10348
Type:multiple initiation site
Name:Med4_1
Description:mediator complex subunit 4
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_6.01555,406,528 - 55,406,588EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1306671 AgrOrtholog
BioCyc Gene G2FUF-13162 BioCyc
Ensembl Genes ENSRNOG00000017170 Ensembl, ENTREZGENE
Ensembl Transcript ENSRNOT00000023195 ENTREZGENE
IMAGE_CLONE IMAGE:7389622 IMAGE-MGC_LOAD
InterPro Mediator_Med4 UniProtKB/Swiss-Prot
KEGG Report rno:306030 UniProtKB/Swiss-Prot
MGC_CLONE MGC:112765 IMAGE-MGC_LOAD
NCBI Gene 306030 ENTREZGENE
PANTHER MEDIATOR OF RNA POLYMERASE II TRANSCRIPTION SUBUNIT 4 UniProtKB/Swiss-Prot
  PTHR13208 UniProtKB/Swiss-Prot
Pfam Med4 UniProtKB/Swiss-Prot
PhenoGen Med4 PhenoGen
RatGTEx ENSRNOG00000017170 RatGTEx
UniProt A0A8L2QD52 ENTREZGENE, UniProtKB/TrEMBL
  A6HTQ7 ENTREZGENE, UniProtKB/TrEMBL
  MED4_RAT UniProtKB/Swiss-Prot, ENTREZGENE


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2008-10-23 Med4  mediator complex subunit 4  Med4  mediator of RNA polymerase II transcription, subunit 4 homolog (yeast)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2006-03-30 Med4  mediator of RNA polymerase II transcription, subunit 4 homolog (yeast)  Vdrip  vitamin D receptor interacting protein  Symbol and Name updated 1299863 APPROVED
2005-12-06 Vdrip  vitamin D receptor interacting protein  Vdrip_predicted  vitamin D receptor interacting protein (predicted)  Symbol and Name updated 1559027 APPROVED
2005-01-12 Vdrip_predicted  vitamin D receptor interacting protein (predicted)      Symbol and Name status set to approved 70820 APPROVED