Med17 (mediator complex subunit 17) - Rat Genome Database

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Gene: Med17 (mediator complex subunit 17) Rattus norvegicus
Analyze
Symbol: Med17
Name: mediator complex subunit 17
RGD ID: 1311120
Description: Contributes to ubiquitin protein ligase activity. Involved in protein ubiquitination. Part of ubiquitin ligase complex. Human ortholog(s) of this gene implicated in infantile cerebral and cerebellar atrophy with postnatal progressive microcephaly. Orthologous to human MED17 (mediator complex subunit 17); PARTICIPATES IN RNA polymerase II transcription pathway; INTERACTS WITH 2,4-dinitrotoluene; 2,6-dinitrotoluene; bisphenol A.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: cofactor required for Sp1 transcriptional activation, subunit 6; Crsp6; LOC300367; mediator of RNA polymerase II transcription subunit 17
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2812,101,594 - 12,120,592 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl812,101,594 - 12,120,592 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx816,083,107 - 16,102,171 (-)NCBIRnor_SHR
UTH_Rnor_SHRSP_BbbUtx_1.0814,380,857 - 14,399,921 (-)NCBIRnor_SHRSP
UTH_Rnor_WKY_Bbb_1.0812,364,550 - 12,383,548 (-)NCBIRnor_WKY
Rnor_6.0813,522,257 - 13,835,302 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl813,819,563 - 13,835,168 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0813,756,806 - 13,774,832 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
Rnor_5.0813,465,155 - 13,466,922 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4812,062,713 - 12,081,709 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.1812,064,449 - 12,083,299 (-)NCBI
Celera813,569,315 - 13,588,313 (-)NCBICelera
Cytogenetic Map8q12NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

Molecular Pathway Annotations     Click to see Annotation Detail View
References

References - curated
# Reference Title Reference Citation
1. Mammalian mediator subunit mMED8 is an Elongin BC-interacting protein that can assemble with Cul2 and Rbx1 to reconstitute a ubiquitin ligase. Brower CS, etal., Proc Natl Acad Sci U S A. 2002 Aug 6;99(16):10353-8. Epub 2002 Jul 29.
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. Rat ISS GO annotations from GOA human gene data--August 2006 GOA data from the GO Consortium
4. OMIM Disease Annotation Pipeline OMIM Disease Annotation Pipeline
5. 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.
6. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
7. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
8. Comprehensive gene review and curation RGD comprehensive gene curation
Additional References at PubMed
PMID:9989412   PMID:10198638   PMID:10235267   PMID:11867769   PMID:12037571   PMID:12218053   PMID:12477932   PMID:14638676   PMID:15340084   PMID:19946888   PMID:20508642   PMID:20720539  


Genomics

Comparative Map Data
Med17
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2812,101,594 - 12,120,592 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl812,101,594 - 12,120,592 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx816,083,107 - 16,102,171 (-)NCBIRnor_SHR
UTH_Rnor_SHRSP_BbbUtx_1.0814,380,857 - 14,399,921 (-)NCBIRnor_SHRSP
UTH_Rnor_WKY_Bbb_1.0812,364,550 - 12,383,548 (-)NCBIRnor_WKY
Rnor_6.0813,522,257 - 13,835,302 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl813,819,563 - 13,835,168 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0813,756,806 - 13,774,832 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
Rnor_5.0813,465,155 - 13,466,922 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4812,062,713 - 12,081,709 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.1812,064,449 - 12,083,299 (-)NCBI
Celera813,569,315 - 13,588,313 (-)NCBICelera
Cytogenetic Map8q12NCBI
MED17
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381193,784,282 - 93,814,963 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p13 Ensembl1193,784,227 - 93,814,963 (+)EnsemblGRCh38hg38GRCh38
GRCh371193,517,448 - 93,548,129 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361193,157,053 - 93,186,144 (+)NCBINCBI36Build 36hg18NCBI36
Build 341193,157,095 - 93,186,102NCBI
Celera1190,808,857 - 90,837,937 (+)NCBICelera
Cytogenetic Map11q21NCBI
HuRef1189,594,312 - 89,623,193 (+)NCBIHuRef
CHM1_11193,400,364 - 93,429,449 (+)NCBICHM1_1
T2T-CHM13v2.01193,700,614 - 93,731,285 (+)NCBIT2T-CHM13v2.0
Med17
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39915,171,647 - 15,194,576 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl915,171,647 - 15,191,227 (-)EnsemblGRCm39 Ensembl
GRCm38915,260,351 - 15,279,906 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl915,260,351 - 15,279,931 (-)EnsemblGRCm38mm10GRCm38
MGSCv37915,064,795 - 15,084,311 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36915,010,744 - 15,030,260 (-)NCBIMGSCv36mm8
Celera912,539,617 - 12,559,133 (-)NCBICelera
Cytogenetic Map9A2NCBI
Med17
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_004955414755,975 - 777,480 (-)EnsemblChiLan1.0
ChiLan1.0NW_004955414755,975 - 779,934 (-)NCBIChiLan1.0ChiLan1.0
MED17
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.11192,292,947 - 92,321,913 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1192,292,947 - 92,321,913 (+)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v01188,806,209 - 88,835,138 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
MED17
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1216,967,304 - 6,990,542 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl216,967,481 - 6,990,547 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha216,982,685 - 7,005,952 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0217,147,946 - 7,171,189 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl217,118,059 - 7,171,135 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1216,934,113 - 6,957,371 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0216,998,521 - 7,021,778 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0217,047,357 - 7,070,630 (-)NCBIUU_Cfam_GSD_1.0
Med17
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440494778,871,484 - 78,893,390 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_004936674997,259 - 1,019,953 (-)EnsemblSpeTri2.0
SpeTri2.0NW_004936674998,036 - 1,019,937 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
MED17
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl926,192,201 - 26,228,612 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1926,192,206 - 26,214,177 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2929,825,463 - 29,847,759 (+)NCBISscrofa10.2Sscrofa10.2susScr3
MED17
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1185,031,407 - 85,060,562 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl185,031,716 - 85,059,285 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366604340,737,891 - 40,768,990 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Med17
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462473538,427,918 - 38,451,198 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462473538,427,854 - 38,450,625 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Med17
152 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:37
Count of miRNA genes:37
Interacting mature miRNAs:37
Transcripts:ENSRNOT00000014435
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 (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
9590084Insglur5Insulin/glucose ratio QTL 518.540.001blood insulin amount (VT:0001560)calculated plasma insulin level (CMO:0002170)8124597739Rat
2317882Alcrsp24Alcohol response QTL 243.20.05response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)8125902202Rat
12880023Bw184Body weight QTL 1840.001body mass (VT:0001259)body weight (CMO:0000012)8209764047097640Rat
12880025Cm102Cardiac mass QTL 1020.044heart mass (VT:0007028)heart wet weight to body weight ratio (CMO:0002408)8209764047097640Rat
12880028Cm103Cardiac mass QTL 1030.02heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)8209764047097640Rat
12880044Am9Aortic mass QTL 90.007aorta mass (VT:0002845)aorta weight to aorta length to body weight ratio (CMO:0002722)8209764047097640Rat
2317032Ginf2Gastrointestinal inflammation QTL 23.210.005liver integrity trait (VT:0010547)liver granuloma severity score (CMO:0002157)8470581049705810Rat
2317036Livw3Liver weight QTL 32.430.01liver mass (VT:0003402)liver weight to body weight ratio (CMO:0000633)8470581049705810Rat
2317048Ginf1Gastrointestinal inflammation QTL 13.520.005cecum mucosa thickness (VT:0010234)enterocolitis severity score (CMO:0002138)8470581049705810Rat
2301416Bp315Blood pressure QTL 3150.008arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)8767057852670578Rat
1354595Despr4Despair related QTL 42.160.0036locomotor behavior trait (VT:0001392)amount of time spent in voluntary immobility (CMO:0001043)8768895552688955Rat
1354627Despr14Despair related QTL 140.0056locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)8768895552688955Rat
1581557Eae16Experimental allergic encephalomyelitis QTL 163.8nervous system integrity trait (VT:0010566)experimental autoimmune encephalomyelitis incidence/prevalence measurement (CMO:0001046)88462195110921472Rat
2317030Wbc5White blood cell count QTL 53.210.005leukocyte quantity (VT:0000217)white blood cell count (CMO:0000027)8873663553736635Rat
2317051Aia18Adjuvant induced arthritis QTL 182.42joint integrity trait (VT:0010548)left rear ankle joint diameter (CMO:0002149)8873663553736635Rat
1598824Memor4Memory QTL 42.5exploratory behavior trait (VT:0010471)total horizontal distance resulting from voluntary locomotion in an experimental apparatus (CMO:0001443)8971222053356647Rat
1357398Slep3Serum leptin concentration QTL 33.43blood leptin amount (VT:0005667)serum leptin level (CMO:0000780)8971246341866876Rat
2302367Slep5Serum leptin concentration QTL 53.43blood leptin amount (VT:0005667)serum leptin level (CMO:0000780)8971246341866876Rat
631650Stl6Serum triglyceride level QTL 640.0019blood triglyceride amount (VT:0002644)plasma triglyceride level (CMO:0000548)810378157112202585Rat

Markers in Region
RH130708  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2812,122,627 - 12,122,839 (+)MAPPERmRatBN7.2
Rnor_6.0813,837,338 - 13,837,549NCBIRnor6.0
Rnor_5.0813,776,868 - 13,777,079UniSTSRnor5.0
RGSC_v3.4812,083,745 - 12,083,956UniSTSRGSC3.4
Celera813,590,349 - 13,590,560UniSTS
RH 3.4 Map8109.8UniSTS
Cytogenetic Map8q12UniSTS
RH140967  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2812,103,380 - 12,103,570 (+)MAPPERmRatBN7.2
Rnor_6.0813,524,066 - 13,524,255NCBIRnor6.0
Rnor_5.0813,465,282 - 13,465,471UniSTSRnor5.0
RGSC_v3.4812,064,500 - 12,064,689UniSTSRGSC3.4
Celera813,571,102 - 13,571,291UniSTS
RH 3.4 Map8106.9UniSTS
Cytogenetic Map8q12UniSTS


Expression


RNA-SEQ Expression
High: > 1000 TPM value   Medium: Between 11 and 1000 TPM
Low: Between 0.5 and 10 TPM   Below Cutoff: < 0.5 TPM

alimentary part of gastrointestinal system circulatory system endocrine system exocrine system hemolymphoid system hepatobiliary system integumental system musculoskeletal system nervous system renal system reproductive system respiratory system appendage
High
Medium 2 22 30 14 19 14 1 1 74 34 37 11 1
Low 1 21 27 27 27 7 10 1 4 7
Below cutoff

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000014435   ⟹   ENSRNOP00000014435
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl812,101,594 - 12,120,592 (-)Ensembl
Rnor_6.0 Ensembl813,819,563 - 13,835,168 (-)Ensembl
RefSeq Acc Id: NM_001106801   ⟹   NP_001100271
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2812,101,594 - 12,120,592 (-)NCBI
Rnor_6.0813,522,257 - 13,835,302 (-)NCBI
Rnor_5.0813,465,155 - 13,466,922 (-)NCBI
Rnor_5.0813,756,806 - 13,774,832 (-)NCBI
RGSC_v3.4812,062,713 - 12,081,709 (-)RGD
Celera813,569,315 - 13,588,313 (-)RGD
Sequence:
Protein Sequences
Protein RefSeqs NP_001100271 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein EDL78452 (Get FASTA)   NCBI Sequence Viewer  
Reference Sequences
RefSeq Acc Id: NP_001100271   ⟸   NM_001106801
- UniProtKB: D4ABU0 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000014435   ⟸   ENSRNOT00000014435

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-D4ABU0-F1-model_v2 AlphaFold D4ABU0 1-579 view protein structure

Transcriptome

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

Promoters
RGD ID:13695752
Promoter ID:EPDNEW_R6275
Type:initiation region
Name:Med17_1
Description:mediator complex subunit 17
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_6.0813,835,264 - 13,835,324EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1311120 AgrOrtholog
BioCyc Gene G2FUF-31668 BioCyc
Ensembl Genes ENSRNOG00000010496 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000014435 ENTREZGENE
  ENSRNOP00000014435.6 UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000014435 ENTREZGENE
  ENSRNOT00000014435.8 UniProtKB/TrEMBL
IMAGE_CLONE IMAGE:7109944 IMAGE-MGC_LOAD
InterPro Mediator_Med17 UniProtKB/TrEMBL
MGC_CLONE MGC:94861 IMAGE-MGC_LOAD
NCBI Gene 300367 ENTREZGENE
PANTHER MEDIATOR OF RNA POLYMERASE II TRANSCRIPTION SUBUNIT 17 UniProtKB/TrEMBL
  PTHR13114 UniProtKB/TrEMBL
Pfam DUF2364 UniProtKB/TrEMBL
PhenoGen Med17 PhenoGen
UniProt D4ABU0 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2008-03-03 Med17  mediator complex subunit 17  Crsp6  cofactor required for Sp1 transcriptional activation, subunit 6  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2005-12-06 Crsp6  cofactor required for Sp1 transcriptional activation, subunit 6  Crsp6_predicted  cofactor required for Sp1 transcriptional activation, subunit 6 (predicted)  Symbol and Name updated 1559027 APPROVED
2005-01-12 Crsp6_predicted  cofactor required for Sp1 transcriptional activation, subunit 6 (predicted)      Symbol and Name status set to approved 70820 APPROVED