Elp6 (elongator acetyltransferase complex subunit 6) - Rat Genome Database

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Gene: Elp6 (elongator acetyltransferase complex subunit 6) Rattus norvegicus
Analyze
Symbol: Elp6
Name: elongator acetyltransferase complex subunit 6
RGD ID: 1305478
Description: Predicted to be involved in positive regulation of cell migration. Predicted to act upstream of or within several processes, including autophagosome maturation; gene expression; and homeostasis of number of retina cells. Predicted to be located in cytosol and nucleus. Predicted to be part of elongator holoenzyme complex. Orthologous to human ELP6 (elongator acetyltransferase complex subunit 6); INTERACTS WITH 2,4-dinitrotoluene; 2,6-dinitrotoluene; 4-amino-2,6-dinitrotoluene.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: elongator complex protein 6; elongator complex protein 6 homolog; LOC363150; RGD1305478; similar to hypothetical protein FLJ20211; Tmem103; transmembrane protein 103; UPF0405 protein C3orf75 homolog
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
GRCr88119,158,380 - 119,173,483 (+)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl8119,158,396 - 119,174,244 (+)EnsemblGRCr8
mRatBN7.28110,280,059 - 110,295,070 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl8110,279,979 - 110,295,067 (+)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx8115,895,546 - 115,910,499 (+)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.08114,094,733 - 114,109,686 (+)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.08111,937,527 - 111,952,479 (+)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.08118,525,770 - 118,541,074 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl8118,525,682 - 118,541,073 (+)Ensemblrn6Rnor6.0
Rnor_5.08117,869,570 - 117,884,874 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.48114,680,298 - 114,695,519 (+)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera8109,565,607 - 109,580,608 (+)NCBICelera
RGSC_v3.18114,687,265 - 114,714,587 (+)NCBI
Cytogenetic Map8q32NCBI
JBrowse:




Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component
cytoplasm  (IEA)
cytosol  (IEA,ISO)
elongator holoenzyme complex  (IBA,IEA,ISO,ISS)
nucleus  (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. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
3. Comprehensive gene review and curation RGD comprehensive gene curation
Additional References at PubMed
PMID:12477932   PMID:22645656   PMID:22854966   PMID:23106098  


Genomics

Comparative Map Data
Elp6
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr88119,158,380 - 119,173,483 (+)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl8119,158,396 - 119,174,244 (+)EnsemblGRCr8
mRatBN7.28110,280,059 - 110,295,070 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl8110,279,979 - 110,295,067 (+)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx8115,895,546 - 115,910,499 (+)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.08114,094,733 - 114,109,686 (+)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.08111,937,527 - 111,952,479 (+)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.08118,525,770 - 118,541,074 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl8118,525,682 - 118,541,073 (+)Ensemblrn6Rnor6.0
Rnor_5.08117,869,570 - 117,884,874 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.48114,680,298 - 114,695,519 (+)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera8109,565,607 - 109,580,608 (+)NCBICelera
RGSC_v3.18114,687,265 - 114,714,587 (+)NCBI
Cytogenetic Map8q32NCBI
ELP6
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38347,495,640 - 47,513,712 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl347,495,640 - 47,513,712 (-)Ensemblhg38GRCh38
GRCh37347,537,130 - 47,555,202 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36347,512,134 - 47,530,203 (-)NCBIBuild 36Build 36hg18NCBI36
Celera347,478,723 - 47,497,105 (-)NCBICelera
Cytogenetic Map3p21.31NCBI
HuRef347,582,616 - 47,600,625 (-)NCBIHuRef
CHM1_1347,487,037 - 47,505,103 (-)NCBICHM1_1
T2T-CHM13v2.0347,514,706 - 47,532,767 (-)NCBIT2T-CHM13v2.0
Elp6
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm399110,133,321 - 110,151,170 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl9110,134,241 - 110,151,170 (+)EnsemblGRCm39 EnsemblGRCm39
GRCm389110,304,398 - 110,322,102 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl9110,305,173 - 110,322,102 (+)Ensemblmm10GRCm38
MGSCv379110,207,696 - 110,224,606 (+)NCBIMGSCv37MGSCv37mm9NCBIm37
MGSCv369110,150,340 - 110,167,271 (+)NCBIMGSCv36mm8
Celera9110,034,033 - 110,050,788 (+)NCBICelera
Cytogenetic Map9F2NCBI
cM Map959.91NCBI
Elp6
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495542024,795,496 - 24,811,134 (+)Ensembl
ChiLan1.0NW_00495542024,795,416 - 24,807,790 (+)NCBIChiLan1.0ChiLan1.0
ELP6
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2247,445,610 - 47,494,778 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1347,450,378 - 47,499,545 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0347,392,777 - 47,415,830 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1348,496,874 - 48,515,090 (-)NCBIPanPan1.1PanPan1.1panPan2
PanPan1.1 Ensembl348,496,874 - 48,515,090 (-)EnsemblpanPan2panpan1.1
ELP6
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12041,400,267 - 41,410,138 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl2041,400,336 - 41,409,632 (+)EnsemblcanFam3CanFam3.1
Dog10K_Boxer_Tasha2041,316,534 - 41,326,640 (+)NCBIDog10K_Boxer_TashaDog10K_Boxer_Tasha
ROS_Cfam_1.02041,882,979 - 41,893,086 (+)NCBIROS_Cfam_1.0ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl2041,882,149 - 41,893,055 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.12041,125,041 - 41,135,145 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.02041,525,968 - 41,536,076 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.02041,806,745 - 41,816,854 (+)NCBIUU_Cfam_GSD_1.0UU_Cfam_GSD_1.0
Elp6
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024405118201,638,263 - 201,656,130 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365961,184,314 - 1,205,377 (-)EnsemblSpeTri2.0 Ensembl
SpeTri2.0NW_0049365961,187,402 - 1,205,277 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
ELP6
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1330,325,249 - 30,341,295 (-)EnsemblsusScr11Sscrofa11.1
Sscrofa11.11330,329,815 - 30,341,952 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21333,560,676 - 33,572,506 (-)NCBISscrofa10.2Sscrofa10.2susScr3
ELP6
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1228,899,078 - 8,929,072 (-)NCBIChlSab1.1ChlSab1.1chlSab2
Vero_WHO_p1.0NW_023666041158,202,826 - 158,223,351 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Elp6
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462473073,910,405 - 73,926,844 (+)EnsemblHetGla_female_1.0 EnsemblhetGla2HetGla_female_1.0 Ensembl
HetGla 1.0NW_00462473073,910,843 - 73,923,273 (+)NCBIHetGla 1.0HetGla 1.0hetGla2
Elp6
(Rattus rattus - black rat)
Black Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rrattus_CSIRO_v18100,891,144 - 100,906,199 (+)NCBIRrattus_CSIRO_v1

Variants

.
Variants in Elp6
56 total Variants
miRNA Target Status (No longer updated)

Predicted Target Of
Summary Value
Count of predictions:55
Count of miRNA genes:51
Interacting mature miRNAs:52
Transcripts:ENSRNOT00000028288
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
2303171Bp331Blood pressure QTL 3315.570.005arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)8105462581132782436Rat
1549909Stresp11Stress response QTL 116.830.0019stress-related behavior trait (VT:0010451)number of approaches toward negative stimulus before onset of defensive burying response (CMO:0001960)882352698127352698Rat
631210Bw3Body weight QTL35.9mesenteric fat pad mass (VT:0010427)mesenteric fat pad weight to body weight ratio (CMO:0000654)861019838121662124Rat
9590292Uminl3Urine mineral level QTL 33.620.001urine mineral amount (VT:0015086)urine electrolyte level (CMO:0000593)880768445125768445Rat
8694446Bw170Body weight QTL 17012.070.001retroperitoneal fat pad mass (VT:0010430)retroperitoneal fat pad weight to body weight ratio (CMO:0000635)880768445125768445Rat
631650Stl6Serum triglyceride level QTL 640.0019blood triglyceride amount (VT:0002644)plasma triglyceride level (CMO:0000548)870041301121080908Rat
1581557Eae16Experimental allergic encephalomyelitis QTL 163.8nervous system integrity trait (VT:0010566)experimental autoimmune encephalomyelitis incidence/prevalence measurement (CMO:0001046)868690349119799881Rat
10450865Bw175Body weight QTL 1754.1total fat pad mass (VT:0015008)adipose tissue molecular composition measurement (CMO:0000484)884192326129192326Rat
724539Cm19Cardiac mass QTL 192.6heart mass (VT:0007028)calculated heart weight (CMO:0000073)8103375781129871912Rat
738011Anxrr9Anxiety related response QTL 96.1exploratory behavior trait (VT:0010471)number of entries into a discrete space in an experimental apparatus (CMO:0000960)8102413464132782436Rat
70197BpQTLcluster8Blood pressure QTL cluster 83.482arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)855428333127966348Rat
634332Pia18Pristane induced arthritis QTL 184joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)884192326132782436Rat
2300181Bmd55Bone mineral density QTL 555.70.0001femur mineral mass (VT:0010011)volumetric bone mineral density (CMO:0001553)885348065130348065Rat
1300171Bp184Blood pressure QTL 1843.66arterial blood pressure trait (VT:2000000)blood pressure time series experimental set point of the baroreceptor response (CMO:0002593)879394435132782436Rat
2313400Anxrr25Anxiety related response QTL 25aggression-related behavior trait (VT:0015014)tameness/aggressiveness composite score (CMO:0002136)898145073122898010Rat
8694200Abfw4Abdominal fat weight QTL 49.070.001visceral adipose mass (VT:0010063)abdominal fat pad weight to body weight ratio (CMO:0000095)880768445125768445Rat
8694392Bw161Body weight QTL 1618.060.001body lean mass (VT:0010483)lean tissue morphological measurement (CMO:0002184)880768445125768445Rat
61437Cia6Collagen induced arthritis QTL 6joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)891340911131690273Rat

Markers in Region
RH131517  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.28110,294,863 - 110,295,067 (+)MAPPERmRatBN7.2
Rnor_6.08118,540,868 - 118,541,071NCBIRnor6.0
Rnor_5.08117,884,668 - 117,884,871UniSTSRnor5.0
RGSC_v3.48114,695,313 - 114,695,516UniSTSRGSC3.4
Celera8109,580,402 - 109,580,605UniSTS
RH 3.4 Map81191.59UniSTS
Cytogenetic Map8q32UniSTS


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 91 59 6 355 191 11 144 81 92 31 17 17

Sequence


Ensembl Acc Id: ENSRNOT00000028288   ⟹   ENSRNOP00000028288
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl8119,158,396 - 119,174,244 (+)Ensembl
mRatBN7.2 Ensembl8110,279,979 - 110,295,060 (+)Ensembl
Rnor_6.0 Ensembl8118,525,682 - 118,541,073 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000107416   ⟹   ENSRNOP00000092032
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl8119,158,407 - 119,174,244 (+)Ensembl
mRatBN7.2 Ensembl8110,280,081 - 110,295,067 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000167329   ⟹   ENSRNOP00000106128
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl8119,159,938 - 119,174,244 (+)Ensembl
RefSeq Acc Id: NM_001108782   ⟹   NP_001102252
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr88119,158,472 - 119,173,483 (+)NCBI
mRatBN7.28110,280,059 - 110,295,070 (+)NCBI
Rnor_6.08118,525,770 - 118,541,074 (+)NCBI
Rnor_5.08117,869,570 - 117,884,874 (+)NCBI
RGSC_v3.48114,680,298 - 114,695,519 (+)RGD
Celera8109,565,607 - 109,580,608 (+)RGD
Sequence:
RefSeq Acc Id: XM_063265837   ⟹   XP_063121907
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr88119,158,380 - 119,168,547 (+)NCBI
Protein Sequences
Protein RefSeqs NP_001102252 (Get FASTA)   NCBI Sequence Viewer  
  XP_063121907 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAI66773 (Get FASTA)   NCBI Sequence Viewer  
  B2RYG8 (Get FASTA)   NCBI Sequence Viewer  
  EDL77087 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000028288
  ENSRNOP00000028288.5
RefSeq Acc Id: NP_001102252   ⟸   NM_001108782
- UniProtKB: B2RYG8 (UniProtKB/Swiss-Prot),   A0A8I6AHA4 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000028288   ⟸   ENSRNOT00000028288
Ensembl Acc Id: ENSRNOP00000092032   ⟸   ENSRNOT00000107416
RefSeq Acc Id: XP_063121907   ⟸   XM_063265837
- Peptide Label: isoform X1
Ensembl Acc Id: ENSRNOP00000106128   ⟸   ENSRNOT00000167329

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-B2RYG8-F1-model_v2 AlphaFold B2RYG8 1-266 view protein structure

Transcriptome

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

Promoters
RGD ID:13696328
Promoter ID:EPDNEW_R6853
Type:initiation region
Name:Elp6_1
Description:elongator acetyltransferase complex subunit 6
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_6.08118,525,702 - 118,525,762EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1305478 AgrOrtholog
BioCyc Gene G2FUF-29076 BioCyc
Ensembl Genes ENSRNOG00000020847 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Transcript ENSRNOT00000028288 ENTREZGENE
  ENSRNOT00000028288.8 UniProtKB/Swiss-Prot
Gene3D-CATH 3.40.50.300 UniProtKB/Swiss-Prot
IMAGE_CLONE IMAGE:7934150 IMAGE-MGC_LOAD
InterPro ELP6 UniProtKB/Swiss-Prot
  P-loop_NTPase UniProtKB/Swiss-Prot
KEGG Report rno:363150 UniProtKB/Swiss-Prot
MGC_CLONE MGC:188548 IMAGE-MGC_LOAD
NCBI Gene 363150 ENTREZGENE
PANTHER ELONGATOR COMPLEX PROTEIN 6 UniProtKB/Swiss-Prot
  PTHR16184 UniProtKB/Swiss-Prot
Pfam ELP6 UniProtKB/Swiss-Prot
PhenoGen Elp6 PhenoGen
RatGTEx ENSRNOG00000020847 RatGTEx
UniProt A0A8I6AHA4 ENTREZGENE, UniProtKB/TrEMBL
  A0ABK0L7L6_RAT UniProtKB/TrEMBL
  B2RYG8 ENTREZGENE, UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2012-08-13 Elp6  elongator acetyltransferase complex subunit 6  Tmem103  transmembrane protein 103  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-04-30 Tmem103  transmembrane protein 103   Tmem103_predicted  transmembrane protein 103 (predicted)  'predicted' is removed 2292626 APPROVED
2006-03-30 Tmem103_predicted  transmembrane protein 103 (predicted)  RGD1305478_predicted  similar to hypothetical protein FLJ20211 (predicted)  Symbol and Name updated 1299863 APPROVED
2005-01-20 RGD1305478_predicted  similar to hypothetical protein FLJ20211 (predicted)  LOC363150_predicted    Symbol and Name status set to approved 1331353 APPROVED
2005-01-12 LOC363150_predicted  similar to hypothetical protein FLJ20211 (predicted)      Symbol and Name status set to provisional 70820 PROVISIONAL