Lrrc8e (leucine rich repeat containing 8 VRAC subunit E) - Rat Genome Database

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Gene: Lrrc8e (leucine rich repeat containing 8 VRAC subunit E) Rattus norvegicus
Analyze
Symbol: Lrrc8e
Name: leucine rich repeat containing 8 VRAC subunit E
RGD ID: 1311979
Description: Predicted to contribute to volume-sensitive anion channel activity. Predicted to be involved in several processes, including cell volume homeostasis; monoatomic anion transmembrane transport; and organic anion transport. Predicted to be located in endoplasmic reticulum membrane and lysosomal membrane. Predicted to be part of monoatomic ion channel complex. Predicted to be active in cytoplasm and plasma membrane. Orthologous to human LRRC8E (leucine rich repeat containing 8 VRAC subunit E); INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; 6-propyl-2-thiouracil; atrazine.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: leucine rich repeat containing 8 family, member E; leucine-rich repeat-containing protein 8E; LOC304203; MGC124693; RGD1311979; volume-regulated anion channel subunit LRRC8E
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
GRCr8127,376,103 - 7,387,250 (+)NCBIGRCr8
mRatBN7.2122,578,240 - 2,589,407 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl122,578,315 - 2,589,412 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx123,226,163 - 3,237,359 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0123,849,752 - 3,860,950 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0122,612,632 - 2,624,059 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0122,557,267 - 2,568,416 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl122,557,275 - 2,568,382 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0124,710,039 - 4,721,300 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4121,554,464 - 1,566,012 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.1121,554,997 - 1,566,044 (-)NCBI
Celera124,393,851 - 4,404,933 (+)NCBICelera
Cytogenetic Map12p12NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component

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. GOA pipeline RGD automated data pipeline
3. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
4. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:12477932   PMID:15489334   PMID:22871113   PMID:24790029   PMID:26824658   PMID:28193731  


Genomics

Comparative Map Data
Lrrc8e
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8127,376,103 - 7,387,250 (+)NCBIGRCr8
mRatBN7.2122,578,240 - 2,589,407 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl122,578,315 - 2,589,412 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx123,226,163 - 3,237,359 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0123,849,752 - 3,860,950 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0122,612,632 - 2,624,059 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0122,557,267 - 2,568,416 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl122,557,275 - 2,568,382 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0124,710,039 - 4,721,300 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4121,554,464 - 1,566,012 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.1121,554,997 - 1,566,044 (-)NCBI
Celera124,393,851 - 4,404,933 (+)NCBICelera
Cytogenetic Map12p12NCBI
LRRC8E
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38197,888,510 - 7,902,016 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl197,888,505 - 7,902,021 (+)EnsemblGRCh38hg38GRCh38
GRCh37197,953,395 - 7,966,901 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36197,859,390 - 7,872,907 (+)NCBINCBI36Build 36hg18NCBI36
Celera197,824,591 - 7,838,110 (+)NCBICelera
Cytogenetic Map19p13.2NCBI
HuRef197,623,841 - 7,637,152 (+)NCBIHuRef
CHM1_1197,952,868 - 7,966,380 (+)NCBICHM1_1
T2T-CHM13v2.0197,889,464 - 7,902,971 (+)NCBIT2T-CHM13v2.0
Lrrc8e
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm3984,274,269 - 4,287,470 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl84,276,827 - 4,287,470 (+)EnsemblGRCm39 Ensembl
GRCm3884,224,268 - 4,237,470 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl84,226,827 - 4,237,470 (+)EnsemblGRCm38mm10GRCm38
MGSCv3784,226,827 - 4,237,470 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv3684,226,827 - 4,236,898 (+)NCBIMGSCv36mm8
Celera84,416,312 - 4,438,059 (+)NCBICelera
Cytogenetic Map8A1.1NCBI
cM Map81.99NCBI
Lrrc8e
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049555631,362,266 - 1,370,226 (-)EnsemblChiLan1.0
ChiLan1.0NW_0049555631,362,266 - 1,370,221 (-)NCBIChiLan1.0ChiLan1.0
LRRC8E
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v22012,567,759 - 12,584,833 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11911,684,938 - 11,701,046 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0197,189,490 - 7,203,310 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1198,041,185 - 8,055,684 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl198,041,185 - 8,055,684 (+)Ensemblpanpan1.1panPan2
LRRC8E
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12052,585,636 - 52,593,207 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl2052,588,973 - 52,593,214 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha2052,388,171 - 52,395,753 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.02053,113,833 - 53,121,423 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl2053,113,855 - 53,120,403 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.12052,317,074 - 52,324,699 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.02052,761,721 - 52,769,297 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.02052,993,083 - 53,000,668 (+)NCBIUU_Cfam_GSD_1.0
Lrrc8e
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024405118212,954,121 - 212,961,388 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365884,873,412 - 4,880,533 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049365884,873,412 - 4,880,574 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
LRRC8E
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl271,309,402 - 71,314,701 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1271,309,404 - 71,318,225 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2271,710,888 - 71,718,616 (-)NCBISscrofa10.2Sscrofa10.2susScr3
LRRC8E
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.167,337,918 - 7,351,914 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl67,346,243 - 7,351,855 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_023666081462,397 - 474,514 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Lrrc8e
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_004624828860,744 - 868,595 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_004624828859,419 - 868,595 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Lrrc8e
69 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:297
Count of miRNA genes:189
Interacting mature miRNAs:224
Transcripts:ENSRNOT00000035142
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 (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1300174Bw15Body weight QTL 152.93body mass (VT:0001259)body weight loss (CMO:0001399)1219318387Rat
2312418Kidm41Kidney mass QTL 413.70.0001kidney mass (VT:0002707)single kidney wet weight to body weight ratio (CMO:0000622)12119611090Rat
10755457Coatc14Coat color QTL 140.01759coat/hair pigmentation trait (VT:0010463)pigmented ventral coat/hair area to total ventral coat/hair area ratio (CMO:0001812)12122591684Rat
6893681Bw109Body weight QTL 1092.30.004body mass (VT:0001259)body weight (CMO:0000012)12123297788Rat
1581516Cm56Cardiac mass QTL 564.20.05heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)12129333307Rat
1598855Bp294Blood pressure QTL 2943.5arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)12134851688Rat
7411660Foco28Food consumption QTL 2810.90.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)12142110980Rat
9590086Insglur6Insulin/glucose ratio QTL 618.970.001blood insulin amount (VT:0001560)calculated plasma insulin level (CMO:0002170)12142110980Rat
8694179Bw150Body weight QTL 1502.90.001body mass (VT:0001259)body weight gain (CMO:0000420)12142110980Rat
7411586Foco5Food consumption QTL 55.40.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)12142110980Rat
7411595Foco9Food consumption QTL 940.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)12142110980Rat
7411545Bw128Body weight QTL 1285.20.001body mass (VT:0001259)body weight gain (CMO:0000420)12142110980Rat
9590147Scort7Serum corticosterone level QTL 713.610.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)12142110980Rat
2303575Insul14Insulin level QTL 144blood insulin amount (VT:0001560)blood insulin level (CMO:0000349)12142450532Rat
737979Pia22Pristane induced arthritis QTL 2253.1joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)12144465750Rat
634351Apr5Acute phase response QTL 56.7blood interleukin-6 amount (VT:0008595)plasma interleukin-6 level (CMO:0001927)12144503507Rat
2302042Pia38Pristane induced arthritis QTL 383.50.001blood immunoglobulin amount (VT:0002460)serum immunoglobulin G1 level (CMO:0002115)12144503507Rat
7243862Mcs30Mammary carcinoma susceptibility QTL 308.62mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)127977298525593Rat
634350Apr4Acute phase response QTL 46orosomucoid 1 amount (VT:0010541)plasma orosomucoid 1 level (CMO:0001467)12117200546172005Rat

Markers in Region
RH131894  
Rat AssemblyChrPosition (strand)SourceJBrowse
Celera124,404,790 - 4,404,939UniSTS
Cytogenetic Map12p12UniSTS
UniSTS:235828  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_5.0124,712,549 - 4,712,771NCBIRnor5.0
Rnor_5.0784,220,191 - 84,220,413NCBIRnor5.0
RGSC_v3.4781,194,021 - 81,194,242UniSTSRGSC3.4
RGSC_v3.4121,556,967 - 1,557,188UniSTSRGSC3.4
Cytogenetic Map12p12UniSTS


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 1 15 2
Low 2 2 19 6 5 6 1 1 2 20 37 11 1
Below cutoff 38 34 31 14 31 7 9 64 2 7

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000035142   ⟹   ENSRNOP00000037487
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl122,578,315 - 2,589,412 (+)Ensembl
Rnor_6.0 Ensembl122,557,275 - 2,568,382 (-)Ensembl
RefSeq Acc Id: NM_001034139   ⟹   NP_001029311
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8127,376,147 - 7,387,242 (+)NCBI
mRatBN7.2122,578,299 - 2,589,399 (+)NCBI
Rnor_6.0122,557,275 - 2,568,382 (-)NCBI
Rnor_5.0124,710,039 - 4,721,300 (-)NCBI
RGSC_v3.4121,554,464 - 1,566,012 (-)RGD
Celera124,393,851 - 4,404,933 (+)RGD
Sequence:
RefSeq Acc Id: XM_006248763   ⟹   XP_006248825
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8127,376,103 - 7,387,250 (+)NCBI
mRatBN7.2122,578,248 - 2,589,407 (+)NCBI
Rnor_6.0122,557,267 - 2,568,416 (-)NCBI
Rnor_5.0124,710,039 - 4,721,300 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006248764   ⟹   XP_006248826
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8127,376,135 - 7,387,250 (+)NCBI
mRatBN7.2122,578,249 - 2,589,407 (+)NCBI
Rnor_6.0122,557,267 - 2,568,416 (-)NCBI
Rnor_5.0124,710,039 - 4,721,300 (-)NCBI
Sequence:
RefSeq Acc Id: XM_063271246   ⟹   XP_063127316
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8127,377,582 - 7,387,250 (+)NCBI
RefSeq Acc Id: XM_063271247   ⟹   XP_063127317
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8127,378,394 - 7,387,250 (+)NCBI
Reference Protein Sequences
RefSeq Acc Id: NP_001029311   ⟸   NM_001034139
- UniProtKB: Q3KRC6 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: XP_006248825   ⟸   XM_006248763
- Peptide Label: isoform X1
- UniProtKB: Q3KRC6 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: XP_006248826   ⟸   XM_006248764
- Peptide Label: isoform X1
- UniProtKB: Q3KRC6 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: ENSRNOP00000037487   ⟸   ENSRNOT00000035142
RefSeq Acc Id: XP_063127316   ⟸   XM_063271246
- Peptide Label: isoform X1
RefSeq Acc Id: XP_063127317   ⟸   XM_063271247
- Peptide Label: isoform X2
Protein Domains
LRRC8 pannexin-like TM region

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q3KRC6-F1-model_v2 AlphaFold Q3KRC6 1-795 view protein structure

Transcriptome

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

Promoters
RGD ID:13698384
Promoter ID:EPDNEW_R8908
Type:single initiation site
Name:Lrrc8e_1
Description:leucine rich repeat containing 8 VRAC subunit E
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_6.0122,568,406 - 2,568,466EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1311979 AgrOrtholog
BioCyc Gene G2FUF-20353 BioCyc
Ensembl Genes ENSRNOG00000028460 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Transcript ENSRNOT00000035142.5 UniProtKB/Swiss-Prot
Gene3D-CATH 3.80.10.10 UniProtKB/Swiss-Prot
IMAGE_CLONE IMAGE:7932319 IMAGE-MGC_LOAD
InterPro Leu-rich_rpt UniProtKB/Swiss-Prot
  Leu-rich_rpt_typical-subtyp UniProtKB/Swiss-Prot
  LRR_dom_sf UniProtKB/Swiss-Prot
  LRRC8_Pannexin-like UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:304203 UniProtKB/Swiss-Prot
MGC_CLONE MGC:124693 IMAGE-MGC_LOAD
NCBI Gene 304203 ENTREZGENE
PANTHER PTHR48051 UniProtKB/Swiss-Prot
  VOLUME-REGULATED ANION CHANNEL SUBUNIT LRRC8E UniProtKB/Swiss-Prot
Pfam LRR_1 UniProtKB/Swiss-Prot
  LRR_8 UniProtKB/Swiss-Prot
  Pannexin_like UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Lrrc8e PhenoGen
PROSITE LRR UniProtKB/Swiss-Prot
RatGTEx ENSRNOG00000028460 RatGTEx
SMART LRR_BAC UniProtKB/Swiss-Prot
  LRR_TYP UniProtKB/Swiss-Prot
Superfamily-SCOP L domain-like UniProtKB/Swiss-Prot
UniProt A6KQ59_RAT UniProtKB/TrEMBL
  LRC8E_RAT UniProtKB/Swiss-Prot, ENTREZGENE


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2017-08-16 Lrrc8e  leucine rich repeat containing 8 VRAC subunit E  Lrrc8e  leucine rich repeat containing 8 family, member E  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2006-03-30 Lrrc8e  leucine rich repeat containing 8 family, member E  RGD1311979  similar to hypothetical protein  Symbol and Name updated 1299863 APPROVED
2005-12-06 RGD1311979  similar to hypothetical protein  RGD1311979_predicted  similar to hypothetical protein (predicted)  Symbol and Name updated 1559027 APPROVED
2005-01-20 RGD1311979_predicted  similar to hypothetical protein (predicted)  LOC304203_predicted    Symbol and Name status set to approved 1331353 APPROVED
2005-01-12 LOC304203_predicted  similar to hypothetical protein (predicted)      Symbol and Name status set to provisional 70820 PROVISIONAL