Elavl3 (ELAV like RNA binding protein 3) - Rat Genome Database

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Gene: Elavl3 (ELAV like RNA binding protein 3) Rattus norvegicus
Analyze
Symbol: Elavl3
Name: ELAV like RNA binding protein 3
RGD ID: 628892
Description: Predicted to enable mRNA 3'-UTR AU-rich region binding activity. Predicted to be part of ribonucleoprotein complex. Orthologous to human ELAVL3 (ELAV like RNA binding protein 3); INTERACTS WITH 2,3,7,8-Tetrachlorodibenzofuran; 6-propyl-2-thiouracil; amitrole.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: ELAV (embryonic lethal, abnormal vision, Drosophila)-like 3 (Hu antigen C); ELAV like neuron-specific RNA binding protein 3; ELAV-like protein 3; Huc
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8828,823,120 - 28,859,395 (-)NCBIGRCr8
mRatBN7.2820,547,108 - 20,583,369 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl820,550,201 - 20,583,641 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx824,579,147 - 24,611,936 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0822,876,290 - 22,909,074 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0820,779,781 - 20,812,548 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0823,029,980 - 23,063,477 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl823,030,118 - 23,063,041 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0823,084,379 - 23,118,191 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4821,124,168 - 21,158,232 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.1821,124,167 - 21,158,232 (-)NCBI
Celera821,940,907 - 21,973,831 (-)NCBICelera
Cytogenetic Map8q13NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

Molecular Function

References

References - curated
# Reference Title Reference Citation
1. Two different RNA binding activities for the AU-rich element and the poly(A) sequence of the mouse neuronal protein mHuC. Abe R, etal., Nucleic Acids Res 1996 Dec 15;24(24):4895-901.
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:10710437   PMID:10734193   PMID:17534028   PMID:21139978  


Genomics

Comparative Map Data
Elavl3
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8828,823,120 - 28,859,395 (-)NCBIGRCr8
mRatBN7.2820,547,108 - 20,583,369 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl820,550,201 - 20,583,641 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx824,579,147 - 24,611,936 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0822,876,290 - 22,909,074 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0820,779,781 - 20,812,548 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0823,029,980 - 23,063,477 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl823,030,118 - 23,063,041 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0823,084,379 - 23,118,191 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4821,124,168 - 21,158,232 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.1821,124,167 - 21,158,232 (-)NCBI
Celera821,940,907 - 21,973,831 (-)NCBICelera
Cytogenetic Map8q13NCBI
ELAVL3
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381911,451,326 - 11,481,046 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1911,451,326 - 11,481,046 (-)EnsemblGRCh38hg38GRCh38
GRCh371911,562,141 - 11,591,861 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361911,423,143 - 11,452,803 (-)NCBINCBI36Build 36hg18NCBI36
Build 341911,423,142 - 11,452,803NCBI
Celera1911,456,881 - 11,486,541 (-)NCBICelera
Cytogenetic Map19p13.2NCBI
HuRef1911,137,134 - 11,166,414 (-)NCBIHuRef
CHM1_11911,562,173 - 11,591,868 (-)NCBICHM1_1
T2T-CHM13v2.01911,578,845 - 11,608,554 (-)NCBIT2T-CHM13v2.0
Elavl3
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39921,926,301 - 21,963,442 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl921,926,301 - 21,963,319 (-)EnsemblGRCm39 Ensembl
GRCm38922,015,005 - 22,052,146 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl922,015,005 - 22,052,023 (-)EnsemblGRCm38mm10GRCm38
MGSCv37921,819,449 - 21,856,467 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36921,768,178 - 21,802,412 (-)NCBIMGSCv36mm8
Celera919,284,693 - 19,320,956 (-)NCBICelera
Cytogenetic Map9A3NCBI
cM Map98.07NCBI
Elavl3
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554952,338,939 - 2,360,403 (-)EnsemblChiLan1.0
ChiLan1.0NW_0049554952,338,939 - 2,360,843 (-)NCBIChiLan1.0ChiLan1.0
ELAVL3
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v22016,363,952 - 16,393,714 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11915,362,956 - 15,392,733 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01910,997,557 - 11,027,182 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11911,711,640 - 11,738,203 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1911,711,767 - 11,737,764 (-)Ensemblpanpan1.1panPan2
ELAVL3
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12049,886,379 - 49,904,706 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl2049,886,786 - 49,901,523 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha2049,757,532 - 49,776,022 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.02050,404,673 - 50,423,192 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl2050,404,647 - 50,422,015 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.12049,614,995 - 49,633,488 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.02050,041,138 - 50,059,631 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.02050,284,316 - 50,302,818 (+)NCBIUU_Cfam_GSD_1.0
Elavl3
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024405118208,823,223 - 208,841,455 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049366591,515,149 - 1,531,569 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049366591,514,632 - 1,531,486 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
ELAVL3
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl270,117,060 - 70,134,348 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1270,114,475 - 70,134,348 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2270,469,885 - 70,487,104 (-)NCBISscrofa10.2Sscrofa10.2susScr3
ELAVL3
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1610,378,651 - 10,405,198 (-)NCBIChlSab1.1ChlSab1.1chlSab2
Vero_WHO_p1.0NW_0236660749,481,215 - 9,510,828 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Elavl3
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046248283,229,283 - 3,248,476 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046248283,227,766 - 3,248,488 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Elavl3
70 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:57
Count of miRNA genes:40
Interacting mature miRNAs:49
Transcripts:ENSRNOT00000018416
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 (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1558646Swd5Spike wave discharge measurement QTL 53.450.00036brain electrophysiology trait (VT:0010557)brain spike-and-wave discharge frequency (CMO:0001742)81490675159906751Rat
1357398Slep3Serum leptin concentration QTL 33.43blood leptin amount (VT:0005667)serum leptin level (CMO:0000780)8971246341866876Rat
731182Uae24Urinary albumin excretion QTL 246.4urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)81933115293965294Rat
2317030Wbc5White blood cell count QTL 53.210.005leukocyte quantity (VT:0000217)white blood cell count (CMO:0000027)8873663553736635Rat
12880044Am9Aortic mass QTL 90.007aorta mass (VT:0002845)aorta weight to aorta length to body weight ratio (CMO:0002722)8209764047097640Rat
631650Stl6Serum triglyceride level QTL 640.0019blood triglyceride amount (VT:0002644)plasma triglyceride level (CMO:0000548)810378157112202585Rat
2301416Bp315Blood pressure QTL 3150.008arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)8767057852670578Rat
2317032Ginf2Gastrointestinal inflammation QTL 23.210.005liver integrity trait (VT:0010547)liver granuloma severity score (CMO:0002157)8470581049705810Rat
1581557Eae16Experimental allergic encephalomyelitis QTL 163.8nervous system integrity trait (VT:0010566)experimental autoimmune encephalomyelitis incidence/prevalence measurement (CMO:0001046)88462195110921472Rat
631271Lecl1Lens clarity QTL 10.001lens clarity trait (VT:0001304)age of onset/diagnosis of cataract (CMO:0001584)81898416884531599Rat
2317036Livw3Liver weight QTL 32.430.01liver mass (VT:0003402)liver weight to body weight ratio (CMO:0000633)8470581049705810Rat
1598824Memor4Memory QTL 42.5exploratory behavior trait (VT:0010471)total horizontal distance resulting from voluntary locomotion in an experimental apparatus (CMO:0001443)8971222053356647Rat
12880023Bw184Body weight QTL 1840.001body mass (VT:0001259)body weight (CMO:0000012)8209764047097640Rat
9590084Insglur5Insulin/glucose ratio QTL 518.540.001blood insulin amount (VT:0001560)calculated plasma insulin level (CMO:0002170)8124597739Rat
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
2317051Aia18Adjuvant induced arthritis QTL 182.42joint integrity trait (VT:0010548)left rear ankle joint diameter (CMO:0002149)8873663553736635Rat
12880028Cm103Cardiac mass QTL 1030.02heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)8209764047097640Rat
2317882Alcrsp24Alcohol response QTL 243.20.05response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)8125902202Rat
2317048Ginf1Gastrointestinal inflammation QTL 13.520.005cecum mucosa thickness (VT:0010234)enterocolitis severity score (CMO:0002138)8470581049705810Rat
2302367Slep5Serum leptin concentration QTL 53.43blood leptin amount (VT:0005667)serum leptin level (CMO:0000780)8971246341866876Rat
61373Mcs4Mammary carcinoma susceptibility QTL 41.1mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)81629044461290444Rat
12880025Cm102Cardiac mass QTL 1020.044heart mass (VT:0007028)heart wet weight to body weight ratio (CMO:0002408)8209764047097640Rat


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 74 3
Low 1 14 8 2 2 1 1 3 23 1
Below cutoff 2 20 25 15 18 15 7 8 30 15 9 7

Sequence


RefSeq Acc Id: ENSRNOT00000018416   ⟹   ENSRNOP00000018416
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl820,550,696 - 20,583,002 (-)Ensembl
Rnor_6.0 Ensembl823,030,118 - 23,063,041 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000094895   ⟹   ENSRNOP00000097959
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl820,550,201 - 20,583,641 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000113602   ⟹   ENSRNOP00000092942
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl820,550,201 - 20,569,204 (-)Ensembl
RefSeq Acc Id: NM_172324   ⟹   NP_758827
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8828,826,250 - 28,859,013 (-)NCBI
mRatBN7.2820,550,242 - 20,583,002 (-)NCBI
Rnor_6.0823,030,252 - 23,063,015 (-)NCBI
Rnor_5.0823,084,379 - 23,118,191 (-)NCBI
RGSC_v3.4821,124,168 - 21,158,232 (-)RGD
Celera821,940,907 - 21,973,831 (-)RGD
Sequence:
RefSeq Acc Id: XM_006242616   ⟹   XP_006242678
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8828,823,120 - 28,859,395 (-)NCBI
mRatBN7.2820,547,108 - 20,583,369 (-)NCBI
Rnor_6.0823,029,980 - 23,063,477 (-)NCBI
Rnor_5.0823,084,379 - 23,118,191 (-)NCBI
Sequence:
RefSeq Acc Id: XM_017595490   ⟹   XP_017450979
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8828,823,120 - 28,859,393 (-)NCBI
mRatBN7.2820,547,108 - 20,583,369 (-)NCBI
Rnor_6.0823,029,980 - 23,063,477 (-)NCBI
Sequence:
RefSeq Acc Id: XM_063264993   ⟹   XP_063121063
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8828,823,120 - 28,859,380 (-)NCBI
RefSeq Acc Id: NP_758827   ⟸   NM_172324
- UniProtKB: Q76IJ9 (UniProtKB/TrEMBL),   A0A8I6AIP7 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006242678   ⟸   XM_006242616
- Peptide Label: isoform X2
- UniProtKB: A0A8I6AIP7 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_017450979   ⟸   XM_017595490
- Peptide Label: isoform X1
- UniProtKB: A0A8I6AIP7 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000018416   ⟸   ENSRNOT00000018416
RefSeq Acc Id: ENSRNOP00000097959   ⟸   ENSRNOT00000094895
RefSeq Acc Id: ENSRNOP00000092942   ⟸   ENSRNOT00000113602
RefSeq Acc Id: XP_063121063   ⟸   XM_063264993
- Peptide Label: isoform X3
- UniProtKB: A0A8I6AIP7 (UniProtKB/TrEMBL)
Protein Domains
RRM

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q76IJ9-F1-model_v2 AlphaFold Q76IJ9 1-367 view protein structure

Transcriptome

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


Additional Information

Database Acc Id Source(s)
AGR Gene RGD:628892 AgrOrtholog
BioCyc Gene G2FUF-31395 BioCyc
Ensembl Genes ENSRNOG00000013752 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000018416.6 UniProtKB/TrEMBL
  ENSRNOT00000094895.1 UniProtKB/TrEMBL
  ENSRNOT00000113602 ENTREZGENE
  ENSRNOT00000113602.1 UniProtKB/TrEMBL
Gene3D-CATH 3.30.70.330 UniProtKB/TrEMBL
InterPro ELAD_HUD_SF UniProtKB/TrEMBL
  HuC_RRM3 UniProtKB/TrEMBL
  Hud_Sxl_RNA UniProtKB/TrEMBL
  Nucleotide-bd_a/b_plait_sf UniProtKB/TrEMBL
  RBD_domain_sf UniProtKB/TrEMBL
  RRM_dom_euk UniProtKB/TrEMBL
  RRM_RNP1 UniProtKB/TrEMBL
KEGG Report rno:282824 UniProtKB/TrEMBL
NCBI Gene 282824 ENTREZGENE
PANTHER ELAV-LIKE PROTEIN 3 UniProtKB/TrEMBL
  EUKARYOTIC TRANSLATION INITIATION FACTOR 3 SUBUNIT G UniProtKB/TrEMBL
Pfam RRM_1 UniProtKB/TrEMBL
PhenoGen Elavl3 PhenoGen
PRINTS HUDSXLRNA UniProtKB/TrEMBL
PROSITE RRM UniProtKB/TrEMBL
RatGTEx ENSRNOG00000013752 RatGTEx
SMART RRM UniProtKB/TrEMBL
  RRM_1 UniProtKB/TrEMBL
Superfamily-SCOP SSF54928 UniProtKB/TrEMBL
UniProt A0A8I6AIP7 ENTREZGENE, UniProtKB/TrEMBL
  A0A8I6ATM0_RAT UniProtKB/TrEMBL
  A6JNX6_RAT UniProtKB/TrEMBL
  F7F578_RAT UniProtKB/TrEMBL
  Q76IJ9 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2016-09-09 Elavl3  ELAV like RNA binding protein 3  Elavl3  ELAV like neuron-specific RNA binding protein 3  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2013-11-11 Elavl3  ELAV like neuron-specific RNA binding protein 3  Elavl3  ELAV (embryonic lethal, abnormal vision, Drosophila)-like 3 (Hu antigen C)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2004-09-10 Elavl3  ELAV (embryonic lethal, abnormal vision, Drosophila)-like 3 (Hu antigen C)      Symbol and Name status set to approved 1299863 APPROVED
2003-02-27 Elavl3  ELAV (embryonic lethal, abnormal vision, Drosophila)-like 3 (Hu antigen C)      Symbol and Name status set to provisional 70820 PROVISIONAL