Eddm3b (epididymal protein 3B) - Rat Genome Database

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Gene: Eddm3b (epididymal protein 3B) Rattus norvegicus
Analyze
Symbol: Eddm3b (Ensembl: LOC103693823)
Name: epididymal protein 3B (Ensembl:epididymal secretory protein E3-beta-like)
RGD ID: 631349
Description: Orthologous to human EDDM3B (epididymal protein 3B); INTERACTS WITH acrylamide; ammonium chloride; bisphenol A.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: E3sp; epididymal secretory protein 3; epididymal secretory protein E3-beta; Fam12b; family with sequence similarity 12, member B (epididymal); Re3
RGD Orthologs
Human
Mouse
Bonobo
Alliance Orthologs
More Info more info ...
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81526,817,508 - 26,820,274 (+)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl1526,786,199 - 26,820,294 (+)EnsemblGRCr8
mRatBN7.21524,343,992 - 24,346,759 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1524,345,573 - 24,346,025 (+)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx1527,115,152 - 27,117,918 (+)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01528,074,299 - 28,077,064 (+)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01526,323,713 - 26,326,479 (+)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.01528,090,836 - 28,094,548 (-)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1528,090,836 - 28,092,023 (-)Ensemblrn6Rnor6.0
Rnor_5.01531,880,764 - 31,881,956 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.41527,107,078 - 27,108,270 (+)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera1524,663,621 - 24,664,808 (+)NCBICelera
RGSC_v3.11527,122,777 - 27,123,970 (+)NCBI
Cytogenetic Map15p14NCBI
JBrowse:




Disease Annotations     Click to see Annotation Detail View

Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
Gene Ontology Annotations     Click to see Annotation Detail View

Molecular Function

References

References - curated
# Reference Title Reference Citation
1. GOA pipeline RGD automated data pipeline
2. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions

Genomics

Comparative Map Data
Eddm3b
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81526,817,508 - 26,820,274 (+)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl1526,786,199 - 26,820,294 (+)EnsemblGRCr8
mRatBN7.21524,343,992 - 24,346,759 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1524,345,573 - 24,346,025 (+)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx1527,115,152 - 27,117,918 (+)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01528,074,299 - 28,077,064 (+)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01526,323,713 - 26,326,479 (+)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.01528,090,836 - 28,094,548 (-)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1528,090,836 - 28,092,023 (-)Ensemblrn6Rnor6.0
Rnor_5.01531,880,764 - 31,881,956 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.41527,107,078 - 27,108,270 (+)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera1524,663,621 - 24,664,808 (+)NCBICelera
RGSC_v3.11527,122,777 - 27,123,970 (+)NCBI
Cytogenetic Map15p14NCBI
EDDM3B
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381420,768,404 - 20,770,948 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1420,768,404 - 20,770,948 (+)Ensemblhg38GRCh38
GRCh371421,236,563 - 21,239,107 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361420,306,426 - 20,308,947 (+)NCBIBuild 36Build 36hg18NCBI36
Build 341420,306,425 - 20,308,945NCBI
Celera141,097,447 - 1,099,968 (+)NCBICelera
Cytogenetic Map14q11.2NCBI
HuRef141,357,581 - 1,360,102 (+)NCBIHuRef
CHM1_11421,238,573 - 21,241,094 (+)NCBICHM1_1
T2T-CHM13v2.01414,965,518 - 14,968,062 (+)NCBIT2T-CHM13v2.0
Eddm3b
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391451,351,886 - 51,355,248 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1451,351,883 - 51,355,264 (+)EnsemblGRCm39 EnsemblGRCm39
GRCm381451,114,429 - 51,117,791 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1451,114,426 - 51,117,807 (+)Ensemblmm10GRCm38
MGSCv371451,734,240 - 51,737,466 (+)NCBIMGSCv37MGSCv37mm9NCBIm37
MGSCv361450,036,516 - 50,039,742 (+)NCBIMGSCv36mm8
Celera1447,409,190 - 47,412,412 (+)NCBICelera
Cytogenetic Map14C1NCBI
cM Map1426.38NCBI
EDDM3B
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21522,265,380 - 22,267,910 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11421,481,867 - 21,484,397 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0141,630,027 - 1,632,566 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11419,686,884 - 19,689,433 (+)NCBIPanPan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1419,688,641 - 19,689,084 (+)EnsemblpanPan2panpan1.1

Variants

.
Variants in Eddm3b
35 total Variants
miRNA Target Status (No longer updated)

Predicted Target Of
Summary Value
Count of predictions:267
Count of miRNA genes:168
Interacting mature miRNAs:190
Transcripts:ENSRNOT00000043941
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
1331729Rf42Renal function QTL 423.071kidney blood vessel physiology trait (VT:0100012)absolute change in renal blood flow rate (CMO:0001168)151736289773690657Rat
1641887Alcrsp14Alcohol response QTL 14response to alcohol trait (VT:0010489)brain neurotensin receptor 1 density (CMO:0002068)15142356671Rat
10755503Bp391Blood pressure QTL 3912.37arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)152024860037896129Rat
1578646Bmd18Bone mineral density QTL 185.2femur mineral mass (VT:0010011)trabecular volumetric bone mineral density (CMO:0001729)152280624098288169Rat
9589149Insul29Insulin level QTL 299.060.001blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)15134723002Rat
1578647Bmd17Bone mineral density QTL 174femur mineral mass (VT:0010011)total volumetric bone mineral density (CMO:0001728)152280624098288169Rat
10401805Kidm51Kidney mass QTL 51kidney mass (VT:0002707)both kidneys wet weight (CMO:0000085)1530632945306329Rat
2317750Glom26Glomerulus QTL 264.3urine protein amount (VT:0005160)urine protein level (CMO:0000591)151249614165205939Rat
2298549Neuinf12Neuroinflammation QTL 123.5nervous system integrity trait (VT:0010566)spinal cord beta-2 microglobulin mRNA level (CMO:0002125)15155302115Rat
8552920Pigfal8Plasma insulin-like growth factor 1 level QTL 83blood insulin-like growth factor amount (VT:0010479)plasma insulin-like growth factor 1 level (CMO:0001299)15134723002Rat
2293688Bss29Bone structure and strength QTL 295.310.0001femur morphology trait (VT:0000559)femur midshaft cortical cross-sectional area (CMO:0001663)151111114256111142Rat
5685002Bss103Bone structure and strength QTL 1032.8tibia strength trait (VT:1000284)tibia total energy absorbed before break (CMO:0001736)151448116528469888Rat
8694361Abfw6Abdominal fat weight QTL 610.20.001visceral adipose mass (VT:0010063)abdominal fat pad weight to body weight ratio (CMO:0000095)15134723002Rat
631273Lecl2Lens clarity QTL 20.001lens clarity trait (VT:0001304)age of onset/diagnosis of cataract (CMO:0001584)151059608955596089Rat
2300167Bmd63Bone mineral density QTL 635.90.0001femur mineral mass (VT:0010011)volumetric bone mineral density (CMO:0001553)151111114256111142Rat
731170Pur3Proteinuria QTL 32.30.0005urine protein amount (VT:0005160)urine protein excretion rate (CMO:0000759)15141686771Rat
738017Hcas7Hepatocarcinoma susceptibility QTL 72.91liver integrity trait (VT:0010547)liver nonremodeling tumorous lesion volume to total liver volume ratio (CMO:0001464)15226636846921453Rat
10054130Srcrt8Stress Responsive Cort QTL 82.180.0085blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)152211793367117933Rat
2300173Bmd62Bone mineral density QTL 6212.80.0001lumbar vertebra mineral mass (VT:0010511)volumetric bone mineral density (CMO:0001553)151111114256111142Rat
2324620Coatc3Coat color QTL 3coat/hair pigmentation trait (VT:0010463)pigmented coat/hair area to total coat/hair area ratio (CMO:0001810)151985656646187442Rat
61424Scl1Serum cholesterol level QTL 17.70.001blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)151672552880672115Rat
1582251Gluco24Glucose level QTL 243.20.0008blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)15553075650530756Rat
1354657Despr13Despair related QTL 130.0022locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)15129912054Rat
631550Bw7Body weight QTL 73.6body mass (VT:0001259)body weight (CMO:0000012)151985656634924750Rat
1578660Bss19Bone structure and strength QTL 194.3femur morphology trait (VT:0000559)bone trabecular cross-sectional area (CMO:0002311)152280624098288169Rat


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 10 60 89 75 78 55 37 55 6 249 125 8 70 47 86 23 3 3

Sequence


Ensembl Acc Id: ENSRNOT00000078966   ⟹   ENSRNOP00000075575
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl1526,786,199 - 26,820,277 (+)Ensembl
mRatBN7.2 Ensembl1524,345,573 - 24,346,025 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000090835   ⟹   ENSRNOP00000069421
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl1528,090,836 - 28,092,023 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000158533   ⟹   ENSRNOP00000101691
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl1526,814,087 - 26,820,294 (+)Ensembl
RefSeq Acc Id: NM_178103   ⟹   NP_835204
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81526,817,508 - 26,820,274 (+)NCBI
mRatBN7.21524,343,992 - 24,346,759 (+)NCBI
Rnor_6.01528,090,836 - 28,092,023 (-)NCBI
Rnor_5.01531,880,764 - 31,881,956 (+)NCBI
RGSC_v3.41527,107,078 - 27,108,270 (+)RGD
Celera1524,663,621 - 24,664,808 (+)RGD
Sequence:
Protein Sequences
Protein RefSeqs NP_835204 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein CAD56200 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000040734.1
  ENSRNOP00000075575
  ENSRNOP00000075575.2
RefSeq Acc Id: NP_835204   ⟸   NM_178103
- Peptide Label: precursor
- UniProtKB: W0UVD2 (UniProtKB/TrEMBL),   A6KED6 (UniProtKB/TrEMBL),   D4ABQ0 (UniProtKB/TrEMBL),   Q8CHN4 (UniProtKB/TrEMBL),   W0UTG1 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000069421   ⟸   ENSRNOT00000090835
Ensembl Acc Id: ENSRNOP00000075575   ⟸   ENSRNOT00000078966
Ensembl Acc Id: ENSRNOP00000101691   ⟸   ENSRNOT00000158533
Protein Domains
Ribonuclease A-domain

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-D4ABQ0-F1-model_v2 AlphaFold D4ABQ0 1-143 view protein structure
AF-E9PTM0-F1-model_v2 AlphaFold E9PTM0 1-143 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:631349 AgrOrtholog
BioCyc Gene G2FUF-14027 BioCyc
Ensembl Genes ENSRNOG00000030110 UniProtKB/TrEMBL
  ENSRNOG00000052100 Ensembl
  ENSRNOG00000054022 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000050944.2 UniProtKB/TrEMBL
  ENSRNOT00000078966 ENTREZGENE
  ENSRNOT00000078966.2 UniProtKB/TrEMBL
Gene3D-CATH 3.10.130.10 UniProtKB/TrEMBL
InterPro EDDM3A/EDDM3B UniProtKB/TrEMBL
  RNaseA-like_dom_sf UniProtKB/TrEMBL
  RNaseA_domain UniProtKB/TrEMBL
KEGG Report rno:290032 UniProtKB/TrEMBL
NCBI Gene 290032 ENTREZGENE
PANTHER EPIDIDYMAL SECRETORY PROTEIN E3-BETA UniProtKB/TrEMBL
  PTHR16788 UniProtKB/TrEMBL
Pfam RnaseA UniProtKB/TrEMBL
PhenoGen Eddm3b PhenoGen
RatGTEx ENSRNOG00000030110 RatGTEx
  ENSRNOG00000052100 RatGTEx
  ENSRNOG00000054022 RatGTEx
Superfamily-SCOP RNaseA UniProtKB/TrEMBL
UniProt A0A0G2KAY4_RAT UniProtKB/TrEMBL
  A6KED6 ENTREZGENE, UniProtKB/TrEMBL
  D4ABQ0 ENTREZGENE, UniProtKB/TrEMBL
  Q8CHN4 ENTREZGENE, UniProtKB/TrEMBL
  W0UTG1 ENTREZGENE, UniProtKB/TrEMBL
  W0UVD2 ENTREZGENE
UniProt Secondary W0UVD2 UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2011-08-02 Eddm3b  epididymal protein 3B  Fam12b  family with sequence similarity 12, member B (epididymal)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2004-09-10 Fam12b  family with sequence similarity 12, member B (epididymal)  E3sp  epididymal secretory protein 3  Symbol and Name updated 1299863 APPROVED
2004-02-11 E3sp  sperm protein 3111  Re3  epididymal secretory protein 3  Symbol updated 625702 APPROVED