Ergic2 (ERGIC and golgi 2) - Rat Genome Database

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Gene: Ergic2 (ERGIC and golgi 2) Rattus norvegicus
Analyze
Symbol: Ergic2
Name: ERGIC and golgi 2
RGD ID: 1310606
Description: Predicted to be involved in endoplasmic reticulum to Golgi vesicle-mediated transport and retrograde vesicle-mediated transport, Golgi to endoplasmic reticulum. Predicted to be located in Golgi apparatus; endoplasmic reticulum-Golgi intermediate compartment; and nucleolus. Predicted to be part of retrograde transporter complex, Golgi to ER. Predicted to be active in COPII-coated ER to Golgi transport vesicle; endoplasmic reticulum; and membrane. Orthologous to human ERGIC2 (ERGIC and golgi 2); INTERACTS WITH acetamide; bisphenol A; C60 fullerene.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: endoplasmic reticulum-Golgi intermediate compartment protein 2; EST AA408438; hypothetical protein LOC297728; LOC297728; RGD1310606; similar to RIKEN cDNA 1200009B18
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
GRCr84182,822,225 - 182,858,392 (-)NCBIGRCr8
mRatBN7.24181,090,808 - 181,123,074 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl4181,090,808 - 181,123,060 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx4187,375,621 - 187,407,919 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.04183,160,169 - 183,192,467 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.04181,780,655 - 181,812,953 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.04182,569,086 - 182,600,258 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl4182,569,089 - 182,600,258 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.04246,703,520 - 246,734,692 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.44185,797,165 - 185,828,199 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.14186,042,291 - 186,073,323 (-)NCBI
Celera4169,583,462 - 169,614,493 (-)NCBICelera
Cytogenetic Map4q44NCBI
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

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
Additional References at PubMed
PMID:12477932   PMID:17980171   PMID:19946888   PMID:24768165  


Genomics

Comparative Map Data
Ergic2
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr84182,822,225 - 182,858,392 (-)NCBIGRCr8
mRatBN7.24181,090,808 - 181,123,074 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl4181,090,808 - 181,123,060 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx4187,375,621 - 187,407,919 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.04183,160,169 - 183,192,467 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.04181,780,655 - 181,812,953 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.04182,569,086 - 182,600,258 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl4182,569,089 - 182,600,258 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.04246,703,520 - 246,734,692 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.44185,797,165 - 185,828,199 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.14186,042,291 - 186,073,323 (-)NCBI
Celera4169,583,462 - 169,614,493 (-)NCBICelera
Cytogenetic Map4q44NCBI
ERGIC2
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381229,337,352 - 29,381,172 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1229,337,352 - 29,381,189 (-)EnsemblGRCh38hg38GRCh38
GRCh371229,490,285 - 29,534,105 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361229,384,846 - 29,425,410 (-)NCBINCBI36Build 36hg18NCBI36
Celera1234,639,329 - 34,679,889 (-)NCBICelera
Cytogenetic Map12p11.22NCBI
HuRef1229,262,535 - 29,303,132 (-)NCBIHuRef
CHM1_11229,459,167 - 29,499,728 (-)NCBICHM1_1
T2T-CHM13v2.01229,209,885 - 29,253,701 (-)NCBIT2T-CHM13v2.0
Ergic2
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm396148,080,816 - 148,113,886 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl6148,080,577 - 148,113,872 (-)EnsemblGRCm39 Ensembl
GRCm386148,179,318 - 148,212,388 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl6148,179,079 - 148,212,374 (-)EnsemblGRCm38mm10GRCm38
MGSCv376148,127,840 - 148,160,896 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv366148,136,488 - 148,169,544 (-)NCBIMGSCv36mm8
Celera6151,211,424 - 151,244,491 (-)NCBICelera
Cytogenetic Map6G3NCBI
cM Map678.49NCBI
Ergic2
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049555055,548,763 - 5,583,503 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049555055,548,588 - 5,583,503 (+)NCBIChiLan1.0ChiLan1.0
ERGIC2
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21067,431,345 - 67,475,596 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11267,427,767 - 67,499,581 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01256,929,620 - 56,970,804 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11259,553,049 - 59,596,433 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1259,553,049 - 59,595,953 (+)Ensemblpanpan1.1panPan2
ERGIC2
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12718,617,186 - 18,656,801 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl2718,617,266 - 18,654,851 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha2727,753,342 - 27,792,962 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.02718,810,959 - 18,840,295 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl2718,811,046 - 18,845,703 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.12718,618,701 - 18,658,148 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.02718,643,560 - 18,682,912 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.02727,908,532 - 27,947,850 (-)NCBIUU_Cfam_GSD_1.0
Ergic2
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440494580,485,312 - 80,524,937 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049367601,410,002 - 1,448,662 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049367601,409,612 - 1,447,994 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
ERGIC2
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl544,334,230 - 44,387,933 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1544,334,224 - 44,384,777 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2547,652,951 - 47,700,246 (+)NCBISscrofa10.2Sscrofa10.2susScr3
ERGIC2
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11129,052,593 - 29,094,507 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl1129,053,770 - 29,094,492 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_0236660695,939,712 - 5,979,965 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Ergic2
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046247786,422,669 - 6,450,533 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046247786,412,225 - 6,451,757 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Ergic2
95 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:29
Count of miRNA genes:29
Interacting mature miRNAs:29
Transcripts:ENSRNOT00000067970
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
1300109Rf13Renal function QTL 133.91renal blood flow trait (VT:2000006)absolute change in renal blood flow rate (CMO:0001168)4157710145182687754Rat
2293659Bmd35Bone mineral density QTL 354.50.0001femur strength trait (VT:0010010)femoral neck ultimate force (CMO:0001703)4137755016181392681Rat
6478718Anxrr34Anxiety related response QTL 340.00896locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)4144639524182687754Rat
6478748Anxrr42Anxiety related response QTL 420.28008locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)4144639524182687754Rat
6478754Anxrr43Anxiety related response QTL 430.14035locomotor behavior trait (VT:0001392)distance moved per unit of time into, out of or within a discrete space in an experimental apparatus (CMO:0001493)4144639524182687754Rat
6478693Anxrr32Anxiety related response QTL 320.00092locomotor behavior trait (VT:0001392)measurement of voluntary locomotion into, out of or within a discrete space in an experimental apparatus (CMO:0000957)4144639524182687754Rat
6478700Anxrr33Anxiety related response QTL 330.00896locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)4144639524182687754Rat
10053718Scort25Serum corticosterone level QTL 252.150.0097blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)4155561574182687754Rat
10401796Kidm48Kidney mass QTL 48kidney mass (VT:0002707)both kidneys wet weight (CMO:0000085)4145568712182687754Rat

Markers in Region
RH143722  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.24181,092,430 - 181,092,675 (+)MAPPERmRatBN7.2
Rnor_6.04182,569,492 - 182,569,736NCBIRnor6.0
Rnor_5.04246,703,926 - 246,704,170UniSTSRnor5.0
RGSC_v3.44185,797,571 - 185,797,815UniSTSRGSC3.4
Celera4169,583,868 - 169,584,112UniSTS
RH 3.4 Map41120.7UniSTS
Cytogenetic Map4q44UniSTS
AA892242  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.24181,092,430 - 181,092,675 (+)MAPPERmRatBN7.2
Rnor_6.04182,569,492 - 182,569,736NCBIRnor6.0
Rnor_5.04246,703,926 - 246,704,170UniSTSRnor5.0
RGSC_v3.44185,797,571 - 185,797,815UniSTSRGSC3.4
Celera4169,583,868 - 169,584,112UniSTS
RH 3.4 Map41120.9UniSTS
Cytogenetic Map4q44UniSTS
AI169358  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.24181,109,452 - 181,109,643 (+)MAPPERmRatBN7.2
Rnor_6.04182,586,513 - 182,586,703NCBIRnor6.0
Rnor_5.04246,720,947 - 246,721,137UniSTSRnor5.0
RGSC_v3.44185,814,592 - 185,814,782UniSTSRGSC3.4
Celera4169,600,889 - 169,601,079UniSTS
RH 3.4 Map41117.9UniSTS
Cytogenetic Map4q44UniSTS


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 3 43 57 41 19 41 8 11 74 35 41 11 8
Low
Below cutoff

Sequence


RefSeq Acc Id: ENSRNOT00000067970   ⟹   ENSRNOP00000061923
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl4181,092,028 - 181,123,060 (-)Ensembl
Rnor_6.0 Ensembl4182,569,089 - 182,600,258 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000079291   ⟹   ENSRNOP00000070726
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl4181,090,808 - 181,122,816 (-)Ensembl
Rnor_6.0 Ensembl4182,569,327 - 182,594,231 (-)Ensembl
RefSeq Acc Id: NM_001394930   ⟹   NP_001381859
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr84182,822,225 - 182,854,490 (-)NCBI
mRatBN7.24181,090,808 - 181,123,074 (-)NCBI
RefSeq Acc Id: NM_001394931   ⟹   NP_001381860
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr84182,822,225 - 182,854,490 (-)NCBI
mRatBN7.24181,090,808 - 181,123,074 (-)NCBI
RefSeq Acc Id: NR_172212
RefSeq Status: VALIDATED
Type: NON-CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr84182,822,225 - 182,854,490 (-)NCBI
mRatBN7.24181,090,808 - 181,123,074 (-)NCBI
RefSeq Acc Id: XM_063285922   ⟹   XP_063141992
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr84182,822,225 - 182,854,170 (-)NCBI
RefSeq Acc Id: XM_063285924   ⟹   XP_063141994
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr84182,822,225 - 182,858,392 (-)NCBI
RefSeq Acc Id: XM_063285925   ⟹   XP_063141995
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr84182,822,225 - 182,846,877 (-)NCBI
RefSeq Acc Id: ENSRNOP00000070726   ⟸   ENSRNOT00000079291
RefSeq Acc Id: ENSRNOP00000061923   ⟸   ENSRNOT00000067970
RefSeq Acc Id: NP_001381860   ⟸   NM_001394931
- Peptide Label: isoform 2
RefSeq Acc Id: NP_001381859   ⟸   NM_001394930
- Peptide Label: isoform 1
- UniProtKB: A0A0G2JYN4 (UniProtKB/TrEMBL),   A6IN52 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_063141994   ⟸   XM_063285924
- Peptide Label: isoform X1
RefSeq Acc Id: XP_063141992   ⟸   XM_063285922
- Peptide Label: isoform X1
RefSeq Acc Id: XP_063141995   ⟸   XM_063285925
- Peptide Label: isoform X2
Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-A0A0G2JYN4-F1-model_v2 AlphaFold A0A0G2JYN4 1-377 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:1310606 AgrOrtholog
BioCyc Gene G2FUF-42407 BioCyc
Ensembl Genes ENSRNOG00000001852 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000067970 ENTREZGENE
  ENSRNOT00000067970.4 UniProtKB/TrEMBL
  ENSRNOT00000079291 ENTREZGENE
  ENSRNOT00000079291.2 UniProtKB/TrEMBL
IMAGE_CLONE IMAGE:7132841 IMAGE-MGC_LOAD
InterPro Erv UniProtKB/TrEMBL
  Erv_C UniProtKB/TrEMBL
  Erv_N UniProtKB/TrEMBL
KEGG Report rno:297728 UniProtKB/TrEMBL
MGC_CLONE MGC:94334 IMAGE-MGC_LOAD
NCBI Gene 297728 ENTREZGENE
PANTHER ENDOPLASMIC RETICULUM-GOLGI INTERMEDIATE COMPARTMENT PROTEIN 2 UniProtKB/TrEMBL
  PTHR10984 UniProtKB/TrEMBL
Pfam COPIIcoated_ERV UniProtKB/TrEMBL
  ERGIC_N UniProtKB/TrEMBL
PhenoGen Ergic2 PhenoGen
RatGTEx ENSRNOG00000001852 RatGTEx
UniProt A0A0G2JYN4 ENTREZGENE, UniProtKB/TrEMBL
  A6IN52 ENTREZGENE, UniProtKB/TrEMBL
  Q5XIS4_RAT UniProtKB/TrEMBL
UniProt Secondary D4A363 UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2010-04-23 Ergic2  ERGIC and golgi 2  RGD1310606  similar to RIKEN cDNA 1200009B18; EST AA408438  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2005-12-06 RGD1310606  similar to RIKEN cDNA 1200009B18; EST AA408438  RGD1310606_predicted  similar to RIKEN cDNA 1200009B18; EST AA408438 (predicted)  Symbol and Name updated 1559027 APPROVED
2005-01-20 RGD1310606_predicted  similar to RIKEN cDNA 1200009B18; EST AA408438 (predicted)  LOC297728_predicted    Symbol and Name status set to approved 1331353 APPROVED
2005-01-12 LOC297728_predicted  similar to RIKEN cDNA 1200009B18; EST AA408438 (predicted)      Symbol and Name status set to provisional 70820 PROVISIONAL