Igh-6 (immunoglobulin heavy chain 6) - Rat Genome Database

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Gene: Igh-6 (immunoglobulin heavy chain 6) Rattus norvegicus
Analyze
No known orthologs.
Symbol: Igh-6
Name: immunoglobulin heavy chain 6
RGD ID: 1359202
Description: ASSOCIATED WITH Hepatomegaly; INTERACTS WITH 1-naphthyl isothiocyanate; 17beta-estradiol; 17beta-estradiol 3-benzoate
Type: protein-coding
Previously known as: Ig gamma-2B chain C region; Igh-1a; Igh6; IgM; Immunoglobulin heavy chain 1a; LOC299357; MGC125059; mu heavy chain constant region; mu-immunoglobulin; RGD1359202; similar to Igh-6 protein; similar to immunoglobulin heavy chain 6 (Igh-6)
RGD Orthologs
Alliance Orthologs
More Info homologs ...
Allele / Splice: Igh-6em1Mcwi ; Igh-6em4Mcwi
Genetic Models: LEW-Igh-6em4Mcwi ; LEW-Igh-6em1Mcwi
Latest Assembly: GRCr8 - GRCr8 Assembly
NCBI Annotation Information: Genome Annotation Status: not in current annotation release
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rnor_6.0 Ensembl6138,092,131 - 138,093,643 (-)Ensemblrn6Rnor6.0
RGSC_v3.46143,205,627 - 143,206,076 (-)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera6134,089,642 - 134,090,091 (-)NCBICelera
RGSC_v3.16138,436,919 - 138,444,082 (-)NCBI
Cytogenetic Map6q33NCBI



Disease Annotations     Click to see Annotation Detail View
Hepatomegaly  (EXP)

Gene-Chemical Interaction 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. Cloning of cDNA coding for the rat mu heavy chain constant region: differences between rat allotypes. Parker KE, etal., Immunogenetics 1994;39(2):159.
3. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
4. Rat immunoglobulin delta heavy chain gene: nucleotide sequence derived from cloned cDNA. Sire J, etal., Gene 1982 Dec;20(3):377-86.
Additional References at PubMed
PMID:3016742   PMID:12477932   PMID:22206666   PMID:25056448   PMID:29476059  


Genomics

miRNA Target Status (No longer updated)

Predicted Target Of
Summary Value
Count of predictions:46
Count of miRNA genes:45
Interacting mature miRNAs:46
Transcripts:ENSRNOT00000045874
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.

Markers in Region
RH134365  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.26132,516,827 - 132,517,030 (+)MAPPERmRatBN7.2
Rnor_6.06138,239,343 - 138,239,545NCBIRnor6.0
Rnor_5.06147,231,799 - 147,232,001UniSTSRnor5.0
RGSC_v3.46138,442,358 - 138,442,560UniSTSRGSC3.4
Celera6130,043,266 - 130,043,468UniSTS
RH 3.4 Map8676.3UniSTS
Cytogenetic Map6q32UniSTS
Cytogenetic Map6q33UniSTS
AI326478  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.26132,516,866 - 132,516,948 (+)MAPPERmRatBN7.2
Rnor_6.06138,239,382 - 138,239,463NCBIRnor6.0
Rnor_5.06147,231,838 - 147,231,919UniSTSRnor5.0
RGSC_v3.46138,442,397 - 138,442,478UniSTSRGSC3.4
Celera6130,043,305 - 130,043,386UniSTS
Cytogenetic Map6q32UniSTS
Cytogenetic Map6q33UniSTS
UniSTS:461920  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.26132,516,803 - 132,517,008 (+)MAPPERmRatBN7.2
Rnor_6.06138,239,319 - 138,239,523NCBIRnor6.0
Rnor_5.06147,231,775 - 147,231,979UniSTSRnor5.0
RGSC_v3.46138,442,334 - 138,442,538UniSTSRGSC3.4
Celera6130,043,242 - 130,043,446UniSTS
Cytogenetic Map6q32UniSTS
Cytogenetic Map6q33UniSTS


Genetic Models
This gene Igh-6 is modified in the following models/strains:
LEW-Igh-6em4Mcwi     LEW-Igh-6em1Mcwi    


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
nervous system
renal system
reproductive system
respiratory system
9 11 24 46 65 64 33 25 33 6 144 72 26 22 39 31

Sequence


Ensembl Acc Id: ENSRNOT00000045874   ⟹   ENSRNOP00000044037
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl6138,092,131 - 138,093,643 (-)Ensembl
Ensembl Acc Id: ENSRNOP00000044037   ⟸   ENSRNOT00000045874
Protein Domains
Ig-like

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-P20761-F1-model_v2 AlphaFold P20761 1-333 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:1359202 AgrOrtholog
Ensembl Genes ENSRNOG00000048402 Ensembl
Gene3D-CATH 2.60.40.10 UniProtKB/Swiss-Prot
IMAGE_CLONE IMAGE:7302596 IMAGE-MGC_LOAD
  IMAGE:7366480 IMAGE-MGC_LOAD
  IMAGE:7367945 IMAGE-MGC_LOAD
  IMAGE:7368318 IMAGE-MGC_LOAD
  IMAGE:7374168 IMAGE-MGC_LOAD
  IMAGE:7378871 IMAGE-MGC_LOAD
InterPro Ig-like_dom UniProtKB/Swiss-Prot
  Ig-like_dom_sf UniProtKB/Swiss-Prot
  Ig-like_fold UniProtKB/Swiss-Prot
  Ig/MHC_CS UniProtKB/Swiss-Prot
  Ig_C1-set UniProtKB/Swiss-Prot
  Immune_Resp_Modulators UniProtKB/Swiss-Prot
MGC_CLONE MGC:105969 IMAGE-MGC_LOAD
  MGC:108850 IMAGE-MGC_LOAD
  MGC:109030 IMAGE-MGC_LOAD
  MGC:116084 IMAGE-MGC_LOAD
  MGC:125059 IMAGE-MGC_LOAD
  MGC:125186 IMAGE-MGC_LOAD
NCBI Gene 299357 ENTREZGENE
PANTHER TAPASIN UniProtKB/Swiss-Prot
Pfam C1-set UniProtKB/Swiss-Prot
PhenoGen Igh-6 PhenoGen
PROSITE IG_LIKE UniProtKB/Swiss-Prot
  IG_MHC UniProtKB/Swiss-Prot
RatGTEx ENSRNOG00000048402 RatGTEx
SMART IGc1 UniProtKB/Swiss-Prot
Superfamily-SCOP SSF48726 UniProtKB/Swiss-Prot
UniProt IGG2B_RAT UniProtKB/Swiss-Prot, ENTREZGENE
  Q3B8R4_RAT UniProtKB/TrEMBL
  Q3SYP8_RAT UniProtKB/TrEMBL
  Q4QQW0_RAT UniProtKB/TrEMBL
  Q569B3_RAT UniProtKB/TrEMBL
  Q569B8_RAT UniProtKB/TrEMBL
  Q5RK07_RAT UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2008-09-09 Igh-6  immunoglobulin heavy chain 6  RGD1359202  similar to immunoglobulin heavy chain 6 (Igh-6)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2005-11-17 RGD1359202  similar to immunoglobulin heavy chain 6 (Igh-6)      Symbol and Name updated 1299863 APPROVED
2005-07-29 LOC299357  similar to Igh-6 protein      Symbol and Name status set to provisional 70820 PROVISIONAL