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: Orthologous to several human genes including IGHG1 (immunoglobulin heavy constant gamma 1 (G1m marker)); IGHG2 (immunoglobulin heavy constant gamma 2 (G2m marker)); and IGHG3 (immunoglobulin heavy constant gamma 3 (G3m marker)); INTERACTS WITH 1-naphthyl isothiocyanate; 17beta-estradiol; 17beta-estradiol 3-benzoate.
Type: protein-coding
Also 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 Genes
More Info homologs ...
Allele / Splice: Igh-6em1Mcwi   Igh-6em4Mcwi  
Genetic Models: LEW-Igh-6em4Mcwi LEW-Igh-6em1Mcwi
Latest Assembly: mRatBN7.2 - mRatBN7.2 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 (-)EnsemblRnor6.0rn6Rnor6.0
RGSC_v3.46143,205,627 - 143,206,076 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.16138,436,919 - 138,444,082 (-)NCBI
Celera6134,089,642 - 134,090,091 (-)NCBICelera
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

Cellular Component

Molecular Function

References

Additional References at PubMed
PMID:3016742   PMID:12477932   PMID:22206666   PMID:25056448   PMID:29476059  


Genomics

Position Markers
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
miRNA Target Status

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.


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 1 4 7
Medium 1 5 1 9 1 3 2 8
Low 1 6 18 12 3 12 6 9 6 10 9 3 6
Below cutoff 12 8 6 6 2 2 10 4 13 2

Sequence


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

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, UniProtKB/Swiss-Prot
Ensembl Protein ENSRNOP00000044037 UniProtKB/Swiss-Prot
Ensembl Transcript ENSRNOT00000045874 UniProtKB/Swiss-Prot
Gene3D-CATH 2.60.40.10 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
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, UniProtKB/TrEMBL
  Ig-like_dom_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Ig-like_fold UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Ig/MHC_CS UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Ig_C1-set UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Ig_sub UniProtKB/TrEMBL
  Ig_sub2 UniProtKB/TrEMBL
  Ig_V-set UniProtKB/TrEMBL
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
Pfam C1-set UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  V-set UniProtKB/TrEMBL
PhenoGen Igh-6 PhenoGen
PROSITE IG_LIKE UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  IG_MHC UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
SMART IGc1 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  IGc2 UniProtKB/TrEMBL
  IGv UniProtKB/TrEMBL
  SM00409 UniProtKB/TrEMBL
Superfamily-SCOP SSF48726 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
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