Ighm (immunoglobulin heavy constant epsilon) - Rat Genome Database

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Gene: Ighm (immunoglobulin heavy constant epsilon) Rattus norvegicus
Analyze
Symbol: Ighm
Name: immunoglobulin heavy constant epsilon
RGD ID: 15004087
Description: Predicted to be located in membrane. Used to study B cell deficiency; PARTICIPATES IN allograft rejection pathway; .
Type: protein-coding
Previously known as: immunoglobulin heavy constant mu
Allele / Splice: Ighmem1Ang   Ighmem2Ang  
Genetic Models: SD-Ighmem2Ang SD-Ighmem1Ang
Latest Assembly: mRatBN7.2 Ensembl - mRatBN7.2 Assembly Ensembl
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2 Ensembl6132,329,269 - 133,053,426 (-)EnsemblmRatBN7.2 Ensembl
Rnor_6.0 Ensembl6138,054,662 - 138,662,511 (-)EnsemblRnor6.0rn6Rnor6.0
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

Cellular Component

Molecular Function

Molecular Pathway Annotations     Click to see Annotation Detail View
Phenotype Annotations     Click to see Annotation Detail View

Mammalian Phenotype
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. Characterization of immunoglobulin heavy chain knockout rats. Ménoret S, etal., Eur J Immunol. 2010 Oct;40(10):2932-41. doi: 10.1002/eji.201040939.

Genomics


Genetic Models
This gene Ighm is modified in the following models/strains

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 3
Medium 3 9 1 16 1 2 1 9
Low 19 42 34 34 7 8 9 25 18 2 7
Below cutoff 12 4 4 4 1 3 61 8 18 1

Sequence

Nucleotide Sequences

Reference Sequences
RefSeq Acc Id: ENSRNOT00000006888   ⟹   ENSRNOP00000006888
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl6132,329,269 - 133,007,729 (-)Ensembl
Rnor_6.0 Ensembl6138,054,662 - 138,508,753 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000006912   ⟹   ENSRNOP00000006912
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl6138,066,831 - 138,249,391 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000040702   ⟹   ENSRNOP00000039536
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl6138,114,266 - 138,632,203 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000048378   ⟹   ENSRNOP00000046692
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl6132,514,967 - 132,700,366 (-)Ensembl
Rnor_6.0 Ensembl6138,237,174 - 138,250,089 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000056845   ⟹   ENSRNOP00000053688
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl6132,516,793 - 132,699,788 (-)Ensembl
Rnor_6.0 Ensembl6138,239,308 - 138,321,002 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000066209   ⟹   ENSRNOP00000062949
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl6132,421,047 - 132,989,074 (-)Ensembl
Rnor_6.0 Ensembl6138,114,364 - 138,662,365 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000081908   ⟹   ENSRNOP00000068855
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl6138,066,793 - 138,068,648 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000082921   ⟹   ENSRNOP00000075175
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl6138,114,364 - 138,632,159 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000084892   ⟹   ENSRNOP00000072936
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl6138,114,364 - 138,662,511 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000085678   ⟹   ENSRNOP00000069567
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl6132,516,755 - 132,519,689 (-)Ensembl
Rnor_6.0 Ensembl6138,239,270 - 138,249,382 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000087351   ⟹   ENSRNOP00000070825
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl6132,516,755 - 132,699,054 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000095641   ⟹   ENSRNOP00000083055
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl6132,516,755 - 133,053,426 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000098475   ⟹   ENSRNOP00000077986
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl6132,514,967 - 132,699,788 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000110044   ⟹   ENSRNOP00000096353
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl6132,516,755 - 132,840,491 (-)Ensembl
Protein Sequences
Reference Sequences
RefSeq Acc Id: ENSRNOP00000075175   ⟸   ENSRNOT00000082921
RefSeq Acc Id: ENSRNOP00000006888   ⟸   ENSRNOT00000006888
RefSeq Acc Id: ENSRNOP00000072936   ⟸   ENSRNOT00000084892
RefSeq Acc Id: ENSRNOP00000069567   ⟸   ENSRNOT00000085678
RefSeq Acc Id: ENSRNOP00000046692   ⟸   ENSRNOT00000048378
RefSeq Acc Id: ENSRNOP00000006912   ⟸   ENSRNOT00000006912
RefSeq Acc Id: ENSRNOP00000062949   ⟸   ENSRNOT00000066209
RefSeq Acc Id: ENSRNOP00000053688   ⟸   ENSRNOT00000056845
RefSeq Acc Id: ENSRNOP00000068855   ⟸   ENSRNOT00000081908
RefSeq Acc Id: ENSRNOP00000039536   ⟸   ENSRNOT00000040702
RefSeq Acc Id: ENSRNOP00000096353   ⟸   ENSRNOT00000110044
RefSeq Acc Id: ENSRNOP00000070825   ⟸   ENSRNOT00000087351
RefSeq Acc Id: ENSRNOP00000083055   ⟸   ENSRNOT00000095641
RefSeq Acc Id: ENSRNOP00000077986   ⟸   ENSRNOT00000098475
Protein Domains
Ig-like

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-F1LPW0-F1-model_v2 AlphaFold F1LPW0 1-495 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)
Ensembl Genes ENSRNOG00000034190 Ensembl, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000006888.8 UniProtKB/TrEMBL
  ENSRNOP00000046692.4 UniProtKB/TrEMBL
  ENSRNOP00000053688.5 UniProtKB/TrEMBL
  ENSRNOP00000062949.4 UniProtKB/TrEMBL
  ENSRNOP00000069567.2 UniProtKB/TrEMBL
  ENSRNOP00000070825.2 UniProtKB/TrEMBL
  ENSRNOP00000077986.1 UniProtKB/TrEMBL
  ENSRNOP00000083055.1 UniProtKB/TrEMBL
  ENSRNOP00000096353.1 UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000006888.8 UniProtKB/TrEMBL
  ENSRNOT00000048378.6 UniProtKB/TrEMBL
  ENSRNOT00000056845.5 UniProtKB/TrEMBL
  ENSRNOT00000066209.3 UniProtKB/TrEMBL
  ENSRNOT00000085678.2 UniProtKB/TrEMBL
  ENSRNOT00000087351.2 UniProtKB/TrEMBL
  ENSRNOT00000095641.1 UniProtKB/TrEMBL
  ENSRNOT00000098475.1 UniProtKB/TrEMBL
  ENSRNOT00000110044.1 UniProtKB/TrEMBL
Gene3D-CATH 2.60.40.10 UniProtKB/TrEMBL
InterPro Ig-like_dom UniProtKB/TrEMBL
  Ig-like_dom_sf UniProtKB/TrEMBL
  Ig-like_fold UniProtKB/TrEMBL
  Ig/MHC_CS UniProtKB/TrEMBL
  Ig_C1-set UniProtKB/TrEMBL
  Ig_sub UniProtKB/TrEMBL
  Ig_V-set UniProtKB/TrEMBL
  Immunoglobulin UniProtKB/TrEMBL
Pfam C1-set UniProtKB/TrEMBL
  PF00047 UniProtKB/TrEMBL
  V-set UniProtKB/TrEMBL
PhenoGen Ighm PhenoGen
PROSITE IG_LIKE UniProtKB/TrEMBL
  IG_MHC UniProtKB/TrEMBL
SMART IGc1 UniProtKB/TrEMBL
  IGv UniProtKB/TrEMBL
  SM00409 UniProtKB/TrEMBL
Superfamily-SCOP SSF48726 UniProtKB/TrEMBL
UniProt A0A0G2JVP4_RAT UniProtKB/TrEMBL
  A0A0G2JYX2_RAT UniProtKB/TrEMBL
  A0A8I5YC45_RAT UniProtKB/TrEMBL
  A0A8I5ZVS4_RAT UniProtKB/TrEMBL
  A0A8I6APC0_RAT UniProtKB/TrEMBL
  F1LM30_RAT UniProtKB/TrEMBL
  F1LN61_RAT UniProtKB/TrEMBL
  F1LPR6_RAT UniProtKB/TrEMBL
  F1LPW0_RAT UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2022-01-06 Ighm  immunoglobulin heavy constant epsilon  Ighm  immunoglobulin heavy constant mu  Symbol and/or name change 19259462 PROVISIONAL
2019-11-08 Ighm  immunoglobulin heavy constant mu      Symbol and Name status set to provisional 45752 PROVISIONAL