Ighv4-2 Pseudogene Detail

Summary

• Symbol
  Ighv4-2
• Name
  immunoglobulin heavy variable 4-2

• Feature Type
  pseudogenic gene segment
• IDs
  MGI:5009840
  NCBI Gene: 668423
• Alliance
  genome feature page

Location &
Maps

• Sequence Map
  Chr12:113976764-113977059 bp, - strand

  From NCBI annotation of GRCm39
  

• View this region in JBrowse
  

• Genome Browsers
  Ensembl | UCSC | NCBI

• Genetic Map
  Chromosome 12, 62.26 cM
• Mapping Data
  1 experiment

Strain
Comparison

• SNPs within 2kb
  103 from dbSNP Build 142
• Strain Annotations
  10

Strain	Gene Model ID	Feature Type	Coordinates
C57BL/6J	MGI_C57BL6J_5009840	pseudogenic gene segment	Chr12:113976764-113977226 (-)
129S1/SvImJ	ENSMUSG00200030474	pseudogenic gene segment	Chr12:105672084-105672382 (-)
A/J	ENSMUSG00195049140	pseudogenic gene segment	Chr12:108443602-108444064 (-)
AKR/J	no annotation
BALB/cJ	ENSMUSG00180050682	pseudogenic gene segment	Chr12:107901363-107901825 (-)
C3H/HeJ	no annotation
C57BL/6NJ	ENSMUSG00215049135	pseudogenic gene segment	Chr12:106766313-106766775 (-)
CAROLI/EiJ	no annotation
CAST/EiJ	ENSTCUG00005043799	pseudogenic gene segment	Chr12:106484557-106485019 (-)
CBA/J	no annotation
DBA/2J	no annotation
FVB/NJ	no annotation
JF1/MsJ	ENSUMUG00000027671	pseudogenic gene segment	Chr12:113763948-113764410 (-)
LP/J	ENSMUSG00230048052	pseudogenic gene segment	Chr12:116029261-116029723 (-)
NOD/ShiLtJ	ENSMUSG00190027500	pseudogenic gene segment	Chr12:105612378-105612840 (-)
NZO/HlLtJ	no annotation
PWK/PhJ	ENSLUMG00010047136	pseudogenic gene segment	Chr12:107431686-107432148 (-)
SPRET/EiJ	no annotation
WSB/EiJ	no annotation

Homology

• Gene Tree
  Ighv4-2
  

Expression

• Assay Results
  597

Tissue x Stage Matrix

• Other Mouse Links
  GEO
  Expression Atlas

Sequences &
Gene Models

• All Sequences
  106
• RefSeq
  1
• UniProt
  28

• Ensembl
  ENSMUSG00000103271 (Evidence)
• NCBI Gene
  668423

Representative Sequences			Length	Strain/Species
genomic	668423	NCBI Gene Model | MGI Sequence Detail	296	C57BL/6J
transcript	OQ570981	GenBank | ENA | DDBJ | MGI Sequence Detail	375	000664*
polypeptide	X5J5A9	UniProt | EBI | MGI Sequence Detail	112	Not Applicable

Protein
Information

• UniProt
  28 Sequences
• InterPro Domains
  IPR003599 Immunoglobulin domain subtype
  IPR050199 Immunoglobulin Heavy Variable
  IPR007110 Immunoglobulin-like domain
  IPR036179 Immunoglobulin-like domain superfamily
  IPR013783 Immunoglobulin-like fold
  IPR013106 Immunoglobulin V-set domain

References

• Summaries
  All 13
• Earliest
  J:10610 Bonilla FA, et al., V kappa gene usage, idiotype expression, and antigen binding among clones expressing the VHX24 gene family derived from naive and anti-idiotype immune BALB/c mice. J Immunol. 1990 Jul 15;145(2):616-22
• Latest
  J:250678 Tas JM, et al., Visualizing antibody affinity maturation in germinal centers. Science. 2016 Mar 4;351(6277):1048-54