Clca4c-ps Pseudogene Detail

Summary

• Symbol
  Clca4c-ps
• Name
  chloride channel accessory 4C, pseudogene
• Synonyms
  Clca4c, Gm18718, Gm6289

• Feature Type
  pseudogene
  BioType Conflict
  
• IDs
  MGI:3643218
  NCBI Gene: 622139
• Alliance
  gene page
• Transcription Start Sites
  1 TSS

Location &
Maps

• Sequence Map
  Chr3:144585083-144601772 bp, - strand

  From NCBI annotation of GRCm39
  

• View this region in JBrowse
  

• Genome Browsers
  Ensembl | UCSC | NCBI

• Genetic Map
  Chromosome 3, 69.18 cM
• Mapping Data
  1 experiment

Strain
Comparison

• SNPs within 2kb
  553 from dbSNP Build 142
• Strain Annotations
  13

Strain	Gene Model ID	Feature Type	Coordinates
C57BL/6J	MGI_C57BL6J_3643218	pseudogene	Chr3:144585083-144601772 (-)
129S1/SvImJ	MGP_129S1SvImJ_G0039824	pseudogene	Chr3:148228830-148253348 (-)
A/J	MGP_AJ_G0039825	pseudogene	Chr3:142970057-143005542 (-)
AKR/J	MGP_AKRJ_G0039751	pseudogene	Chr3:146742369-146788725 (-)
BALB/cJ	MGP_BALBcJ_G0039796	pseudogene	Chr3:142796077-142808263 (-)
C3H/HeJ	MGP_C3HHeJ_G0039451	pseudogene	Chr3:147119654-147154215 (-)
C57BL/6NJ	MGP_C57BL6NJ_G0040365	pseudogene	Chr3:153327215-153365809 (-)
CAROLI/EiJ	MGP_CAROLIEiJ_G0036972	pseudogene	Chr3:138193993-138198882 (-)
CAST/EiJ	no annotation
CBA/J	MGP_CBAJ_G0039421	pseudogene	Chr3:158599558-158647291 (-)
DBA/2J	MGP_DBA2J_G0039622	pseudogene	Chr3:142121765-142152693 (-)
FVB/NJ	MGP_FVBNJ_G0039579	pseudogene	Chr3:139543712-139567055 (-)
LP/J	no annotation
NOD/ShiLtJ	MGP_NODShiLtJ_G0039579	pseudogene	Chr3:166929470-166983983 (-)
NZO/HlLtJ	MGP_NZOHlLtJ_G0040467	pseudogene	Chr3:146350612-146381300 (-)
PWK/PhJ	no annotation
SPRET/EiJ	no annotation
WSB/EiJ	no annotation

Homology

• Gene Tree
  Clca4c-ps
  

Human Diseases

• References
  1 with disease annotations

Mutations,
Alleles, and
Phenotypes

• Phenotype Summary
  2 phenotype references
  

• All Mutations and Alleles
  1
• Radiation induced
  1
• Genomic Mutations
  1 involving Clca4c-ps
• Incidental Mutations
  Mutagenetix , APF
• Find Mice (IMSR)
  7 strains or lines available

Expression

• Assay Results
  706
• cDNA Data
  1

Tissue x Stage Matrix

• Other Mouse Links
  GEO
  Expression Atlas

Sequences &
Gene Models

• All Sequences
  21
• RefSeq
  2
• UniProt
  1
• CCDS
  CCDS17888.1

• Ensembl
  ENSMUSG00000121400 (Evidence)
• NCBI Gene
  622139

Representative Sequences			Length	Strain/Species
genomic	622139	NCBI Gene Model | MGI Sequence Detail	16690	C57BL/6J
transcript	NR_126537	RefSeq | MGI Sequence Detail	712	C57BL/6
polypeptide	Q3UTT3	UniProt | EBI | MGI Sequence Detail	156	Not Applicable

Protein
Information

• UniProt
  1 Sequence
• InterPro Domains
  IPR013642 Calcium-activated chloride channel, N-terminal

Molecular
Reagents

• All nucleic 1

  cDNA 1

  
  

  Microarray probesets 1

Other
Accession IDs

MGI:5010903

References

• Summaries
  All 12

  Diseases 1

  Phenotypes 2
• Earliest
  J:70677 Cook SA, et al., Mouse paracentric inversion In(3)55Rk mutates the urate oxidase gene. Cytogenet Cell Genet. 2001;93(1-2):77-82
• Latest
  J:302829 Lu J, et al., Mouse models for human hyperuricaemia: a critical review. Nat Rev Rheumatol. 2019 Jul;15(7):413-426

TSS for Clca4c-ps:

(View these features in JBrowse)

Transcription Start Site	Location	Distance from Gene 5'-end
Tssr36005	Chr3:144595534-144595540 (-)	6,235 bp