Cypt4 Gene Detail

Summary

• Symbol
  Cypt4
• Name
  cysteine-rich perinuclear theca 4
• Synonyms
  1700009B20Rik, Ckt1r2

• Feature Type
  protein coding gene
• IDs
  MGI:1916573
  NCBI Gene: 235067
• Alliance
  gene page
• Transcription Start Sites
  1 TSS

Location &
Maps

• Sequence Map
  Chr9:24536492-24537120 bp, + strand

  From Ensembl annotation of GRCm39
  

• View this region in JBrowse
  

• Genome Browsers
  Ensembl | UCSC | NCBI

• Genetic Map
  Chromosome 9, 10.25 cM, cytoband A3
• Mapping Data
  3 experiments

Strain
Comparison

• SNPs within 2kb
  122 from dbSNP Build 142
• Strain Annotations
  18

Strain	Gene Model ID	Feature Type	Coordinates
C57BL/6J	MGI_C57BL6J_1916573	protein coding gene	Chr9:24536481-24537124 (+)
129S1/SvImJ	MGP_129S1SvImJ_G0034494	protein coding gene	Chr9:21981249-21981891 (+)
A/J	MGP_AJ_G0034472	protein coding gene	Chr9:21544324-21544966 (+)
AKR/J	MGP_AKRJ_G0034398	protein coding gene	Chr9:21952257-21952899 (+)
BALB/cJ	MGP_BALBcJ_G0034463	protein coding gene	Chr9:21444643-21445285 (+)
C3H/HeJ	MGP_C3HHeJ_G0034175	protein coding gene	Chr9:22281224-22281866 (+)
C57BL/6NJ	MGP_C57BL6NJ_G0034984	protein coding gene	Chr9:22867889-22868531 (+)
CAROLI/EiJ	MGP_CAROLIEiJ_G0031913	protein coding gene	Chr9:20509203-20509869 (+)
CAST/EiJ	MGP_CASTEiJ_G0033497	protein coding gene	Chr9:22147435-22148077 (+)
CBA/J	MGP_CBAJ_G0034148	protein coding gene	Chr9:23659671-23660309 (+)
DBA/2J	MGP_DBA2J_G0034306	protein coding gene	Chr9:21523386-21524028 (+)
FVB/NJ	MGP_FVBNJ_G0034249	protein coding gene	Chr9:21016502-21017140 (+)
LP/J	MGP_LPJ_G0034392	protein coding gene	Chr9:22192861-22193503 (+)
NOD/ShiLtJ	MGP_NODShiLtJ_G0034292	protein coding gene	Chr9:25285051-25285689 (+)
NZO/HlLtJ	MGP_NZOHlLtJ_G0035004	protein coding gene	Chr9:21934629-21935267 (+)
PWK/PhJ	MGP_PWKPhJ_G0033203	protein coding gene	Chr9:21480323-21480965 (+)
SPRET/EiJ	MGP_SPRETEiJ_G0033037	protein coding gene	Chr9:21972706-21973348 (+)
WSB/EiJ	MGP_WSBEiJ_G0033613	protein coding gene	Chr9:21670562-21671204 (+)

Homology

• Gene Tree
  Cypt4
  

Mutations,
Alleles, and
Phenotypes

• Phenotype Summary
  3 phenotype references
  

• All Mutations and Alleles
  3
• Targeted
  3
• Incidental Mutations
  APF
• Find Mice (IMSR)
  10 strains or lines available

Gene Ontology
(GO)
Classifications

• All GO Annotations
  1
• GO References
  1

Expression

• Assay Results
  706
• cDNA Data
  4

Tissue x Stage Matrix

• Other Mouse Links
  Allen Institute
  GEO
  Expression Atlas

Sequences &
Gene Models

• All Sequences
  33
• RefSeq
  2
• UniProt
  2
• CCDS
  CCDS22932.1

• Ensembl
  ENSMUSG00000047995 (Evidence)
• NCBI Gene
  235067

Representative Sequences			Length	Strain/Species
genomic	ENSMUSG00000047995	Ensembl Gene Model | MGI Sequence Detail	629	C57BL/6J
transcript	ENSMUST00000053956	Ensembl | MGI Sequence Detail	629	Not Applicable
polypeptide	ENSMUSP00000054958	Ensembl | MGI Sequence Detail	153	Not Applicable

Protein
Information

• UniProt
  2 Sequences

Molecular
Reagents

• All nucleic 4

  cDNA 4

  
  

  Microarray probesets 1

References

• Summaries
  All 18

  Gene Ontology 1

  Phenotypes 3
• Earliest
  J:65060 Kawai J, et al., Functional annotation of a full-length mouse cDNA collection. Nature. 2001 Feb 8;409(6821):685-90
• Latest
  J:173534 Skarnes WC, et al., A conditional knockout resource for the genome-wide study of mouse gene function. Nature. 2011 Jun 16;474(7351):337-42

TSS for Cypt4:

(View these features in JBrowse)

Transcription Start Site	Location	Distance from Gene 5'-end
Tssr84117	Chr9:24536487-24536497 (+)	0 bp