Zar1-ps Pseudogene Detail

Summary

• Symbol
  Zar1-ps
• Name
  zygote arrest 1, pseudogene
• Synonyms
  Gm15847

• Feature Type
  pseudogene
• IDs
  MGI:3783237
  NCBI Gene: 102637480
• Alliance
  genome feature page

Location &
Maps

• Sequence Map
  Chr5:73170871-73174579 bp, + strand

  From Ensembl annotation of GRCm39
  

• View this region in JBrowse
  

• Genome Browsers
  Ensembl | UCSC | NCBI
• Per David Webb This Slc10a4> Zar1>duplication appears to be restricted to M. musculus and M. caroli. I couldn't find a similar duplication in other Mus assemblies (eg, M. pahari, M. spicilegus...) or in the assemblies of Peromyscus maniculatus, beaver or human. The gene order in M. musculus and M. caroli is: Nfxl1< loc> Zar1< Slc10a4ps< Cnga1< Nipal1> Txk< Tec< Slain2> Slc10a4> Zar1ps> Fryl< whereas the following gene order is strongly conserved in all other gnathostomes except teleosts: NFXL1< CNGA1< NIPAL1> TXK< TEC< SLAIN2> SLC10A4> ZAR1> FRYL< So, while the protein coding Zar1 gene (GeneID: 317755, MGI:2180337) of M. musculus isn't strictly the ortholog of the ZAR1 gene in other mammals the difference is trivial since it's restricted to a very small set of Mus-related organisms. The Slc10a4 gene of of M. musculus (GeneID: 231290, MGI:3606480) is a true ortholog of the gene in other mammals.

• Genetic Map
  Chromosome 5, 38.44 cM

Strain
Comparison

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

Strain	Gene Model ID	Feature Type	Coordinates
C57BL/6J	MGI_C57BL6J_3783237	pseudogene	Chr5:73170842-73174715 (+)
129S1/SvImJ	ENSMUSG00200036488	pseudogene	Chr5:68828178-68831886 (+)
A/J	ENSMUSG00195035001	pseudogene	Chr5:68152402-68156110 (+)
AKR/J	ENSMUSG00220004650	pseudogene	Chr5:68264026-68267734 (+)
BALB/cJ	ENSMUSG00180025260	pseudogene	Chr5:67909399-67913107 (+)
C3H/HeJ	ENSMUSG00175028276	pseudogene	Chr5:69978024-69981732 (+)
C57BL/6NJ	ENSMUSG00215006253	pseudogene	Chr5:68743591-68747299 (+)
CAROLI/EiJ	MGP_CAROLIEiJ_G0036974	pseudogene	Chr5:65519604-65523361 (-)
CAST/EiJ	ENSTCUG00005033043	pseudogene	Chr5:67719760-67723469 (+)
CBA/J	ENSMUSG00210023978	pseudogene	Chr5:68916186-68919894 (+)
DBA/2J	ENSMUSG00185016632	pseudogene	Chr5:70745840-70749548 (+)
FVB/NJ	no annotation
JF1/MsJ	ENSUMUG00000006677	pseudogene	Chr5:75222473-75226182 (+)
LP/J	ENSMUSG00230022351	pseudogene	Chr5:75402523-75406231 (+)
NOD/ShiLtJ	ENSMUSG00190004459	pseudogene	Chr5:67844726-67848434 (+)
NZO/HlLtJ	ENSMUSG00225010478	pseudogene	Chr5:80472669-80476377 (+)
PWK/PhJ	ENSLUMG00010014592	pseudogene	Chr5:67801035-67804744 (+)
SPRET/EiJ	ENSMSPG00010035721	pseudogene	Chr5:69810239-69813949 (+)
WSB/EiJ	ENSIUOG00005018477	pseudogene	Chr5:70691092-70694800 (+)

Homology

• Gene Tree
  Zar1-ps
  

Mutations,
Alleles, and
Phenotypes

• Phenotype Summary
  4 phenotype references
  

• All Mutations and Alleles
  3
• Chemically induced (other)
  2
• Spontaneous
  1
• Genomic Mutations
  3 involving Zar1-ps
• Find Mice (IMSR)
  3 strains or lines available

Expression

• Assay Results
  597
• cDNA Data
  1

Tissue x Stage Matrix

• Other Mouse Links
  Expression Atlas

Sequences &
Gene Models

• All Sequences
  23
• RefSeq
  1

• Ensembl
  ENSMUSG00000081849 (Evidence)
• NCBI Gene
  102637480

Representative Sequences			Length	Strain/Species
genomic	ENSMUSG00000081849	Ensembl Gene Model | MGI Sequence Detail	3709	C57BL/6J
transcript	ENSMUST00000121417	Ensembl | MGI Sequence Detail	1065	Not Applicable

Molecular
Reagents

• All nucleic 1

  cDNA 1

Other
Accession IDs

MGI:6435718

References

• Summaries
  All 11

  Phenotypes 4
• Earliest
  J:109968 Roderick TH, et al., Nineteen paracentric chromosomal inversions in mice. Genetics. 1974 Jan;76(1):109-17