H3f4 Gene Detail

Summary

• Symbol
  H3f4
• Name
  H3.4 histone, cluster member
• Synonyms
  Gm12260, H304, H3mmT, H3t

• Feature Type
  protein coding gene
• IDs
  MGI:3651326
  NCBI Gene: 382523
• Alliance
  gene page
• Transcription Start Sites
  2 TSS

Location &
Maps

• Sequence Map
  Chr11:58852537-58853099 bp, + strand

  From NCBI annotation of GRCm39
  

• View this region in JBrowse
  

• Genome Browsers
  Ensembl | UCSC | NCBI

• Genetic Map
  Chromosome 11, 36.39 cM

Strain
Comparison

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

Strain	Gene Model ID	Feature Type	Coordinates
C57BL/6J	MGI_C57BL6J_3651326	protein coding gene	Chr11:58852537-58853364 (+)
129S1/SvImJ	MGP_129S1SvImJ_G0039971	pseudogene	Chr11:58743629-58744039 (+)
A/J	MGP_AJ_G0039978	pseudogene	Chr11:56503244-56503654 (+)
AKR/J	MGP_AKRJ_G0039898	pseudogene	Chr11:58403704-58404114 (+)
BALB/cJ	MGP_BALBcJ_G0039956	pseudogene	Chr11:56870194-56870604 (+)
C3H/HeJ	MGP_C3HHeJ_G0039603	pseudogene	Chr11:58291067-58291477 (+)
C57BL/6NJ	MGP_C57BL6NJ_G0040535	pseudogene	Chr11:60619625-60620035 (+)
CAROLI/EiJ	MGP_CAROLIEiJ_G0037092	pseudogene	Chr11:53775781-53776191 (+)
CAST/EiJ	MGP_CASTEiJ_G0038711	pseudogene	Chr11:58408520-58408930 (+)
CBA/J	MGP_CBAJ_G0039572	pseudogene	Chr11:63264511-63264921 (+)
DBA/2J	MGP_DBA2J_G0039769	pseudogene	Chr11:56181020-56181430 (+)
FVB/NJ	MGP_FVBNJ_G0039733	pseudogene	Chr11:55828948-55829358 (+)
LP/J	MGP_LPJ_G0039805	pseudogene	Chr11:59359315-59359725 (+)
NOD/ShiLtJ	MGP_NODShiLtJ_G0039718	pseudogene	Chr11:64419248-64419658 (+)
NZO/HlLtJ	MGP_NZOHlLtJ_G0040626	pseudogene	Chr11:58408516-58408926 (+)
PWK/PhJ	MGP_PWKPhJ_G0038389	pseudogene	Chr11:56766220-56766630 (+)
SPRET/EiJ	MGP_SPRETEiJ_G0038120	pseudogene	Chr11:58216503-58216913 (+)
WSB/EiJ	MGP_WSBEiJ_G0038933	pseudogene	Chr11:58093701-58094111 (+)

Homology

• Gene Tree
  H3f4
  

Mutations,
Alleles, and
Phenotypes

• Phenotype Summary
  12 phenotypes from 1 allele in 1 genetic background
  4 phenotype references
  

• All Mutations and Alleles
  2
• Chemically induced (other)
  1
• Endonuclease-mediated
  1
• Genomic Mutations
  1 involving H3f4
• Find Mice (IMSR)
  0 strains or lines available
• Comparison Matrix
  Gene Expression + Phenotype

Mice homozygous for a knock-out allele exhibit male infertility associated with small testes, meiotic failure, increased male germ cell apoptosis, and azoospermia.

Expression

• Assay Results
  706

Tissue x Stage Matrix

Comparison Matrix

Gene Expression + Phenotype

• Other Mouse Links
  Expression Atlas

Sequences &
Gene Models

• All Sequences
  25
• RefSeq
  2
• UniProt
  1

• Ensembl
  ENSMUSG00000080152 (Evidence)
• NCBI Gene
  382523

Representative Sequences			Length	Strain/Species
genomic	382523	NCBI Gene Model | MGI Sequence Detail	563	C57BL/6J
transcript	NM_001318003	RefSeq | MGI Sequence Detail	563	C57BL/6
polypeptide	NP_001304932	RefSeq | MGI Sequence Detail	136	C57BL/6

Protein
Information

• UniProt
  1 Sequence
• InterPro Domains
  IPR009072 Histone-fold
  IPR007125 Histone H2A/H2B/H3
  IPR000164 Histone H3/CENP-A

Other
Accession IDs

MGI:6325040

References

• Summaries
  All 14

  Phenotypes 4
• Earliest
  J:137335 Roderick TH, Chromosomal inversions in studies of mammalian mutagenesis. Genetics. 1979 May;92(1 Pt 1 Suppl):s121-6
• Latest
  J:354235 Kawaguchi T, et al., Comprehensive posttranslational modifications in the testis-specific histone variant H3t protein validated in tagged knock-in mice. Sci Rep. 2024 Sep 12;14(1):21305

TSS for H3f4:

(View these features in JBrowse)

Transcription Start Site	Location	Distance from Gene 5'-end
Tssr101768	Chr11:58852591-58852606 (+)	62 bp
Tssr101769	Chr11:58852736-58852759 (+)	211 bp