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Hfm1 HFM1, ATP-dependent DNA helicase homolog [ Mus musculus (house mouse) ]

Gene ID: 330149, updated on 10-Jun-2024

Summary

Official Symbol
Hfm1provided by MGI
Official Full Name
HFM1, ATP-dependent DNA helicase homologprovided by MGI
Primary source
MGI:MGI:3036246
See related
Ensembl:ENSMUSG00000043410 AllianceGenome:MGI:3036246
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Mus musculus
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
Also known as
Mer3; Gm1046; Sec63d1; A330009G12Rik
Summary
Predicted to enable DNA helicase activity. Acts upstream of or within resolution of meiotic recombination intermediates. Predicted to be active in nucleus. Human ortholog(s) of this gene implicated in primary ovarian insufficiency 9. Orthologous to human HFM1 (helicase for meiosis 1). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Biased expression in testis adult (RPKM 2.8), CNS E18 (RPKM 1.6) and 7 other tissues See more
Orthologs
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Genomic context

See Hfm1 in Genome Data Viewer
Location:
5 E5; 5 51.43 cM
Exon count:
44
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCm39 (GCF_000001635.27) 5 NC_000071.7 (106988059..107074427, complement)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 5 NC_000071.6 (106840193..106926712, complement)

Chromosome 5 - NC_000071.7Genomic Context describing neighboring genes Neighboring gene CapStarr-seq enhancer MGSCv37_chr5:107187045-107187335 Neighboring gene glyceraldehyde-3-phosphate dehydrogenase pseudogene Neighboring gene STARR-seq mESC enhancer starr_13876 Neighboring gene predicted gene, 33327 Neighboring gene STARR-seq mESC enhancer starr_13877 Neighboring gene CapStarr-seq enhancer MGSCv37_chr5:107320773-107320956 Neighboring gene STARR-positive B cell enhancer ABC_E4773 Neighboring gene STARR-seq mESC enhancer starr_13878 Neighboring gene olfactory receptor 719, pseudogene Neighboring gene STARR-seq mESC enhancer starr_13879 Neighboring gene STARR-seq mESC enhancer starr_13880 Neighboring gene cell division cycle 7 Neighboring gene STARR-seq mESC enhancer starr_13882 Neighboring gene predicted gene, 33371

Genomic regions, transcripts, and products

Expression

  • Project title: Mouse ENCODE transcriptome data
  • Description: RNA profiling data sets generated by the Mouse ENCODE project.
  • BioProject: PRJNA66167
  • Publication: PMID 25409824
  • Analysis date: n/a

Bibliography

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Variation

Alleles

Alleles of this type are documented at Mouse Genome Informatics  (MGI)
  • Endonuclease-mediated (2)  1 citation
  • Gene trapped (1) 

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Gene Ontology Provided by MGI

Function Evidence Code Pubs
enables ATP binding IEA
Inferred from Electronic Annotation
more info
 
enables DNA helicase activity IBA
Inferred from Biological aspect of Ancestor
more info
 
enables helicase activity IEA
Inferred from Electronic Annotation
more info
 
enables hydrolase activity IEA
Inferred from Electronic Annotation
more info
 
enables nucleic acid binding IEA
Inferred from Electronic Annotation
more info
 
enables nucleotide binding IEA
Inferred from Electronic Annotation
more info
 
Process Evidence Code Pubs
acts_upstream_of_or_within cell differentiation IEA
Inferred from Electronic Annotation
more info
 
acts_upstream_of_or_within meiotic cell cycle IEA
Inferred from Electronic Annotation
more info
 
acts_upstream_of_or_within oogenesis IEA
Inferred from Electronic Annotation
more info
 
involved_in resolution of meiotic recombination intermediates IBA
Inferred from Biological aspect of Ancestor
more info
 
acts_upstream_of_or_within resolution of meiotic recombination intermediates IMP
Inferred from Mutant Phenotype
more info
PubMed 
acts_upstream_of_or_within spermatogenesis IEA
Inferred from Electronic Annotation
more info
 
Component Evidence Code Pubs
is_active_in nucleus IBA
Inferred from Biological aspect of Ancestor
more info
 

General protein information

Preferred Names
probable ATP-dependent DNA helicase HFM1
Names
SEC63 domain containing 1
NP_001239445.1
NP_001399471.1
NP_001399490.1
NP_001399491.1
NP_808541.2
XP_006535078.1
XP_006535079.1
XP_011247789.1
XP_030110450.1
XP_030110451.1
XP_030110453.1
XP_030110454.1
XP_030110455.1
XP_030110456.1
XP_030110457.1
XP_030110458.1
XP_030110459.1
XP_030110460.1
XP_036021120.1
XP_036021121.1

NCBI Reference Sequences (RefSeq)

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RefSeqs maintained independently of Annotated Genomes

These reference sequences exist independently of genome builds. Explain

These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

mRNA and Protein(s)

  1. NM_001252516.2NP_001239445.1  probable ATP-dependent DNA helicase HFM1 isoform 2

    See identical proteins and their annotated locations for NP_001239445.1

    Status: VALIDATED

    Source sequence(s)
    AC137947
    UniProtKB/TrEMBL
    D3YUB5, Q8CA92
    Conserved Domains (1) summary
    cl21455
    Location:239272
    P-loop_NTPase; P-loop containing Nucleoside Triphosphate Hydrolases
  2. NM_001412542.1NP_001399471.1  probable ATP-dependent DNA helicase HFM1 isoform 3

    Status: VALIDATED

    Source sequence(s)
    AC137947
  3. NM_001412561.1NP_001399490.1  probable ATP-dependent DNA helicase HFM1 isoform 4

    Status: VALIDATED

    Source sequence(s)
    AC137947
  4. NM_001412562.1NP_001399491.1  probable ATP-dependent DNA helicase HFM1 isoform 5

    Status: VALIDATED

    Source sequence(s)
    AC137947
  5. NM_177873.4NP_808541.2  probable ATP-dependent DNA helicase HFM1 isoform 1

    See identical proteins and their annotated locations for NP_808541.2

    Status: VALIDATED

    Source sequence(s)
    AC137947
    Consensus CDS
    CCDS51582.1
    UniProtKB/Swiss-Prot
    D3Z4R1
    Related
    ENSMUSP00000108310.4, ENSMUST00000112690.10
    Conserved Domains (3) summary
    cd00079
    Location:502667
    HELICc; Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may ...
    pfam00270
    Location:283464
    DEAD; DEAD/DEAH box helicase
    pfam02889
    Location:7751088
    Sec63; Sec63 Brl domain

RefSeqs of Annotated Genomes: GCF_000001635.27-RS_2024_02

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCm39 C57BL/6J

Genomic

  1. NC_000071.7 Reference GRCm39 C57BL/6J

    Range
    106988059..107074427 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_006535016.5XP_006535079.1  probable ATP-dependent DNA helicase HFM1 isoform X1

    See identical proteins and their annotated locations for XP_006535079.1

    Conserved Domains (1) summary
    COG1204
    Location:263969
    BRR2; Replicative superfamily II helicase [Replication, recombination and repair]
  2. XM_030254591.1XP_030110451.1  probable ATP-dependent DNA helicase HFM1 isoform X4

    Conserved Domains (1) summary
    COG1204
    Location:219925
    BRR2; Replicative superfamily II helicase [Replication, recombination and repair]
  3. XM_030254590.1XP_030110450.1  probable ATP-dependent DNA helicase HFM1 isoform X2

    Conserved Domains (1) summary
    COG1204
    Location:244950
    BRR2; Replicative superfamily II helicase [Replication, recombination and repair]
  4. XM_030254596.1XP_030110456.1  probable ATP-dependent DNA helicase HFM1 isoform X9

    Conserved Domains (1) summary
    COG1204
    Location:9649
    BRR2; Replicative superfamily II helicase [Replication, recombination and repair]
  5. XM_011249487.1XP_011247789.1  probable ATP-dependent DNA helicase HFM1 isoform X8

    Conserved Domains (1) summary
    COG1204
    Location:124830
    BRR2; Replicative superfamily II helicase [Replication, recombination and repair]
  6. XM_030254593.1XP_030110453.1  probable ATP-dependent DNA helicase HFM1 isoform X5

    Conserved Domains (1) summary
    COG1204
    Location:206912
    BRR2; Replicative superfamily II helicase [Replication, recombination and repair]
  7. XM_036165228.1XP_036021121.1  probable ATP-dependent DNA helicase HFM1 isoform X10

    Conserved Domains (2) summary
    COG1204
    Location:18539
    BRR2; Replicative superfamily II helicase [Replication, recombination and repair]
    pfam02889
    Location:345658
    Sec63; Sec63 Brl domain
  8. XM_030254598.1XP_030110458.1  probable ATP-dependent DNA helicase HFM1 isoform X10

    Conserved Domains (2) summary
    COG1204
    Location:18539
    BRR2; Replicative superfamily II helicase [Replication, recombination and repair]
    pfam02889
    Location:345658
    Sec63; Sec63 Brl domain
  9. XM_030254600.1XP_030110460.1  probable ATP-dependent DNA helicase HFM1 isoform X10

    Conserved Domains (2) summary
    COG1204
    Location:18539
    BRR2; Replicative superfamily II helicase [Replication, recombination and repair]
    pfam02889
    Location:345658
    Sec63; Sec63 Brl domain
  10. XM_036165227.1XP_036021120.1  probable ATP-dependent DNA helicase HFM1 isoform X10

    Conserved Domains (2) summary
    COG1204
    Location:18539
    BRR2; Replicative superfamily II helicase [Replication, recombination and repair]
    pfam02889
    Location:345658
    Sec63; Sec63 Brl domain
  11. XM_030254595.1XP_030110455.1  probable ATP-dependent DNA helicase HFM1 isoform X7

    Conserved Domains (1) summary
    COG1204
    Location:173879
    BRR2; Replicative superfamily II helicase [Replication, recombination and repair]
  12. XM_030254597.1XP_030110457.1  probable ATP-dependent DNA helicase HFM1 isoform X10

    Conserved Domains (2) summary
    COG1204
    Location:18539
    BRR2; Replicative superfamily II helicase [Replication, recombination and repair]
    pfam02889
    Location:345658
    Sec63; Sec63 Brl domain
  13. XM_030254594.1XP_030110454.1  probable ATP-dependent DNA helicase HFM1 isoform X6

    Conserved Domains (1) summary
    COG1204
    Location:198904
    BRR2; Replicative superfamily II helicase [Replication, recombination and repair]
  14. XM_006535015.1XP_006535078.1  probable ATP-dependent DNA helicase HFM1 isoform X1

    See identical proteins and their annotated locations for XP_006535078.1

    Conserved Domains (1) summary
    COG1204
    Location:263969
    BRR2; Replicative superfamily II helicase [Replication, recombination and repair]
  15. XM_030254599.1XP_030110459.1  probable ATP-dependent DNA helicase HFM1 isoform X10

    Conserved Domains (2) summary
    COG1204
    Location:18539
    BRR2; Replicative superfamily II helicase [Replication, recombination and repair]
    pfam02889
    Location:345658
    Sec63; Sec63 Brl domain

RNA

  1. XR_001784709.1 RNA Sequence

  2. XR_001784708.1 RNA Sequence

  3. XR_003955664.2 RNA Sequence

  4. XR_003955663.1 RNA Sequence

  5. XR_003955665.1 RNA Sequence

  6. XR_003955666.1 RNA Sequence

  7. XR_003955667.1 RNA Sequence

  8. XR_001784710.3 RNA Sequence