H3f5 (H3.5 histone) - Rat Genome Database

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Gene: H3f5 (H3.5 histone) Mus musculus
Analyze
No known orthologs.
Symbol: H3f5 (Ensembl: Gm12657)
Name: H3.5 histone (Ensembl:predicted gene 12657)
RGD ID: 2295953
MGI Page MGI
Description: Predicted to enable nucleosomal DNA binding activity. Predicted to be involved in positive regulation of cell growth. Predicted to be located in nucleoplasm. Predicted to be part of euchromatin. Orthologous to human H3-5 (H3.5 histone); PARTICIPATES IN systemic lupus erythematosus pathway; .
Type: protein-coding (Ensembl: processed_pseudogene)
RefSeq Status: PREDICTED
Previously known as: Gm12657; H3mm12; histone H3-like; uncharacterized protein LOC667250
RGD Orthologs
Alliance Genes
More Info homologs ...
Latest Assembly: GRCm39 - Mouse Genome Assembly GRCm39
Position:
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39494,481,887 - 94,488,556 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl494,487,622 - 94,488,032 (+)EnsemblGRCm39 Ensembl
GRCm38494,593,650 - 94,600,319 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl494,599,385 - 94,599,795 (+)EnsemblGRCm38mm10GRCm38
MGSCv37494,260,341 - 94,267,010 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36494,085,668 - 94,092,337 (+)NCBIMGSCv36mm8
Celera493,002,925 - 93,009,532 (+)NCBICelera
Cytogenetic Map4C5NCBI
cM Map443.34NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component
euchromatin  (ISO)
nucleoplasm  (ISO)

Molecular Function

Molecular Pathway Annotations     Click to see Annotation Detail View
References

References - curated
# Reference Title Reference Citation
1. KEGG Annotation Import Pipeline Pipeline to import KEGG annotations from KEGG into RGD
2. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:26388943  


Genomics

Variants

.
Variants in H3f5
313 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:110
Count of miRNA genes:97
Interacting mature miRNAs:105
Transcripts:ENSMUST00000073990, ENSMUST00000119560
Prediction methods:Miranda, Rnahybrid, Targetscan
Result types:miRGate_prediction

The detailed report is available here: Full Report CSV TAB Printer

miRNA Target Status data imported from miRGate (http://mirgate.bioinfo.cnio.es/).
For more information about miRGate, see PMID:25858286 or access the full paper here.


QTLs in Region (GRCm39)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
11567249Elorr3_methanol induced loss of righting response 3 (mouse)43722677156268235Mouse
4142047Mvwf3_mmodifier of von Willebrand factor 3 (mouse)Not determined14010457117072206Mouse
26884449Sklq2_mskull length QTL 2, 5 week (mouse)436700000128993793Mouse
27226724Tibw2_mtibia width 2, proximal, 10 week (mouse)443000000108357197Mouse
1558948Ath8_matherosclerosis 8 (mouse)Not determined445658442105156995Mouse
1357895Ctrcts_mcataract severity (mouse)Not determined445709925138342753Mouse
1300966Pabr2_mplasma apolipoprotein B (human) regulator 2 (mouse)Not determined446332646105801860Mouse
11532714Sluc43_msusceptibility to lung cancer 43 (mouse)446642108123127211Mouse
4141900Skts-fp1_mskin tumor susceptibility in FVB and PWK 1 (mouse)Not determined453550839124055180Mouse
26884434Zlq1_mzygomatic length QTL 1, 5 week (mouse)453700000103257197Mouse
27095905Scvln3_msacral vertebrae length 2, 5 week (mouse)455600000128993793Mouse
27095934Ulnl2_mulna length 2, 5 week (mouse)45770000094788237Mouse
26884437Sklq13_mskull length QTL 13, 16 week (mouse)457700000155684457Mouse
1357870Pfat1_mpredicted fat percentage 1 (mouse)Not determined46361952697619685Mouse
12879903Berr8_mberghei resistance locus 8 (mouse)46422246098222460Mouse
27095939Ulnl9_mulna length 9, 16 week (mouse)465318237118857197Mouse
13506251Cytrq1_mcytokine response QTL 1 (mouse)46571808699718086Mouse
25314312Syncl2_msynaptonemal complex length 2 (mouse)465718237146584457Mouse
12880404Embq1_memotional behavior QTL 1 (mouse)46575720395921546Mouse
27095938Ulnl6_mulna length 6, 10 week (mouse)46671823798588237Mouse
1301757Tlsr4_mthymic lymphoma suppressor region 4 (mouse)Not determined466757130100757258Mouse
1357561Mbsyd_mmetabolic syndrome (mouse)Not determined466888445100888588Mouse
27095900Scvln9_msacral vertebrae length 2, 10 week (mouse)468018237107157197Mouse
27095917Scvln14_msacral vertebrae length 2, 16 week (mouse)468018237130277062Mouse
26884445Sklq7_mskull length QTL 7, 10 week (mouse)468018237150884457Mouse
27095924Pglq2_mpelvic girdle length QTL 2, 5 week (mouse)469118237130727311Mouse
1302057Pgia27_mproteoglycan induced arthritis 27 (mouse)Not determined470067227104067464Mouse
12879897Berr4_mberghei resistance locus 4 (mouse)471982069105982216Mouse
1302044Nss1_mNOD Sjogren's syndrome 1 (mouse)Not determined471982069105982216Mouse
1301739Pitm2_mprion incubation time 2 (mouse)Not determined471982069105982216Mouse
1302031Bulb1_mbulb size 1 (mouse)Not determined474033887108034029Mouse
1301597Anxty_manxiety (mouse)Not determined474137574128009280Mouse
10412193Plep_mplasma lepin levels (mouse)Not determined474444699108444983Mouse
11532700Sluc43d_msusceptibility to lung cancer 43d (mouse)474444699108444983Mouse
11532701Sluc43e_msusceptibility to lung cancer 43e (mouse)474444699108444983Mouse
11532702Sluc43f_msusceptibility to lung cancer 43f (mouse)474444699108444983Mouse
11532703Sluc43g_msusceptibility to lung cancer 43g (mouse)474444699108444983Mouse
11532704Sluc43a_msusceptibility to lung cancer 43a (mouse)474444699108444983Mouse
11532705Sluc43b_msusceptibility to lung cancer 43b (mouse)474444699108444983Mouse
11532706Sluc43c_msusceptibility to lung cancer 43c (mouse)474444699108444983Mouse
11532707Sluc43h_msusceptibility to lung cancer 43h (mouse)474444699108444983Mouse
11532708Sluc43i_msusceptibility to lung cancer 43i (mouse)474444699108444983Mouse
26884431Zlq8_mzygomatic length QTL 8, 16 week (mouse)474718237108357197Mouse
26884406Huml3_mhumerus length 3, 10 week (mouse)475618237100157197Mouse
1301545Gauc_mglucose area under curve (mouse)Not determined476763107110763305Mouse
1300697Sle2_msystemic lupus erythmatosus susceptibility 2 (mouse)Not determined477957579111957775Mouse
11039504Ltpr4a_mLeishmania tropica response 4a (mouse)479365751113365867Mouse
11039505Ltpr4c_mLeishmania tropica response 4c (mouse)479365751113365867Mouse
11039506Ltpr4b_mLeishmania tropica response 4b (mouse)479365751113365867Mouse
11039517Ltpr4_mLeishmania tropica response 4 (mouse)479365751113365867Mouse
12904933Edlmmq3_mextensor digitorum longus muscle mass QTL 3 (mouse)481213991115213991Mouse
1302204Spm1_msplenomegaly modifier (mouse)Not determined482244395116244582Mouse
27095921Pglq12_mpelvic girdle length QTL 12, 16 week (mouse)483118237108357197Mouse
1301867Idd11_minsulin dependent diabetes susceptibility 11 (mouse)Not determined483604870117605006Mouse
27226787Feml14_mfemur length 14, 10 week (mouse)484918237107157197Mouse
26884435Zlq4_mzygomatic length QTL 4, 10 week (mouse)485118237104957197Mouse
1357726Lnopy1_mlens opacity 1 (mouse)Not determined485428838119429037Mouse
1301556Cd4vts1_mCD4 virgin T cell subset 1 (mouse)Not determined485428838119429037Mouse
1301930Papg1_mpulmonary adenoma progression 1 (mouse)Not determined485781167119781279Mouse
1301118Bbaa23_mB.burgdorferi-associated arthritis 23 (mouse)Not determined485781167119781279Mouse
27226801Feml6_mfemur length 6, 5 week (mouse)487518237103257197Mouse
27226746Metcl8_mmetatarsal-calcaneal length 8, 10 week (mouse)487518237107157197Mouse
27226739Metcl14_mmetatarsal-calcaneal length 14, 16 week (mouse)487518237108357197Mouse
27095927Pglq7_mpelvic girdle length QTL 7, 10 week (mouse)488118237108357197Mouse
27226716Metcl2_mmetatarsal-calcaneal length 2, 5 week (mouse)488118237118557197Mouse
27226770Tibl11_mtibia length 11, 10 week (mouse)488518237108357197Mouse
27226766Tibl17_mtibia length 17, 16 week (mouse)488518237108457197Mouse
1300601Tlsr1_mthymic lymphoma suppressor region 1 (mouse)Not determined48860115894957775Mouse
11532738Abd1_mautoimmune biliary disease 1 (mouse)488982069116271120Mouse
4141623W6q13_mweight 6 weeks QTL 13 (mouse)Not determined88982069140468203Mouse
4141549W10q10_mweight 10 weeks QTL 10 (mouse)Not determined88982069140468203Mouse
4141093W3q17_mweight 3 weeks QTL 17 (mouse)Not determined88982069140468203Mouse
39128212Lwq21_mliver weight QTL 21 (mouse)488982069140468203Mouse
1301823Bmd7_mbone mineral density 7 (mouse)Not determined488982069151654550Mouse
13824979Epid1_mepididymis and vas deferens weight 1 (mouse)48988823799857197Mouse
13824982Svwq1_mseminal vesicle weight QTL 1 (mouse)489888237118857197Mouse
1300918Stheal4_msoft tissue heal 4 (mouse)Not determined489969627123969747Mouse
11553870Cmmm_mcarcinoma modifier of MSM (mouse)490590668124590781Mouse
15039368Nmrs19_mNAFLD-associated magnetic resonance shift 19 (mouse)490882780124882780Mouse
27226760Feml19_mfemur length 19, 16 week (mouse)490888237108457197Mouse
27226782Tibl2_mtibia length 2, 5 week (mouse)490888237111257197Mouse
13208562Wght7_mweight 7 (mouse)490888237148084457Mouse
12904002Opfaq9_mopen field activity QTL 9 (mouse)492975790126975790Mouse

Markers in Region
H3f3a  
Mouse AssemblyChrPosition (strand)SourceJBrowse
Cytogenetic Map12D2UniSTS
Cytogenetic Map2E5UniSTS
Cytogenetic Map13D1UniSTS
Cytogenetic Map1D2.3UniSTS
Cytogenetic Map6E2UniSTS
Cytogenetic Map4C5UniSTS
Cytogenetic Map11B2UniSTS
cM Map1 UniSTS
cM Map13 UniSTS


Expression


Sequence


Reference Sequences
RefSeq Acc Id: ENSMUST00000119560
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl494,487,622 - 94,488,032 (+)Ensembl
GRCm38.p6 Ensembl494,599,385 - 94,599,795 (+)Ensembl
RefSeq Acc Id: NM_001081019   ⟹   NP_001074488
RefSeq Status: PREDICTED
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39494,481,887 - 94,488,556 (+)NCBI
GRCm38494,593,650 - 94,600,319 (+)ENTREZGENE
MGSCv37494,260,341 - 94,267,010 (+)RGD
Celera493,002,925 - 93,009,532 (+)RGD
cM Map4 ENTREZGENE
Sequence:
Protein Sequences
Protein RefSeqs NP_001074488 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein EDL30939 (Get FASTA)   NCBI Sequence Viewer  
Reference Protein Sequences
RefSeq Acc Id: NP_001074488   ⟸   NM_001081019
- UniProtKB: A1L0V4 (UniProtKB/TrEMBL)
- Sequence:
Protein Domains
Histone H2A/H2B/H3


Additional Information

Database Acc Id Source(s)
AGR Gene MGI:3651714 AgrOrtholog
Ensembl Genes ENSMUSG00000063314 Ensembl
Gene3D-CATH Histone, subunit A UniProtKB/TrEMBL
InterPro Histone-fold UniProtKB/TrEMBL
  Histone_H2A/H2B/H3 UniProtKB/TrEMBL
  Histone_H3/CENP-A UniProtKB/TrEMBL
MGD MGI:3651714 ENTREZGENE
NCBI Gene 667250 ENTREZGENE
PANTHER HISTONE H3 UniProtKB/TrEMBL
  HISTONE H3.1 UniProtKB/TrEMBL
Pfam Histone UniProtKB/TrEMBL
PhenoGen H3f5 PhenoGen
PRINTS HISTONEH3 UniProtKB/TrEMBL
PROSITE HISTONE_H3_1 UniProtKB/TrEMBL
  HISTONE_H3_2 UniProtKB/TrEMBL
SMART SM00428 UniProtKB/TrEMBL
Superfamily-SCOP Histone-fold UniProtKB/TrEMBL
UniProt A1L0V4 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2023-06-05 H3f5  H3.5 histone  Gm12657  predicted gene 12657  Symbol and/or name updated 27372883 PROVISIONAL