H1f7 (H1.7 linker histone) - Rat Genome Database

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Gene: H1f7 (H1.7 linker histone) Rattus norvegicus
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Symbol: H1f7
Name: H1.7 linker histone
RGD ID: 1560024
Description: Predicted to enable double-stranded DNA binding activity and nucleosomal DNA binding activity. Predicted to be involved in chromosome condensation; negative regulation of DNA recombination; and spermatid nucleus differentiation. Predicted to be located in chromatin and male germ cell nucleus. Predicted to be active in nucleus. Orthologous to human H1-7 (H1.7 linker histone); INTERACTS WITH bisphenol A; 2-palmitoylglycerol (ortholog); arsane (ortholog).
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: H1 histone family, member N, testis-specific; H1-7; H1fnt; haploid germ cell-specific nuclear protein 1; histone H1.7; histone H1t2; LOC500928; similar to RIKEN cDNA 1700026P10; testis-specific H1 histone
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Black Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr87131,287,569 - 131,288,936 (-)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl7131,286,654 - 131,289,110 (-)EnsemblGRCr8
mRatBN7.27129,408,521 - 129,409,888 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl7129,408,359 - 129,409,930 (-)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx7131,213,591 - 131,214,958 (-)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.07133,439,117 - 133,440,484 (-)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.07133,351,612 - 133,352,979 (-)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.07139,871,491 - 139,872,858 (-)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl7139,871,479 - 139,872,900 (-)Ensemblrn6Rnor6.0
Rnor_5.07139,015,809 - 139,017,176 (-)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.47136,995,394 - 136,996,761 (-)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera7125,899,914 - 125,901,281 (-)NCBICelera
Cytogenetic Map7q36NCBI
JBrowse:




Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component
chromatin  (ISO,ISS)
chromosome  (IEA)
nucleus  (IBA,IEA)

Molecular Function

References

References - curated
# Reference Title Reference Citation
1. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
2. GOA pipeline RGD automated data pipeline
3. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
4. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. Strausberg RL, etal., Proc Natl Acad Sci U S A. 2002 Dec 24;99(26):16899-903. Epub 2002 Dec 11.
Additional References at PubMed
PMID:15710904   PMID:16765935   PMID:17261847   PMID:21630459   PMID:25675407   PMID:33407810  


Genomics

Comparative Map Data
H1f7
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr87131,287,569 - 131,288,936 (-)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl7131,286,654 - 131,289,110 (-)EnsemblGRCr8
mRatBN7.27129,408,521 - 129,409,888 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl7129,408,359 - 129,409,930 (-)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx7131,213,591 - 131,214,958 (-)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.07133,439,117 - 133,440,484 (-)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.07133,351,612 - 133,352,979 (-)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.07139,871,491 - 139,872,858 (-)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl7139,871,479 - 139,872,900 (-)Ensemblrn6Rnor6.0
Rnor_5.07139,015,809 - 139,017,176 (-)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.47136,995,394 - 136,996,761 (-)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera7125,899,914 - 125,901,281 (-)NCBICelera
Cytogenetic Map7q36NCBI
H1-7
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381248,328,980 - 48,330,279 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1248,328,980 - 48,330,279 (+)Ensemblhg38GRCh38
GRCh371248,722,763 - 48,724,062 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361247,009,030 - 47,010,329 (+)NCBIBuild 36Build 36hg18NCBI36
Celera1247,520,294 - 47,521,593 (+)NCBICelera
Cytogenetic Map12q13.11NCBI
HuRef1245,755,928 - 45,757,227 (+)NCBIHuRef
CHM1_11248,688,136 - 48,689,435 (+)NCBICHM1_1
T2T-CHM13v2.01248,290,314 - 48,291,613 (+)NCBIT2T-CHM13v2.0
H1f7
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391598,153,863 - 98,155,188 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1598,153,867 - 98,155,174 (-)EnsemblGRCm39 EnsemblGRCm39
GRCm381598,255,982 - 98,257,307 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1598,255,986 - 98,257,293 (-)Ensemblmm10GRCm38
MGSCv371598,086,413 - 98,087,738 (-)NCBIMGSCv37MGSCv37mm9NCBIm37
MGSCv361598,084,016 - 98,085,313 (-)NCBIMGSCv36mm8
Celera15100,387,598 - 100,388,923 (-)NCBICelera
Cytogenetic Map15F1NCBI
cM Map1554.26NCBI
LOC106146871
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0NW_0049555007,329,361 - 7,329,842 (-)NCBIChiLan1.0ChiLan1.0
LOC117975443
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21045,677,304 - 45,861,164 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11245,672,412 - 45,857,925 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01240,244,979 - 40,262,470 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11241,280,957 - 41,282,281 (-)NCBIPanPan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1241,281,177 - 41,281,944 (-)EnsemblpanPan2panpan1.1
PanPan1.1 Ensembl1241,281,177 - 41,281,944 (-)NCBIpanPan2panpan1.1
H1-7
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1276,389,797 - 6,396,021 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl276,389,908 - 6,391,174 (-)EnsemblcanFam3CanFam3.1
Dog10K_Boxer_Tasha2739,881,927 - 39,888,151 (+)NCBIDog10K_Boxer_TashaDog10K_Boxer_Tasha
ROS_Cfam_1.0276,457,201 - 6,463,429 (-)NCBIROS_Cfam_1.0ROS_Cfam_1.0
UMICH_Zoey_3.1276,393,405 - 6,399,629 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0276,429,260 - 6,435,485 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.02740,200,972 - 40,207,197 (+)NCBIUU_Cfam_GSD_1.0UU_Cfam_GSD_1.0
LOC101974551
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440494566,964,013 - 66,964,967 (-)NCBIHiC_Itri_2
SpeTri2.0NW_0049365126,199,894 - 6,200,786 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
H1-7
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl578,698,577 - 78,700,109 (+)EnsemblsusScr11Sscrofa11.1
Sscrofa11.1578,699,291 - 78,700,227 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2581,891,927 - 81,892,942 (+)NCBISscrofa10.2Sscrofa10.2susScr3
H1-7
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11144,557,985 - 44,559,218 (+)NCBIChlSab1.1ChlSab1.1chlSab2
Vero_WHO_p1.0NW_023666037201,608,799 - 201,610,031 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
LOC101702847
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_0046248163,931,613 - 3,932,549 (-)NCBIHetGla 1.0HetGla 1.0hetGla2
LOC116890232
(Rattus rattus - black rat)
Black Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rrattus_CSIRO_v11271,085,553 - 271,086,881 (-)NCBIRrattus_CSIRO_v1

Variants

.
Variants in H1f7
4 total Variants
miRNA Target Status (No longer updated)

Predicted Target Of
Summary Value
Count of predictions:45
Count of miRNA genes:40
Interacting mature miRNAs:44
Transcripts:ENSRNOT00000046402
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 (GRCr8)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
631529Tls2T-lymphoma susceptibility QTL 200.001thymus integrity trait (VT:0010555)percentage of study population developing T-cell lymphomas during a period of time (CMO:0001911)782111382132099989Rat
1354582Stl11Serum triglyceride level QTL 113.42blood triglyceride amount (VT:0002644)serum triglyceride level (CMO:0000360)7121393075137014596Rat
731176Glom5Glomerulus QTL 52.50.0035kidney glomerulus morphology trait (VT:0005325)count of superficial glomeruli not directly contacting the kidney surface (CMO:0001002)798549867137014596Rat
1300112Bp183Blood pressure QTL 1833.51arterial blood pressure trait (VT:2000000)blood pressure time series experimental set point of the baroreceptor response (CMO:0002593)7119280025135560836Rat
1331731Bp216Blood pressure QTL 2162.851arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)7104186212135371468Rat
631687Hcas1Hepatocarcinoma susceptibility QTL 13.90.001liver integrity trait (VT:0010547)liver tumorous lesion volume to total liver volume ratio (CMO:0001082)793302009131686183Rat
1331748Bp215Blood pressure QTL 2154.043arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)7110725024135371468Rat
61428Scl3Serum cholesterol level QTL 33.2blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)7100548246137014596Rat
61397Bw17Body weight QTL 176.3body mass (VT:0001259)body weight (CMO:0000012)795485047137014596Rat
1331746Kidm9Kidney mass QTL 93.934kidney mass (VT:0002707)right kidney wet weight (CMO:0000082)782111245134948181Rat
1358914Bp266Blood pressure QTL 266arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)7115313999136544683Rat
2299163Iddm34Insulin dependent diabetes mellitus QTL 342.71blood glucose amount (VT:0000188)age at onset/diagnosis of type 1 diabetes mellitus (CMO:0001140)7116269196132020414Rat
1549899Stresp8Stress response QTL 84.370.0008stress-related behavior trait (VT:0010451)defensive burying duration (CMO:0001961)792362341137014596Rat
1358891Bp265Blood pressure QTL 2652.21arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)771827901136544683Rat


Expression

RNA-SEQ Expression

appendage
circulatory system
ectoderm
endocrine system
endoderm
exocrine system
hemolymphoid system
hepatobiliary system
mesenchyme
mesoderm
nervous system
renal system
reproductive system
respiratory system
6 2 18 17 18 10 7 10 33 13 16 5 20 8

Sequence


Ensembl Acc Id: ENSRNOT00000046402   ⟹   ENSRNOP00000046187
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl7131,286,654 - 131,289,110 (-)Ensembl
mRatBN7.2 Ensembl7129,408,359 - 129,409,930 (-)Ensembl
Rnor_6.0 Ensembl7139,871,479 - 139,872,900 (-)Ensembl
RefSeq Acc Id: NM_001024356   ⟹   NP_001019527
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr87131,287,569 - 131,288,936 (-)NCBI
mRatBN7.27129,408,521 - 129,409,888 (-)NCBI
Rnor_6.07139,871,491 - 139,872,858 (-)NCBI
Rnor_5.07139,015,809 - 139,017,176 (-)NCBI
RGSC_v3.47136,995,394 - 136,996,761 (-)RGD
Celera7125,899,914 - 125,901,281 (-)RGD
Sequence:
Protein Sequences
Protein RefSeqs NP_001019527 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAH85950 (Get FASTA)   NCBI Sequence Viewer  
  EDL87074 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000046187.3
GenBank Protein Q5RKG3 (Get FASTA)   NCBI Sequence Viewer  
RefSeq Acc Id: NP_001019527   ⟸   NM_001024356
- UniProtKB: Q5RKG3 (UniProtKB/Swiss-Prot),   A6KC68 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000046187   ⟸   ENSRNOT00000046402

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q5RKG3-F1-model_v2 AlphaFold Q5RKG3 1-418 view protein structure

Transcriptome

eQTL   View at Phenogen
WGCNA   View at Phenogen
Tissue/Strain Expression   View at Phenogen

Promoters
RGD ID:13695623
Promoter ID:EPDNEW_R6148
Type:multiple initiation site
Name:H1fnt_1
Description:H1 histone family, member N, testis-specific
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.07139,872,875 - 139,872,935EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1560024 AgrOrtholog
BioCyc Gene G2FUF-32148 BioCyc
Ensembl Genes ENSRNOG00000029545 Ensembl, UniProtKB/Swiss-Prot
Ensembl Transcript ENSRNOT00000046402.5 UniProtKB/Swiss-Prot
IMAGE_CLONE IMAGE:7132484 IMAGE-MGC_LOAD
KEGG Report rno:500928 UniProtKB/Swiss-Prot
MGC_CLONE MGC:95218 IMAGE-MGC_LOAD
NCBI Gene 500928 ENTREZGENE
PANTHER SERINE/ARGININE REPETITIVE MATRIX PROTEIN 5 UniProtKB/Swiss-Prot
  SERINE/ARGININE REPETITIVE MATRIX PROTEIN 5-RELATED UniProtKB/Swiss-Prot
PhenoGen H1f7 PhenoGen
RatGTEx ENSRNOG00000029545 RatGTEx
UniProt A6KC68 ENTREZGENE, UniProtKB/TrEMBL
  H1FNT_RAT UniProtKB/Swiss-Prot, ENTREZGENE


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2019-08-06 H1f7  H1.7 linker histone  H1fnt  H1 histone family, member N, testis-specific  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-03-05 H1fnt  H1 histone family, member N, testis-specific  LOC500928  similar to RIKEN cDNA 1700026P10  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2006-02-09 LOC500928  similar to RIKEN cDNA 1700026P10      Symbol and Name status set to provisional 70820 PROVISIONAL