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

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Gene: H1f7 (H1.7 linker histone) Rattus norvegicus
Analyze
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 male germ cell nucleus. Predicted to be part of chromatin. 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
Alliance Orthologs
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr87131,287,569 - 131,288,936 (-)NCBIGRCr8
mRatBN7.27129,408,521 - 129,409,888 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl7129,408,359 - 129,409,930 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx7131,213,591 - 131,214,958 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.07133,439,117 - 133,440,484 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.07133,351,612 - 133,352,979 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.07139,871,491 - 139,872,858 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl7139,871,479 - 139,872,900 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.07139,015,809 - 139,017,176 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.47136,995,394 - 136,996,761 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera7125,899,914 - 125,901,281 (-)NCBICelera
Cytogenetic Map7q36NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


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)
male germ cell nucleus  (ISO)
nucleus  (IBA,ISO)

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 (-)NCBIGRCr8
mRatBN7.27129,408,521 - 129,409,888 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl7129,408,359 - 129,409,930 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx7131,213,591 - 131,214,958 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.07133,439,117 - 133,440,484 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.07133,351,612 - 133,352,979 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.07139,871,491 - 139,872,858 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl7139,871,479 - 139,872,900 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.07139,015,809 - 139,017,176 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.47136,995,394 - 136,996,761 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
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 (+)EnsemblGRCh38hg38GRCh38
GRCh371248,722,763 - 48,724,062 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361247,009,030 - 47,010,329 (+)NCBINCBI36Build 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 Ensembl
GRCm381598,255,982 - 98,257,307 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1598,255,986 - 98,257,293 (-)EnsemblGRCm38mm10GRCm38
MGSCv371598,086,413 - 98,087,738 (-)NCBIGRCm37MGSCv37mm9NCBIm37
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 (-)Ensemblpanpan1.1panPan2
PanPan1.1 Ensembl1241,281,177 - 41,281,944 (-)NCBIpanpan1.1panPan2
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 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha2739,881,927 - 39,888,151 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0276,457,201 - 6,463,429 (-)NCBIROS_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_1.0
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 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1578,699,291 - 78,700,227 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2581,891,927 - 81,892,942 (+)NCBISscrofa10.2Sscrofa10.2susScr3
LOC103238227
(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_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in H1f7
3 total Variants
miRNA Target Status

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 (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1300179Kidm5Kidney mass QTL 53.51kidney mass (VT:0002707)left kidney wet weight (CMO:0000083)743747012135012528Rat
70173Niddm19Non-insulin dependent diabetes mellitus QTL 194.330.00005blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)764002457135012528Rat
634331Pia17Pristane induced arthritis QTL 174.7joint integrity trait (VT:0010548)arthritic paw count (CMO:0001460)773829340130221005Rat
1358891Bp265Blood pressure QTL 2652.21arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)783591953134666232Rat
1358914Bp266Blood pressure QTL 266arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)783591953134666232Rat
1558655Swd4Spike wave discharge measurement QTL 43.680.0002brain electrophysiology trait (VT:0010557)brain spike-and-wave discharge severity grade (CMO:0001988)786983365131983365Rat
1549899Stresp8Stress response QTL 84.370.0008stress-related behavior trait (VT:0010451)defensive burying duration (CMO:0001961)790482196135012528Rat
2299163Iddm34Insulin dependent diabetes mellitus QTL 342.71blood glucose amount (VT:0000188)age at onset/diagnosis of type 1 diabetes mellitus (CMO:0001140)791281130135012528Rat
631687Hcas1Hepatocarcinoma susceptibility QTL 13.90.001liver integrity trait (VT:0010547)liver tumorous lesion volume to total liver volume ratio (CMO:0001082)791412594129807172Rat
731176Glom5Glomerulus QTL 52.50.0035kidney glomerulus morphology trait (VT:0005325)count of superficial glomeruli not directly contacting the kidney surface (CMO:0001002)796670164135012528Rat
1331731Bp216Blood pressure QTL 2162.851arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)7102297359133492884Rat
731174Uae23Urinary albumin excretion QTL 232.40.0042urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)7104603555135012528Rat
2306821Bp335Blood pressure QTL 3350.001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)7106571501135012528Rat
631663Bw6Body weight QTL 63.4body mass (VT:0001259)body weight (CMO:0000012)7111075573134976056Rat
1300112Bp183Blood pressure QTL 1833.51arterial blood pressure trait (VT:2000000)blood pressure time series experimental set point of the baroreceptor response (CMO:0002593)7111182207135012528Rat
1331748Bp215Blood pressure QTL 2154.043arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)7112308254133492884Rat
1357339Stl14Serum triglyceride level QTL 143.450.0001blood triglyceride amount (VT:0002644)serum triglyceride level (CMO:0000360)7112729683133492707Rat
1354582Stl11Serum triglyceride level QTL 113.42blood triglyceride amount (VT:0002644)serum triglyceride level (CMO:0000360)7119513385135012528Rat


Expression


RNA-SEQ Expression
High: > 1000 TPM value   Medium: Between 11 and 1000 TPM
Low: Between 0.5 and 10 TPM   Below Cutoff: < 0.5 TPM

circulatory system endocrine system exocrine system hemolymphoid system hepatobiliary system integumental system musculoskeletal system nervous system renal system reproductive system respiratory system appendage
High
Medium 7
Low 2 2 1 1 2
Below cutoff 1 12 7 7 7 3 4 7 3 3 3

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000046402   ⟹   ENSRNOP00000046187
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
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
  ENSRNOP00000046187.3
  ENSRNOP00055017644
  ENSRNOP00060013195
  ENSRNOP00065034353
GenBank Protein Q5RKG3 (Get FASTA)   NCBI Sequence Viewer  
Reference Protein Sequences
RefSeq Acc Id: NP_001019527   ⟸   NM_001024356
- UniProtKB: Q5RKG3 (UniProtKB/Swiss-Prot),   A6KC68 (UniProtKB/TrEMBL)
- Sequence:
RefSeq 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, ENTREZGENE, UniProtKB/Swiss-Prot
  ENSRNOG00055012733 UniProtKB/Swiss-Prot
  ENSRNOG00060010002 UniProtKB/Swiss-Prot
  ENSRNOG00065024510 UniProtKB/Swiss-Prot
Ensembl Transcript ENSRNOT00000046402 ENTREZGENE
  ENSRNOT00000046402.5 UniProtKB/Swiss-Prot
  ENSRNOT00055021759 UniProtKB/Swiss-Prot
  ENSRNOT00060016898 UniProtKB/Swiss-Prot
  ENSRNOT00065042019 UniProtKB/Swiss-Prot
IMAGE_CLONE IMAGE:7132484 IMAGE-MGC_LOAD
KEGG Report rno:500928 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
MGC_CLONE MGC:95218 IMAGE-MGC_LOAD
NCBI Gene 500928 ENTREZGENE
PANTHER SERINE/ARGININE REPETITIVE MATRIX PROTEIN 5 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SERINE/ARGININE REPETITIVE MATRIX PROTEIN 5-RELATED UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen H1f7 PhenoGen
RatGTEx ENSRNOG00000029545 RatGTEx
  ENSRNOG00055012733 RatGTEx
  ENSRNOG00060010002 RatGTEx
  ENSRNOG00065024510 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