Hbp1 (HMG-box transcription factor 1) - Rat Genome Database

Send us a Message
Submit Data |  Help |  Video Tutorials |  News |  Publications |  Download |  REST API |  Citing RGD |  Contact   
Search RGD Grant Resources Citing RGD About Us Contact Us
Genes Variants Community Projects QTLs Strains Markers Genome Information Ontologies Cell Lines References Download Submit Data
OntoMate (Literature Search) JBrowse (Genome Browser) Synteny Browser (VCMap) Variant Visualizer Multi-Ontology Enrichment (MOET) Gene-Ortholog Location Finder (GOLF) InterViewer (Protein-Protein Interactions) PhenoMiner (Quatitative Phenotypes) Gene Annotator OLGA (Gene List Generator) AllianceMine GViewer (Genome Viewer)
Aging & Age-Related Disease Behavioral & Substance Use Disorder Cancer & Neoplastic Disease Cardiovascular Disease Coronavirus Disease Developmental Disease Diabetes Hematologic Disease Immune & Inflammatory Disease Infectious Disease Liver Disease Neurological Disease Obesity & Metabolic Syndrome Renal Disease Respiratory Disease Sensory Organ Disease
Find Models Genetic Models Autism Models Rat PhenoMiner (Quantitative Phenotypes) Chinchilla PhenoMiner Expected Ranges (Quantitative Phenotype) PhenoMiner Term Comparison Hybrid Rat Diversity Panel Phenotypes Phenotypes in Other Animal Models Animal Husbandry Strain Medical Records Phylogenetics Strain Availability Calendar Rats 101 Submissions Photo Archive
Pathways
Rat Community Forum Directory of Rat Laboratories Video Tutorials News RGD Publications RGD Presentations Archive Nomenclature Guidelines Resource Links Laboratory Resources Employment Resources
Advanced Search (OLGA)
Gene: Hbp1 (HMG-box transcription factor 1) Rattus norvegicus
Analyze
Symbol: Hbp1
Name: HMG-box transcription factor 1
RGD ID: 620444
Description: Enables DNA-binding transcription repressor activity, RNA polymerase II-specific and RNA polymerase II cis-regulatory region sequence-specific DNA binding activity. Involved in negative regulation of transcription by RNA polymerase II and positive regulation of potassium ion transport. Predicted to be active in nucleus. Orthologous to human HBP1 (HMG-box transcription factor 1); INTERACTS WITH 1,2,4-trimethylbenzene; 17alpha-ethynylestradiol; 3H-1,2-dithiole-3-thione.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: high mobility group box transcription factor 1; high mobility group protein 1; HMG box transcription factor 1; HMG box-containing protein 1; HMG-box containing protein 1; Hmgb1
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
GRCr8654,257,118 - 54,283,373 (-)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl654,256,864 - 54,283,366 (-)EnsemblGRCr8
mRatBN7.2648,529,633 - 48,555,775 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl648,529,372 - 48,555,787 (-)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx648,837,793 - 48,863,970 (-)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0649,152,718 - 49,178,887 (-)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0648,598,406 - 48,624,925 (-)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0651,231,479 - 51,257,699 (-)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl651,231,480 - 51,257,625 (-)Ensemblrn6Rnor6.0
Rnor_5.0659,902,128 - 59,929,303 (-)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.4650,201,281 - 50,227,095 (-)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera647,731,479 - 47,757,413 (-)NCBICelera
RGSC_v3.1650,204,414 - 50,230,207 (-)NCBI
Cytogenetic Map6q16NCBI
JBrowse:




Disease Annotations     Click to see Annotation Detail View
COVID-19  (ISO)
osteoarthritis  (ISO)

Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(+)-catechin  (ISO)
(-)-demecolcine  (ISO)
(1->4)-beta-D-glucan  (ISO)
1,2,4-trimethylbenzene  (EXP)
1,2-dimethylhydrazine  (ISO)
14-Deoxy-11,12-didehydroandrographolide  (ISO)
17alpha-ethynylestradiol  (EXP,ISO)
17beta-estradiol  (ISO)
2,2',4,4',5,5'-hexachlorobiphenyl  (ISO)
2,2',4,4'-Tetrabromodiphenyl ether  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (ISO)
2-hydroxypropanoic acid  (ISO)
3-isobutyl-1-methyl-7H-xanthine  (ISO)
3H-1,2-dithiole-3-thione  (EXP)
4,4'-diaminodiphenylmethane  (ISO)
4,4'-sulfonyldiphenol  (ISO)
4-hydroxynon-2-enal  (ISO)
aflatoxin B1  (ISO)
all-trans-retinoic acid  (ISO)
ammonium chloride  (EXP)
Aroclor 1254  (ISO)
arsane  (ISO)
arsenic atom  (ISO)
arsenite(3-)  (ISO)
arsenous acid  (ISO)
benzo[a]pyrene  (ISO)
benzo[a]pyrene diol epoxide I  (ISO)
beta-lapachone  (ISO)
bisphenol A  (EXP,ISO)
bisphenol F  (ISO)
Butylbenzyl phthalate  (ISO)
calcitriol  (ISO)
cannabidiol  (ISO)
carbon nanotube  (ISO)
choline  (ISO)
cisplatin  (ISO)
cobalt dichloride  (ISO)
copper(II) sulfate  (ISO)
coumestrol  (ISO)
CU-O LINKAGE  (ISO)
cyclosporin A  (ISO)
DDE  (ISO)
dexamethasone  (ISO)
diarsenic trioxide  (ISO)
Dibutyl phosphate  (ISO)
dibutyl phthalate  (EXP,ISO)
dicrotophos  (ISO)
Didecyldimethylammonium  (ISO)
doxorubicin  (ISO)
ethanol  (ISO)
ethyl methanesulfonate  (ISO)
etoposide  (ISO)
fenthion  (ISO)
folic acid  (ISO)
formaldehyde  (ISO)
FR900359  (ISO)
fulvestrant  (ISO)
gallic acid  (ISO)
genistein  (ISO)
gentamycin  (EXP)
geraniol  (ISO)
GSK-J4  (ISO)
hexadecanoic acid  (ISO)
hydrogen peroxide  (ISO)
hydroquinone  (ISO)
hydroxyurea  (ISO)
indometacin  (ISO)
L-methionine  (ISO)
leflunomide  (ISO)
manganese atom  (ISO)
manganese(0)  (ISO)
manganese(II) chloride  (ISO)
menadione  (ISO)
methyl methanesulfonate  (ISO)
methylphenidate  (ISO)
mitomycin C  (ISO)
motexafin gadolinium  (ISO)
N-methylformamide  (ISO)
nickel atom  (ISO)
niclosamide  (ISO)
paracetamol  (EXP,ISO)
perfluorooctane-1-sulfonic acid  (ISO)
pirinixic acid  (ISO)
progesterone  (ISO)
pyrvinium  (ISO)
quercetin  (ISO)
rac-lactic acid  (ISO)
raloxifene  (ISO)
rotenone  (ISO)
silicon dioxide  (ISO)
silver atom  (ISO)
silver(0)  (ISO)
sirolimus  (ISO)
sodium arsenite  (ISO)
tauroursodeoxycholic acid  (EXP)
tert-butyl hydroperoxide  (ISO)
testosterone  (ISO)
thiram  (ISO)
titanium dioxide  (ISO)
triphenyl phosphate  (ISO)
tunicamycin  (ISO)
uranium atom  (ISO)
urethane  (ISO)
ursodeoxycholic acid  (EXP)
valproic acid  (ISO)
vorinostat  (ISO)
zinc acetate  (ISO)
zinc atom  (ISO)
zinc(0)  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component
nuclear speck  (IEA,ISO)
nucleoplasm  (IEA,ISO)
nucleus  (IBA,IEA)

References

References - curated
# Reference Title Reference Citation
1. HBP1 repression of the p47phox gene: cell cycle regulation via the NADPH oxidase. Berasi SP, etal., Mol Cell Biol. 2004 Apr;24(7):3011-24.
2. HMGB1 interacts with many apparently unrelated proteins by recognizing short amino acid sequences. Dintilhac A and Bernues J, J Biol Chem 2002 Mar 1;277(9):7021-8.
3. 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.
4. High mobility group box chromosomal protein 1: a novel proinflammatory mediator in synovitis. Kokkola R, etal., Arthritis Rheum 2002 Oct;46(10):2598-603.
5. STR/ort mice, a model for spontaneous osteoarthritis, exhibit elevated levels of both local and systemic inflammatory markers. Kyostio-Moore S, etal., Comp Med. 2011 Aug;61(4):346-55.
6. Expression cloning in K+ transport defective yeast and distribution of HBP1, a new putative HMG transcriptional regulator. Lesage F, etal., Nucleic Acids Res 1994 Sep 11;22(18):3685-8.
7. Electronic Transfer of LocusLink and RefSeq Data NCBI rat LocusLink and RefSeq merged data July 26, 2002
8. Proteomic profiling of adipose tissue from Zmpste24-/- mice, a model of lipodystrophy and premature aging, reveals major changes in mitochondrial function and vimentin processing. Peinado JR, etal., Mol Cell Proteomics. 2011 Nov;10(11):M111.008094. doi: 10.1074/mcp.M111.008094. Epub 2011 Aug 9.
9. Gene expression analysis reveals HBP1 as a key target for the osteoarthritis susceptibility locus that maps to chromosome 7q22. Raine EV, etal., Ann Rheum Dis. 2012 Dec;71(12):2020-7. doi: 10.1136/annrheumdis-2012-201304. Epub 2012 May 14.
10. GOA pipeline RGD automated data pipeline
11. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
12. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
13. Comprehensive gene review and curation RGD comprehensive gene curation
Additional References at PubMed
PMID:8889548   PMID:9178770   PMID:12477932   PMID:15489334   PMID:24675724   PMID:31139836   PMID:34653689   PMID:35033142  


Genomics

Comparative Map Data
Hbp1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8654,257,118 - 54,283,373 (-)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl654,256,864 - 54,283,366 (-)EnsemblGRCr8
mRatBN7.2648,529,633 - 48,555,775 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl648,529,372 - 48,555,787 (-)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx648,837,793 - 48,863,970 (-)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0649,152,718 - 49,178,887 (-)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0648,598,406 - 48,624,925 (-)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0651,231,479 - 51,257,699 (-)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl651,231,480 - 51,257,625 (-)Ensemblrn6Rnor6.0
Rnor_5.0659,902,128 - 59,929,303 (-)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.4650,201,281 - 50,227,095 (-)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera647,731,479 - 47,757,413 (-)NCBICelera
RGSC_v3.1650,204,414 - 50,230,207 (-)NCBI
Cytogenetic Map6q16NCBI
HBP1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh387107,169,003 - 107,202,522 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl7107,168,961 - 107,202,529 (+)Ensemblhg38GRCh38
GRCh377106,809,448 - 106,842,967 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 367106,596,696 - 106,630,210 (+)NCBIBuild 36Build 36hg18NCBI36
Build 347106,403,410 - 106,436,924NCBI
Celera7101,614,757 - 101,648,271 (+)NCBICelera
Cytogenetic Map7q22.3NCBI
HuRef7101,169,955 - 101,203,527 (+)NCBIHuRef
CHM1_17106,742,977 - 106,776,953 (+)NCBICHM1_1
T2T-CHM13v2.07108,485,055 - 108,518,576 (+)NCBIT2T-CHM13v2.0
CRA_TCAGchr7v27106,170,493 - 106,204,061 (+)NCBI
Hbp1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391231,976,449 - 32,000,529 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1231,976,253 - 32,000,534 (-)EnsemblGRCm39 EnsemblGRCm39
GRCm381231,926,452 - 31,950,530 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1231,926,254 - 31,950,535 (-)Ensemblmm10GRCm38
MGSCv371232,611,320 - 32,635,400 (-)NCBIMGSCv37MGSCv37mm9NCBIm37
MGSCv361232,511,722 - 32,535,470 (-)NCBIMGSCv36mm8
Celera1233,380,824 - 33,404,870 (-)NCBICelera
Cytogenetic Map12A3NCBI
cM Map1213.73NCBI
Hbp1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495541011,626,743 - 11,652,343 (+)Ensembl
ChiLan1.0NW_00495541011,626,743 - 11,652,343 (+)NCBIChiLan1.0ChiLan1.0
HBP1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v26144,007,533 - 144,045,553 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan17192,277,473 - 192,315,521 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0799,147,813 - 99,181,335 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.17111,873,196 - 111,906,437 (+)NCBIPanPan1.1PanPan1.1panPan2
PanPan1.1 Ensembl7111,873,874 - 111,906,437 (+)EnsemblpanPan2panpan1.1
HBP1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11813,339,359 - 13,368,105 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl1813,340,287 - 13,367,915 (-)EnsemblcanFam3CanFam3.1
Dog10K_Boxer_Tasha1812,988,611 - 13,017,129 (-)NCBIDog10K_Boxer_TashaDog10K_Boxer_Tasha
ROS_Cfam_1.01813,609,874 - 13,638,451 (-)NCBIROS_Cfam_1.0ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl1813,609,874 - 13,638,352 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.11813,426,228 - 13,454,700 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.01813,346,402 - 13,374,871 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.01813,624,135 - 13,652,695 (-)NCBIUU_Cfam_GSD_1.0UU_Cfam_GSD_1.0
Hbp1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440511855,731,599 - 55,762,501 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_00493647916,854,852 - 16,886,477 (-)EnsemblSpeTri2.0 Ensembl
SpeTri2.0NW_00493647916,855,368 - 16,886,210 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
HBP1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl9106,966,060 - 106,993,911 (+)EnsemblsusScr11Sscrofa11.1
Sscrofa11.19106,966,060 - 106,993,915 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
HBP1
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12176,088,411 - 76,121,884 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl2176,088,542 - 76,124,610 (+)EnsemblChlSab1.1 EnsemblchlSab2Vervet-AGM
Vero_WHO_p1.0NW_02366604227,736,235 - 27,769,619 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Hbp1
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462473922,504,235 - 22,531,595 (-)EnsemblHetGla_female_1.0 EnsemblhetGla2HetGla_female_1.0 Ensembl
HetGla 1.0NW_00462473922,504,766 - 22,531,718 (-)NCBIHetGla 1.0HetGla 1.0hetGla2
Hbp1
(Rattus rattus - black rat)
Black Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rrattus_CSIRO_v1745,319,058 - 45,343,958 (-)NCBIRrattus_CSIRO_v1

Variants

.
Variants in Hbp1
211 total Variants
miRNA Target Status (No longer updated)

Predicted Target Of
Summary Value
Count of predictions:173
Count of miRNA genes:120
Interacting mature miRNAs:139
Transcripts:ENSRNOT00000012004
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
9590290Uminl2Urine mineral level QTL 23.960.001urine mineral amount (VT:0015086)urine electrolyte level (CMO:0000593)64451097489510974Rat
8693632Alc27Alcohol consumption QTL 272.20.791drinking behavior trait (VT:0001422)calculated ethanol drink intake rate (CMO:0001615)64005241156848866Rat
634318Bw118Body weight QTL 1183.55abdominal fat pad mass (VT:1000711)abdominal fat pad weight (CMO:0000088)63902865963457441Rat
4889933Bss88Bone structure and strength QTL 883.8tibia size trait (VT:0100001)tibia total bone volume (CMO:0001724)65368492198684921Rat
10401812Kidm54Kidney mass QTL 54kidney mass (VT:0002707)both kidneys wet weight (CMO:0000085)62009763565097635Rat
634307Bp141Blood pressure QTL 1414arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)64095756485957564Rat
1331743Uae28Urinary albumin excretion QTL 284.5urine albumin amount (VT:0002871)urine albumin level (CMO:0000130)64515378690153786Rat
8552910Pigfal5Plasma insulin-like growth factor 1 level QTL 54.3blood insulin-like growth factor amount (VT:0010479)plasma insulin-like growth factor 1 level (CMO:0001299)62265388967653889Rat
10401800Kidm49Kidney mass QTL 49kidney mass (VT:0002707)both kidneys wet weight (CMO:0000085)62009763565097635Rat
5684992Bmd83Bone mineral density QTL 824.8tibia mineral mass (VT:1000283)bone mineral content (CMO:0001554)65368492198684921Rat
1331779Rf38Renal function QTL 382.876kidney blood vessel physiology trait (VT:0100012)absolute change in renal vascular resistance (CMO:0001900)63118500276185002Rat
737827Hcar11Hepatocarcinoma resistance QTL 114.4liver integrity trait (VT:0010547)liver tumorous lesion number (CMO:0001068)646050607116278722Rat
724513Uae14Urinary albumin excretion QTL 146.5urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)64604735391047353Rat
2293839Kiddil2Kidney dilation QTL 24.8kidney pelvis morphology trait (VT:0004194)hydronephrosis severity score (CMO:0001208)62661831486868070Rat
1576309Emca7Estrogen-induced mammary cancer QTL 74mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)620859430113082285Rat
9590140Scort4Serum corticosterone level QTL 414.490.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)64451097489510974Rat
2301964Bp323Blood pressure QTL 3234.3arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)6186868070Rat
9590306Scort18Serum corticosterone level QTL 182.880.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)64451097489510974Rat
1578665Bss16Bone structure and strength QTL 164.4femur morphology trait (VT:0000559)bone trabecular cross-sectional area (CMO:0002311)63332884178328841Rat
2293841Kiddil4Kidney dilation QTL 44.4kidney pelvis morphology trait (VT:0004194)hydronephrosis severity score (CMO:0001208)62661831486868070Rat
1641898Colcr4Colorectal carcinoma resistance QTL43.710.0007intestine integrity trait (VT:0010554)well differentiated malignant colorectal tumor surface area measurement (CMO:0002077)63093763275937632Rat
1578668Bmd14Bone mineral density QTL 143.8femur mineral mass (VT:0010011)total volumetric bone mineral density (CMO:0001728)63332884178328841Rat
6893340Cm77Cardiac mass QTL 770.260.57heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)63902865986867923Rat
5684963Bss99Bone structure and strength QTL 993.1tibia area (VT:1000281)tibia area measurement (CMO:0001382)65368492198684921Rat
70199Coreg1Compensatory renal growth QTL 111.8kidney mass (VT:0002707)compensatory renal growth score (CMO:0001894)61459947363457687Rat
2301972Bp325Blood pressure QTL 3254.8arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)61608937261967788Rat
1354664Slep2Serum leptin concentration QTL 24.49blood leptin amount (VT:0005667)serum leptin level (CMO:0000780)62228825767288257Rat
1300143Rf14Renal function QTL 142.92renal blood flow trait (VT:2000006)absolute change in renal blood flow rate (CMO:0001168)64016318385163183Rat

Markers in Region
RH143729  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2648,547,074 - 48,547,240 (+)MAPPERmRatBN7.2
Rnor_6.0651,248,908 - 51,249,073NCBIRnor6.0
Rnor_5.0659,919,502 - 59,919,667UniSTSRnor5.0
RGSC_v3.4650,218,433 - 50,218,598UniSTSRGSC3.4
Celera647,748,924 - 47,749,089UniSTS
RH 3.4 Map6302.4UniSTS
Cytogenetic Map6q16UniSTS
RH144560  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2648,531,928 - 48,532,101 (+)MAPPERmRatBN7.2
Rnor_6.0651,233,775 - 51,233,947NCBIRnor6.0
Rnor_5.0659,904,424 - 59,904,596UniSTSRnor5.0
RGSC_v3.4650,203,577 - 50,203,749UniSTSRGSC3.4
Celera647,733,775 - 47,733,947UniSTS
RH 3.4 Map6300.8UniSTS
Cytogenetic Map6q16UniSTS
MARC_4117-4118:991938388:1  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21618,543,748 - 18,543,950 (+)MAPPERmRatBN7.2
mRatBN7.2648,544,181 - 48,544,292 (+)MAPPERmRatBN7.2
Rnor_6.0651,246,027 - 51,246,137NCBIRnor6.0
Rnor_6.01620,294,454 - 20,294,655NCBIRnor6.0
Rnor_5.01620,151,998 - 20,152,199UniSTSRnor5.0
Rnor_5.0659,916,676 - 59,916,786UniSTSRnor5.0
RGSC_v3.4650,215,830 - 50,215,940UniSTSRGSC3.4
RGSC_v3.41619,043,240 - 19,043,441UniSTSRGSC3.4
Celera1618,736,389 - 18,736,590UniSTS
Celera647,746,028 - 47,746,138UniSTS
Cytogenetic Map16p14UniSTS
Cytogenetic Map6q16UniSTS
RH69992  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2648,544,198 - 48,544,329 (+)MAPPERmRatBN7.2
Rnor_6.0651,246,044 - 51,246,174NCBIRnor6.0
Rnor_5.0659,916,693 - 59,916,823UniSTSRnor5.0
RGSC_v3.4650,215,847 - 50,215,977UniSTSRGSC3.4
Celera647,746,045 - 47,746,175UniSTS
Cytogenetic Map6q16UniSTS


Expression

RNA-SEQ Expression

alimentary part of gastrointestinal system
appendage
circulatory system
ectoderm
endocrine system
endoderm
exocrine system
hemolymphoid system
hepatobiliary system
integumental system
mesenchyme
mesoderm
musculoskeletal system
nervous system
renal system
reproductive system
respiratory system
sensory system
visual system
16 12 67 165 91 90 59 92 59 6 356 192 11 144 81 92 31 17 17

Sequence


Ensembl Acc Id: ENSRNOT00000012004   ⟹   ENSRNOP00000012004
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl654,256,866 - 54,283,366 (-)Ensembl
mRatBN7.2 Ensembl648,529,372 - 48,555,787 (-)Ensembl
Rnor_6.0 Ensembl651,231,480 - 51,257,625 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000094150   ⟹   ENSRNOP00000077814
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl654,256,864 - 54,280,073 (-)Ensembl
mRatBN7.2 Ensembl648,529,372 - 48,554,957 (-)Ensembl
RefSeq Acc Id: NM_013221   ⟹   NP_037353
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8654,257,118 - 54,283,259 (-)NCBI
mRatBN7.2648,529,633 - 48,555,775 (-)NCBI
Rnor_6.0651,231,479 - 51,257,625 (-)NCBI
Rnor_5.0659,902,128 - 59,929,303 (-)NCBI
RGSC_v3.4650,201,281 - 50,227,095 (-)RGD
Celera647,731,479 - 47,757,413 (-)RGD
Sequence:
RefSeq Acc Id: XM_063261572   ⟹   XP_063117642
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8654,257,125 - 54,283,373 (-)NCBI
Protein Sequences
Protein RefSeqs NP_037353 (Get FASTA)   NCBI Sequence Viewer  
  XP_063117642 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAA53240 (Get FASTA)   NCBI Sequence Viewer  
  AAH91165 (Get FASTA)   NCBI Sequence Viewer  
  EDM03261 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000012004
GenBank Protein Q62661 (Get FASTA)   NCBI Sequence Viewer  
RefSeq Acc Id: NP_037353   ⟸   NM_013221
- UniProtKB: Q5BK86 (UniProtKB/Swiss-Prot),   Q62661 (UniProtKB/Swiss-Prot),   Z4YNI2 (UniProtKB/TrEMBL),   A6HB56 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000012004   ⟸   ENSRNOT00000012004
Ensembl Acc Id: ENSRNOP00000077814   ⟸   ENSRNOT00000094150
RefSeq Acc Id: XP_063117642   ⟸   XM_063261572
- Peptide Label: isoform X1
- UniProtKB: Q62661 (UniProtKB/Swiss-Prot),   Q5BK86 (UniProtKB/Swiss-Prot)
Protein Domains
AXH   HMG box

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q62661-F1-model_v2 AlphaFold Q62661 1-513 view protein structure

Transcriptome

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

Promoters
RGD ID:13694547
Promoter ID:EPDNEW_R5071
Type:multiple initiation site
Name:Hbp1_1
Description:HMG-box transcription factor 1
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_6.0651,257,619 - 51,257,679EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:620444 AgrOrtholog
BioCyc Gene G2FUF-37902 BioCyc
Ensembl Genes ENSRNOG00000008927 Ensembl, ENTREZGENE
Ensembl Transcript ENSRNOT00000012004 ENTREZGENE
Gene3D-CATH 1.10.30.10 UniProtKB/Swiss-Prot
IMAGE_CLONE IMAGE:7097013 IMAGE-MGC_LOAD
InterPro Ataxin_AXH_dom UniProtKB/Swiss-Prot
  Ataxin_AXH_dom_sf UniProtKB/Swiss-Prot
  HBP1 UniProtKB/Swiss-Prot
  HMG_box_dom UniProtKB/Swiss-Prot
  HMG_box_dom_sf UniProtKB/Swiss-Prot
KEGG Report rno:27080 UniProtKB/Swiss-Prot
MGC_CLONE MGC:108754 IMAGE-MGC_LOAD
NCBI Gene 27080 ENTREZGENE
PANTHER HMG BOX-CONTAINING PROTEIN 1 UniProtKB/Swiss-Prot
  PTHR15499 UniProtKB/Swiss-Prot
Pfam AXH UniProtKB/Swiss-Prot
  HMG_box UniProtKB/Swiss-Prot
PhenoGen Hbp1 PhenoGen
PROSITE AXH UniProtKB/Swiss-Prot
  HMG_BOX_2 UniProtKB/Swiss-Prot
RatGTEx ENSRNOG00000008927 RatGTEx
SMART AXH UniProtKB/Swiss-Prot
  HMG UniProtKB/Swiss-Prot
Superfamily-SCOP SSF102031 UniProtKB/Swiss-Prot
  SSF47095 UniProtKB/Swiss-Prot
UniProt A0A8I5Y7X5_RAT UniProtKB/TrEMBL
  A6HB56 ENTREZGENE, UniProtKB/TrEMBL
  HBP1_RAT UniProtKB/Swiss-Prot
  Q5BK86 ENTREZGENE
  Q62661 ENTREZGENE
  Z4YNI2 ENTREZGENE, UniProtKB/TrEMBL
UniProt Secondary Q5BK86 UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2008-10-17 Hbp1  HMG-box transcription factor 1  Hbp1  high mobility group box transcription factor 1  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2004-12-14 Hbp1  high mobility group box transcription factor 1    HMG-box containing protein 1  Name updated 1299863 APPROVED
2002-08-07 Hbp1  HMG-box containing protein 1      Symbol and Name status set to provisional 70820 PROVISIONAL

RGD Curation Notes
Note Type Note Reference
gene_domains contains two HMG box domains plus a highly acidic C-terminal domain 632908