Hdlbp (high density lipoprotein binding protein) - Rat Genome Database

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Gene: Hdlbp (high density lipoprotein binding protein) Rattus norvegicus
Analyze
Symbol: Hdlbp
Name: high density lipoprotein binding protein
RGD ID: 620962
Description: Predicted to enable mRNA binding activity. Predicted to be involved in cholesterol metabolic process and lipid transport. Predicted to be part of high-density lipoprotein particle. Predicted to be active in cytoplasm and nucleus. Orthologous to human HDLBP (high density lipoprotein binding protein); INTERACTS WITH 1,2,4-trimethylbenzene; 17beta-estradiol; 2,3,7,8-tetrachlorodibenzodioxine.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: HDL-binding protein; high density lipoprotein binding protein (vigilin); high density lipoprotein-binding protein; lipoprotein-binding protein; MGC124559; vigilin
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr89101,395,491 - 101,465,446 (-)NCBIGRCr8
mRatBN7.2993,948,099 - 94,018,040 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl993,949,913 - 94,018,048 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx9102,385,425 - 102,453,504 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.09107,521,516 - 107,589,339 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.09105,877,661 - 105,945,485 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.09100,554,574 - 100,624,707 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl9100,554,563 - 100,624,638 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.09100,207,602 - 100,277,717 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4992,687,612 - 92,755,853 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.1992,892,384 - 92,960,622 (-)NCBI
Celera991,484,527 - 91,552,602 (-)NCBICelera
Cytogenetic Map9q36NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(1->4)-beta-D-glucan  (ISO)
1,2,4-trimethylbenzene  (EXP)
1,2-dimethylhydrazine  (ISO)
1-chloro-2,4-dinitrobenzene  (ISO)
17beta-estradiol  (EXP)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
2,3,7,8-Tetrachlorodibenzofuran  (ISO)
2,4,6-tribromophenol  (ISO)
2,4-dinitrotoluene  (EXP)
2,6-dinitrotoluene  (EXP)
3,3',5,5'-tetrabromobisphenol A  (ISO)
3,4-methylenedioxymethamphetamine  (ISO)
3-chloropropane-1,2-diol  (EXP)
3-isobutyl-1-methyl-7H-xanthine  (ISO)
4,4'-diaminodiphenylmethane  (ISO)
4,4'-sulfonyldiphenol  (ISO)
acrylamide  (EXP)
aflatoxin B1  (ISO)
all-trans-retinoic acid  (ISO)
ammonium chloride  (EXP)
antirheumatic drug  (ISO)
Aroclor 1254  (ISO)
benzo[a]pyrene  (ISO)
bisphenol A  (EXP,ISO)
Bisphenol B  (ISO)
bisphenol F  (ISO)
cadmium atom  (ISO)
cadmium dichloride  (ISO)
caffeine  (EXP,ISO)
carbon nanotube  (ISO)
CGP 52608  (ISO)
chlorpyrifos  (ISO)
copper atom  (ISO)
copper(0)  (ISO)
copper(II) sulfate  (ISO)
cyclosporin A  (ISO)
dexamethasone  (ISO)
diuron  (ISO)
dorsomorphin  (ISO)
doxorubicin  (ISO)
elemental selenium  (ISO)
enzyme inhibitor  (ISO)
fenthion  (ISO)
folic acid  (ISO)
FR900359  (ISO)
glafenine  (EXP)
indometacin  (ISO)
ivermectin  (ISO)
lipopolysaccharide  (ISO)
mercury dibromide  (ISO)
Mesaconitine  (EXP)
methidathion  (ISO)
methylmercury chloride  (ISO)
N-nitrosomorpholine  (EXP)
ochratoxin A  (EXP)
ozone  (ISO)
perfluorohexanesulfonic acid  (ISO)
perfluorooctane-1-sulfonic acid  (ISO)
perfluorooctanoic acid  (ISO)
phenethyl isothiocyanate  (ISO)
phenobarbital  (ISO)
quercetin  (ISO)
SB 431542  (ISO)
selenium atom  (ISO)
senecionine  (ISO)
sodium arsenite  (ISO)
sodium fluoride  (ISO)
sunitinib  (ISO)
testosterone  (ISO)
tetrachloromethane  (ISO)
thapsigargin  (EXP)
titanium dioxide  (ISO)
troglitazone  (ISO)
trovafloxacin  (ISO)
tungsten  (ISO)
valproic acid  (ISO)
vinclozolin  (EXP)
vorinostat  (ISO)
zidovudine  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component

Molecular Function

References

References - curated
# Reference Title Reference Citation
1. Expression of high density lipoprotein-binding protein messenger ribonucleic acid in the rat ovary and its regulation by gonadotropin. Chen Z and Menon KM, Endocrinology 1994 Jun;134(6):2360-6.
2. 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.
3. Rat ISS GO annotations from GOA human gene data--August 2006 GOA data from the GO Consortium
4. Electronic Transfer of LocusLink and RefSeq Data NCBI rat LocusLink and RefSeq merged data July 26, 2002
5. GOA pipeline RGD automated data pipeline
6. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
7. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:12477932   PMID:16396499   PMID:22658674   PMID:22681889   PMID:25468996  


Genomics

Comparative Map Data
Hdlbp
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr89101,395,491 - 101,465,446 (-)NCBIGRCr8
mRatBN7.2993,948,099 - 94,018,040 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl993,949,913 - 94,018,048 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx9102,385,425 - 102,453,504 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.09107,521,516 - 107,589,339 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.09105,877,661 - 105,945,485 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.09100,554,574 - 100,624,707 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl9100,554,563 - 100,624,638 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.09100,207,602 - 100,277,717 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4992,687,612 - 92,755,853 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.1992,892,384 - 92,960,622 (-)NCBI
Celera991,484,527 - 91,552,602 (-)NCBICelera
Cytogenetic Map9q36NCBI
HDLBP
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh382241,227,291 - 241,315,672 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl2241,227,264 - 241,317,061 (-)EnsemblGRCh38hg38GRCh38
GRCh372242,166,706 - 242,255,087 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 362241,815,352 - 241,903,927 (-)NCBINCBI36Build 36hg18NCBI36
Build 342241,888,133 - 241,932,241NCBI
Celera2235,835,975 - 235,924,726 (-)NCBICelera
Cytogenetic Map2q37.3NCBI
HuRef2233,922,808 - 234,011,018 (-)NCBIHuRef
CHM1_12242,172,732 - 242,261,199 (-)NCBICHM1_1
T2T-CHM13v2.02241,726,284 - 241,814,658 (-)NCBIT2T-CHM13v2.0
Hdlbp
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39193,333,662 - 93,406,639 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl193,333,662 - 93,406,537 (-)EnsemblGRCm39 Ensembl
GRCm38193,405,940 - 93,478,917 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl193,405,940 - 93,478,815 (-)EnsemblGRCm38mm10GRCm38
MGSCv37195,302,517 - 95,375,385 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36195,236,346 - 95,309,214 (-)NCBIMGSCv36mm8
Celera196,350,440 - 96,424,455 (-)NCBICelera
Cytogenetic Map1DNCBI
cM Map147.24NCBI
Hdlbp
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_004955542444,258 - 510,065 (+)EnsemblChiLan1.0
ChiLan1.0NW_004955542444,221 - 505,512 (+)NCBIChiLan1.0ChiLan1.0
HDLBP
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v213143,931,944 - 144,018,856 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan12B143,944,949 - 144,033,758 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v02B128,498,647 - 128,587,305 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.12B247,293,154 - 247,381,509 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl2B247,293,154 - 247,335,318 (-)Ensemblpanpan1.1panPan2
HDLBP
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12551,228,194 - 51,296,743 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl2551,228,371 - 51,297,942 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha2551,440,859 - 51,509,402 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.02551,422,608 - 51,491,172 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl2551,421,531 - 51,491,227 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.12551,270,273 - 51,338,805 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.02551,009,812 - 51,078,720 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.02551,286,338 - 51,354,867 (-)NCBIUU_Cfam_GSD_1.0
Hdlbp
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024405303192,612,285 - 192,664,427 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_004936745555,710 - 607,135 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_004936745555,020 - 608,572 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
HDLBP
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl15139,957,715 - 140,022,302 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.115139,957,703 - 140,025,336 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.215155,072,247 - 155,103,227 (-)NCBISscrofa10.2Sscrofa10.2susScr3
HDLBP
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.110127,289,390 - 127,378,895 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl10127,288,331 - 127,378,986 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366604072,000,419 - 72,092,269 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Hdlbp
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046248475,278,695 - 5,340,818 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046248475,278,695 - 5,341,333 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Hdlbp
281 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:80
Count of miRNA genes:66
Interacting mature miRNAs:77
Transcripts:ENSRNOT00000051155
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
724544Uae9Urinary albumin excretion QTL 94.5urine albumin amount (VT:0002871)urine albumin level (CMO:0000130)925268044114175309Rat
731164Uae25Urinary albumin excretion QTL 253.50.0001urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)925661188100929786Rat
2290450Scl57Serum cholesterol level QTL 574.15blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)93696235995410867Rat
1578760Cm53Cardiac mass QTL 533.30.0001heart mass (VT:0007028)heart wet weight (CMO:0000069)956771635101771635Rat
724515Uae16Urinary albumin excretion QTL 168urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)958163035100929646Rat
1300134Bp185Blood pressure QTL 1853.73arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)961381434104821652Rat
1581580Uae34Urinary albumin excretion QTL 34urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)96207227596470995Rat
1578757Pur6Proteinuria QTL 63.30.005urine total protein amount (VT:0000032)urine total protein excretion rate (CMO:0000756)96207227596470995Rat
61385Edpm9Estrogen-dependent pituitary mass QTL 93.430.05pituitary gland mass (VT:0010496)pituitary gland wet weight (CMO:0000853)963869687108869687Rat
731171Glom6Glomerulus QTL 62.80.0003kidney glomerulus morphology trait (VT:0005325)count of superficial glomeruli not directly contacting the kidney surface (CMO:0001002)964573531109573531Rat
1354626Bvd1Brain ventricular dilatation QTL 13.730.001brain ventricle morphology trait (VT:0000822)hydrocephalus severity score (CMO:0001881)975712843111552878Rat
4889852Pur26Proteinuria QTL 26150.001urine total protein amount (VT:0000032)urine total protein excretion rate (CMO:0000756)977813894101597663Rat
7794784Mcs31Mammary carcinoma susceptibility QTL 312.98mammary gland integrity trait (VT:0010552)mammary tumor incidence/prevalence measurement (CMO:0000946)977813894111552878Rat
724547Cm21Cardiac mass QTL 212.7heart mass (VT:0007028)calculated heart weight (CMO:0000073)979271511102910209Rat
1582203Gluco19Glucose level QTL 193.30.001blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)992491589100929786Rat

Markers in Region
BF386813  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2993,989,523 - 93,989,702 (+)MAPPERmRatBN7.2
Rnor_6.09100,596,000 - 100,596,178NCBIRnor6.0
Rnor_5.09100,249,033 - 100,249,211UniSTSRnor5.0
RGSC_v3.4992,727,269 - 92,727,447UniSTSRGSC3.4
Celera991,524,235 - 91,524,413UniSTS
RH 3.4 Map9814.4UniSTS
Cytogenetic Map9q36UniSTS
BE103142  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2993,996,122 - 93,996,281 (+)MAPPERmRatBN7.2
Rnor_6.09100,602,762 - 100,602,920NCBIRnor6.0
Rnor_5.09100,255,795 - 100,255,953UniSTSRnor5.0
RGSC_v3.4992,733,977 - 92,734,135UniSTSRGSC3.4
Celera991,530,720 - 91,530,878UniSTS
RH 3.4 Map9801.9UniSTS
Cytogenetic Map9q36UniSTS


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

alimentary part of gastrointestinal system 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 3 43 57 41 19 41 8 11 74 35 41 11 8
Low
Below cutoff

Sequence

Nucleotide Sequences
RefSeq Transcripts NM_172039 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006245548 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017596623 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017596624 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039084167 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_063267674 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_063267676 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_063267677 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_063267678 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_063267679 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_063267680 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_063267681 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_063267682 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_063267683 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_063267684 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_063267685 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide BC063147 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BC105748 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CH473997 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ231933 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JAXUCZ010000009 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  U90725 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

RefSeq Acc Id: ENSRNOT00000051155   ⟹   ENSRNOP00000048476
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl993,949,913 - 94,018,048 (-)Ensembl
Rnor_6.0 Ensembl9100,556,392 - 100,624,638 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000085448   ⟹   ENSRNOP00000074707
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl993,949,913 - 94,018,048 (-)Ensembl
Rnor_6.0 Ensembl9100,554,563 - 100,588,951 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000086433   ⟹   ENSRNOP00000073716
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl993,969,600 - 93,985,793 (-)Ensembl
Rnor_6.0 Ensembl9100,576,070 - 100,592,271 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000103860   ⟹   ENSRNOP00000090589
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl993,949,913 - 94,018,048 (-)Ensembl
RefSeq Acc Id: NM_172039   ⟹   NP_742036
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr89101,397,301 - 101,465,379 (-)NCBI
mRatBN7.2993,949,913 - 94,017,999 (-)NCBI
Rnor_6.09100,556,388 - 100,624,638 (-)NCBI
Rnor_5.09100,207,602 - 100,277,717 (-)NCBI
RGSC_v3.4992,687,612 - 92,755,853 (-)RGD
Celera991,484,527 - 91,552,602 (-)RGD
Sequence:
RefSeq Acc Id: XM_006245548   ⟹   XP_006245610
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr89101,395,491 - 101,433,241 (-)NCBI
mRatBN7.2993,948,103 - 93,985,860 (-)NCBI
Rnor_6.09100,554,574 - 100,592,315 (-)NCBI
Rnor_5.09100,207,602 - 100,277,717 (-)NCBI
Sequence:
RefSeq Acc Id: XM_017596623   ⟹   XP_017452112
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr89101,395,491 - 101,465,441 (-)NCBI
mRatBN7.2993,948,099 - 93,985,990 (-)NCBI
Rnor_6.09100,554,574 - 100,592,518 (-)NCBI
Sequence:
RefSeq Acc Id: XM_017596624   ⟹   XP_017452113
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr89101,395,491 - 101,448,024 (-)NCBI
mRatBN7.2993,948,099 - 94,018,040 (-)NCBI
Rnor_6.09100,554,574 - 100,624,707 (-)NCBI
Sequence:
RefSeq Acc Id: XM_039084167   ⟹   XP_038940095
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr89101,395,491 - 101,433,241 (-)NCBI
mRatBN7.2993,948,103 - 93,985,860 (-)NCBI
RefSeq Acc Id: XM_063267674   ⟹   XP_063123744
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr89101,395,491 - 101,464,983 (-)NCBI
RefSeq Acc Id: XM_063267676   ⟹   XP_063123746
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr89101,395,491 - 101,433,068 (-)NCBI
RefSeq Acc Id: XM_063267677   ⟹   XP_063123747
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr89101,395,491 - 101,464,976 (-)NCBI
RefSeq Acc Id: XM_063267678   ⟹   XP_063123748
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr89101,395,491 - 101,465,439 (-)NCBI
RefSeq Acc Id: XM_063267679   ⟹   XP_063123749
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr89101,395,491 - 101,433,178 (-)NCBI
RefSeq Acc Id: XM_063267680   ⟹   XP_063123750
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr89101,395,491 - 101,464,933 (-)NCBI
RefSeq Acc Id: XM_063267681   ⟹   XP_063123751
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr89101,395,491 - 101,449,502 (-)NCBI
RefSeq Acc Id: XM_063267682   ⟹   XP_063123752
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr89101,395,491 - 101,465,439 (-)NCBI
RefSeq Acc Id: XM_063267683   ⟹   XP_063123753
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr89101,395,491 - 101,464,984 (-)NCBI
RefSeq Acc Id: XM_063267684   ⟹   XP_063123754
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr89101,395,491 - 101,465,446 (-)NCBI
RefSeq Acc Id: XM_063267685   ⟹   XP_063123755
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr89101,395,491 - 101,465,441 (-)NCBI
Protein Sequences
Protein RefSeqs NP_742036 (Get FASTA)   NCBI Sequence Viewer  
  XP_006245610 (Get FASTA)   NCBI Sequence Viewer  
  XP_017452112 (Get FASTA)   NCBI Sequence Viewer  
  XP_017452113 (Get FASTA)   NCBI Sequence Viewer  
  XP_038940095 (Get FASTA)   NCBI Sequence Viewer  
  XP_063123744 (Get FASTA)   NCBI Sequence Viewer  
  XP_063123746 (Get FASTA)   NCBI Sequence Viewer  
  XP_063123747 (Get FASTA)   NCBI Sequence Viewer  
  XP_063123748 (Get FASTA)   NCBI Sequence Viewer  
  XP_063123749 (Get FASTA)   NCBI Sequence Viewer  
  XP_063123750 (Get FASTA)   NCBI Sequence Viewer  
  XP_063123751 (Get FASTA)   NCBI Sequence Viewer  
  XP_063123752 (Get FASTA)   NCBI Sequence Viewer  
  XP_063123753 (Get FASTA)   NCBI Sequence Viewer  
  XP_063123754 (Get FASTA)   NCBI Sequence Viewer  
  XP_063123755 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAD09246 (Get FASTA)   NCBI Sequence Viewer  
  AAH63147 (Get FASTA)   NCBI Sequence Viewer  
  AAI05749 (Get FASTA)   NCBI Sequence Viewer  
  EDL91929 (Get FASTA)   NCBI Sequence Viewer  
  EDL91930 (Get FASTA)   NCBI Sequence Viewer  
  EDL91931 (Get FASTA)   NCBI Sequence Viewer  
  EDL91932 (Get FASTA)   NCBI Sequence Viewer  
  EDL91933 (Get FASTA)   NCBI Sequence Viewer  
  EDL91934 (Get FASTA)   NCBI Sequence Viewer  
  EDL91935 (Get FASTA)   NCBI Sequence Viewer  
  EDL91936 (Get FASTA)   NCBI Sequence Viewer  
  EDL91937 (Get FASTA)   NCBI Sequence Viewer  
  EDL91938 (Get FASTA)   NCBI Sequence Viewer  
  EDL91939 (Get FASTA)   NCBI Sequence Viewer  
  EDL91940 (Get FASTA)   NCBI Sequence Viewer  
  EDL91941 (Get FASTA)   NCBI Sequence Viewer  
  EDL91942 (Get FASTA)   NCBI Sequence Viewer  
  EDL91943 (Get FASTA)   NCBI Sequence Viewer  
  EDL91944 (Get FASTA)   NCBI Sequence Viewer  
  EDL91945 (Get FASTA)   NCBI Sequence Viewer  
  EDL91946 (Get FASTA)   NCBI Sequence Viewer  
  EDL91947 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000048476
  ENSRNOP00000048476.2
  ENSRNOP00000073716.1
  ENSRNOP00000074707
  ENSRNOP00000074707.2
  ENSRNOP00000090589.1
GenBank Protein Q9Z1A6 (Get FASTA)   NCBI Sequence Viewer  
RefSeq Acc Id: NP_742036   ⟸   NM_172039
- UniProtKB: Q9Z1A6 (UniProtKB/Swiss-Prot),   Q3KRF2 (UniProtKB/TrEMBL),   A6JR01 (UniProtKB/TrEMBL),   A6JR00 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006245610   ⟸   XM_006245548
- Peptide Label: isoform X1
- UniProtKB: Q9Z1A6 (UniProtKB/Swiss-Prot),   Q3KRF2 (UniProtKB/TrEMBL),   A6JR01 (UniProtKB/TrEMBL),   A6JR00 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_017452113   ⟸   XM_017596624
- Peptide Label: isoform X1
- UniProtKB: Q9Z1A6 (UniProtKB/Swiss-Prot),   Q3KRF2 (UniProtKB/TrEMBL),   A6JR01 (UniProtKB/TrEMBL),   A6JR00 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_017452112   ⟸   XM_017596623
- Peptide Label: isoform X1
- UniProtKB: Q9Z1A6 (UniProtKB/Swiss-Prot),   Q3KRF2 (UniProtKB/TrEMBL),   A6JR01 (UniProtKB/TrEMBL),   A6JR00 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000074707   ⟸   ENSRNOT00000085448
RefSeq Acc Id: ENSRNOP00000048476   ⟸   ENSRNOT00000051155
RefSeq Acc Id: ENSRNOP00000073716   ⟸   ENSRNOT00000086433
RefSeq Acc Id: XP_038940095   ⟸   XM_039084167
- Peptide Label: isoform X2
- UniProtKB: Q9Z1A6 (UniProtKB/Swiss-Prot),   A0A0G2K8R4 (UniProtKB/TrEMBL)
RefSeq Acc Id: ENSRNOP00000090589   ⟸   ENSRNOT00000103860
RefSeq Acc Id: XP_063123754   ⟸   XM_063267684
- Peptide Label: isoform X2
RefSeq Acc Id: XP_063123755   ⟸   XM_063267685
- Peptide Label: isoform X2
RefSeq Acc Id: XP_063123748   ⟸   XM_063267678
- Peptide Label: isoform X1
RefSeq Acc Id: XP_063123752   ⟸   XM_063267682
- Peptide Label: isoform X1
RefSeq Acc Id: XP_063123753   ⟸   XM_063267683
- Peptide Label: isoform X1
RefSeq Acc Id: XP_063123744   ⟸   XM_063267674
- Peptide Label: isoform X1
RefSeq Acc Id: XP_063123747   ⟸   XM_063267677
- Peptide Label: isoform X1
RefSeq Acc Id: XP_063123750   ⟸   XM_063267680
- Peptide Label: isoform X1
RefSeq Acc Id: XP_063123751   ⟸   XM_063267681
- Peptide Label: isoform X1
RefSeq Acc Id: XP_063123749   ⟸   XM_063267679
- Peptide Label: isoform X1
RefSeq Acc Id: XP_063123746   ⟸   XM_063267676
- Peptide Label: isoform X1
Protein Domains
K Homology   KH

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q9Z1A6-F1-model_v2 AlphaFold Q9Z1A6 1-1268 view protein structure

Transcriptome

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

Promoters
RGD ID:13696882
Promoter ID:EPDNEW_R7399
Type:multiple initiation site
Name:Hdlbp_2
Description:high density lipoprotein binding protein
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Alternative Promoters:null; see alsoEPDNEW_R7400  
Experiment Methods:Single-end sequencing.
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.09100,592,274 - 100,592,334EPDNEW
RGD ID:13696875
Promoter ID:EPDNEW_R7400
Type:multiple initiation site
Name:Hdlbp_1
Description:high density lipoprotein binding protein
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Alternative Promoters:null; see alsoEPDNEW_R7399  
Experiment Methods:Single-end sequencing.
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.09100,624,667 - 100,624,727EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:620962 AgrOrtholog
BioCyc Gene G2FUF-26643 BioCyc
Ensembl Genes ENSRNOG00000031479 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000051155 ENTREZGENE
  ENSRNOT00000051155.4 UniProtKB/TrEMBL
  ENSRNOT00000085448.2 UniProtKB/TrEMBL
  ENSRNOT00000086433.2 UniProtKB/TrEMBL
  ENSRNOT00000103860.1 UniProtKB/TrEMBL
Gene3D-CATH 3.30.1370.10 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
IMAGE_CLONE IMAGE:5598374 IMAGE-MGC_LOAD
InterPro KH_dom UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  KH_dom_type_1 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  KH_dom_type_1_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:64474 UniProtKB/TrEMBL
MGC_CLONE MGC:124559 IMAGE-MGC_LOAD
NCBI Gene 64474 ENTREZGENE
PANTHER SCP160 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  VIGILIN UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam KH_1 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Hdlbp PhenoGen
PROSITE KH_TYPE_1 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
RatGTEx ENSRNOG00000031479 RatGTEx
SMART SM00322 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP SSF54791 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt A0A0G2K8R4 ENTREZGENE, UniProtKB/TrEMBL
  A0A8I6AEL3_RAT UniProtKB/TrEMBL
  A6JQZ0_RAT UniProtKB/TrEMBL
  A6JQZ1_RAT UniProtKB/TrEMBL
  A6JQZ4_RAT UniProtKB/TrEMBL
  A6JQZ7_RAT UniProtKB/TrEMBL
  A6JR00 ENTREZGENE, UniProtKB/TrEMBL
  A6JR01 ENTREZGENE, UniProtKB/TrEMBL
  A6JR04_RAT UniProtKB/TrEMBL
  A6JR07_RAT UniProtKB/TrEMBL
  A6JR08_RAT UniProtKB/TrEMBL
  Q3KRF2 ENTREZGENE
  Q6P513_RAT UniProtKB/TrEMBL
  Q9Z1A6 ENTREZGENE, UniProtKB/Swiss-Prot
UniProt Secondary Q3KRF2 UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2009-10-22 Hdlbp  high density lipoprotein binding protein  Hdlbp  high density lipoprotein binding protein (vigilin)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-05-15 Hdlbp  high density lipoprotein binding protein (vigilin)  Hdlbp  high density lipoprotein binding protein  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2005-01-20 Hdlbp  high density lipoprotein binding protein    lipoprotein-binding protein  Name updated 1299863 APPROVED
2002-08-07 Hdlbp  lipoprotein-binding protein      Symbol and Name status set to provisional 70820 PROVISIONAL