APOB (apolipoprotein B) - Rat Genome Database

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Gene: APOB (apolipoprotein B) Chlorocebus sabaeus
Analyze
Symbol: APOB
Name: apolipoprotein B
RGD ID: 18544533
Description: ENCODES a protein that exhibits cholesterol transfer activity (inferred); heparin binding (inferred); lipase binding (inferred); INVOLVED IN artery morphogenesis (ortholog); cellular response to prostaglandin stimulus (ortholog); cellular response to tumor necrosis factor (ortholog); PARTICIPATES IN altered lipoprotein metabolic pathway; forkhead class A signaling pathway; lipoprotein metabolic pathway; ASSOCIATED WITH aortic valve stenosis (ortholog); arteriosclerosis (ortholog); autosomal recessive hypercholesterolemia (ortholog); FOUND IN extracellular space (ortholog); high-density lipoprotein particle (ortholog); low-density lipoprotein particle (ortholog)
Type: protein-coding
RefSeq Status: MODEL
Previously known as: apolipoprotein B-100
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Bonobo
Dog
Squirrel
Pig
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: ChlSab1.1 - Green Monkey 1.1 Assembly
Position:
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11486,624,209 - 86,669,175 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl1486,624,332 - 86,668,704 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366604525,515,337 - 25,558,432 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View
aortic valve stenosis  (ISO)
arteriosclerosis  (ISO)
autosomal recessive hypercholesterolemia  (ISO)
Behcet's disease  (ISO)
beta thalassemia  (ISO)
bile duct cancer  (ISO)
biliary tract cancer  (ISO)
brain disease  (ISO)
cardiovascular system disease  (ISO)
celiac disease  (ISO)
cerebral infarction  (ISO)
common bile duct neoplasm  (ISO)
coronary artery disease  (ISO)
Coronary Disease  (ISO)
Coumarin Sensitivity  (ISO)
Death  (ISO)
diabetes mellitus  (ISO)
Diabetic Nephropathies  (ISO)
diabetic retinopathy  (ISO)
dilated cardiomyopathy 1B  (ISO)
Drug-Related Side Effects and Adverse Reactions  (ISO)
Dyslipidemias  (ISO)
Endotoxemia  (ISO)
Experimental Diabetes Mellitus  (ISO)
familial combined hyperlipidemia  (ISO)
familial hypercholesterolemia  (ISO)
Familial Hypercholesterolemia due to Ligand-Defective Apolipoprotein B  (ISO)
familial hyperlipidemia  (ISO)
familial hypobetalipoproteinemia 1  (ISO)
familial hypobetalipoproteinemia 2  (ISO)
Familial Hypobetalipoproteinemia, Apolipoprotein B  (ISO)
familial isolated deficiency of vitamin E  (ISO)
gallbladder cancer  (ISO)
Hemorrhage  (ISO)
Hypercholesterolemia  (ISO)
Hypercholesterolemia, Autosomal Dominant, 3  (ISO)
Hyperlipoproteinemia Type II  (ISO)
Hypertriglyceridemia  (ISO)
hypobetalipoproteinemia  (ISO)
Isolated Systolic Hypertension  (ISO)
Marfanoid Mental Retardation Syndrome, Autosomal  (ISO)
Metabolic Syndrome  (ISO)
muscular dystrophy-dystroglycanopathy type B14  (ISO)
Myocardial Ischemia  (ISO)
nephrotic syndrome  (ISO)
obesity  (ISO)
ovarian cancer  (ISO)
sickle cell anemia  (ISO)
spastic ataxia  (ISO)
steatotic liver disease  (ISO)
Sudden Cardiac Death  (ISO)
type 1 diabetes mellitus  (ISO)
type 2 diabetes mellitus  (ISO)
warfarin resistance  (ISO)
warfarin sensitivity  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Molecular Pathway Annotations     Click to see Annotation Detail View
References
Additional References at PubMed
PMID:30032202  


Genomics

Comparative Map Data
APOB
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11486,624,209 - 86,669,175 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl1486,624,332 - 86,668,704 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366604525,515,337 - 25,558,432 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
APOB
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38221,001,429 - 21,044,073 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl221,001,429 - 21,044,073 (-)EnsemblGRCh38hg38GRCh38
GRCh37221,224,301 - 21,266,945 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36221,077,806 - 21,120,450 (-)NCBINCBI36Build 36hg18NCBI36
Build 34221,135,952 - 21,178,597NCBI
Celera221,063,779 - 21,106,429 (-)NCBICelera
Cytogenetic Map2p24.1NCBI
HuRef220,956,976 - 20,999,627 (-)NCBIHuRef
CHM1_1221,153,564 - 21,196,210 (-)NCBICHM1_1
T2T-CHM13v2.0221,034,648 - 21,077,293 (-)NCBIT2T-CHM13v2.0
Apob
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39128,027,629 - 8,066,839 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl128,027,648 - 8,066,835 (+)EnsemblGRCm39 Ensembl
GRCm38127,977,629 - 8,016,839 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl127,977,648 - 8,016,835 (+)EnsemblGRCm38mm10GRCm38
MGSCv37127,984,483 - 8,023,645 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36128,003,656 - 8,042,849 (+)NCBIMGSCv36mm8
Celera128,374,429 - 8,411,685 (+)NCBICelera
Cytogenetic Map12A1.1NCBI
cM Map123.53NCBI
Apob
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8636,563,704 - 36,603,300 (+)NCBIGRCr8
mRatBN7.2630,844,386 - 30,883,983 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl630,844,368 - 30,892,497 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx631,136,522 - 31,176,112 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0631,452,442 - 31,492,039 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0630,926,947 - 30,966,539 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0633,176,826 - 33,216,381 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl633,176,778 - 33,224,997 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0642,956,372 - 42,995,922 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4631,508,060 - 31,548,083 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.1631,546,139 - 31,550,758 (+)NCBI
Celera630,299,724 - 30,339,330 (+)NCBICelera
Cytogenetic Map6q14NCBI
Apob
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554693,436,450 - 3,478,424 (-)EnsemblChiLan1.0
ChiLan1.0NW_0049554693,437,422 - 3,478,408 (-)NCBIChiLan1.0ChiLan1.0
APOB
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v212105,485,757 - 105,528,305 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan12A105,489,857 - 105,532,277 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v02A20,986,464 - 21,029,004 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.12A21,100,349 - 21,142,545 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl2A21,100,356 - 21,145,129 (-)Ensemblpanpan1.1panPan2
APOB
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11715,877,937 - 15,916,032 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl1715,878,244 - 15,915,135 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha1715,842,555 - 15,879,853 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.01716,030,075 - 16,067,405 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl1716,030,161 - 16,067,623 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.11715,883,776 - 15,920,986 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.01715,891,112 - 15,928,422 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.01715,923,305 - 15,960,613 (-)NCBIUU_Cfam_GSD_1.0
Apob
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440629260,290,128 - 60,327,775 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_00493649310,509,118 - 10,549,144 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_00493649310,509,118 - 10,549,144 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
APOB
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl3117,250,096 - 117,316,200 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.13117,250,096 - 117,316,200 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Pig Cytomap3q24-qterNCBI
Apob
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046247383,580,033 - 3,620,192 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046247383,579,747 - 3,622,508 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in APOB
993 total Variants

Expression

RNA-SEQ Expression

ectoderm
endocrine system
hemolymphoid system
mesenchyme
mesoderm
nervous system
reproductive system
40 14 17 27 27 30 4

Sequence


Ensembl Acc Id: ENSCSAT00000006180   ⟹   ENSCSAP00000004392
Type: CODING
Position:
Green Monkey AssemblyChrPosition (strand)Source
ChlSab1.1 Ensembl1486,624,332 - 86,668,704 (+)Ensembl
RefSeq Acc Id: XM_038006617   ⟹   XP_037862545
Type: CODING
Position:
Green Monkey AssemblyChrPosition (strand)Source
Vero_WHO_p1.0NW_02366604525,515,337 - 25,558,432 (-)NCBI
Protein Sequences
Protein RefSeqs XP_037862545 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSCSAP00000004392.1
Ensembl Acc Id: ENSCSAP00000004392   ⟸   ENSCSAT00000006180
RefSeq Acc Id: XP_037862545   ⟸   XM_038006617
- UniProtKB: A0A0D9R703 (UniProtKB/TrEMBL)


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSCSAG00000008169 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSCSAT00000006180.1 UniProtKB/TrEMBL
Gene3D-CATH 1.25.10.20 UniProtKB/TrEMBL
  2.20.50.20 UniProtKB/TrEMBL
  Lipovitellin-phosvitin complex, chain A, domain 4 UniProtKB/TrEMBL
InterPro ApoB100_C UniProtKB/TrEMBL
  Apolipoprotein_B UniProtKB/TrEMBL
  Lipid_transp_b-sht_shell UniProtKB/TrEMBL
  Lipid_transpt_N UniProtKB/TrEMBL
  Lipid_transpt_open_b-sht UniProtKB/TrEMBL
  Lipovitellin_superhlx_dom UniProtKB/TrEMBL
  Vitellinogen_b-sht_N UniProtKB/TrEMBL
  Vitellinogen_open_b-sht UniProtKB/TrEMBL
  Vitellinogen_open_b-sht_sub1 UniProtKB/TrEMBL
KEGG Report csab:103220705 UniProtKB/TrEMBL
NCBI Gene APOB ENTREZGENE
PANTHER APOLIPOPROTEIN B UniProtKB/TrEMBL
  APOLIPOPROTEIN B-100 UniProtKB/TrEMBL
Pfam ApoB100_C UniProtKB/TrEMBL
  DUF1081 UniProtKB/TrEMBL
  DUF1943 UniProtKB/TrEMBL
  Vitellogenin_N UniProtKB/TrEMBL
PROSITE VITELLOGENIN UniProtKB/TrEMBL
SMART DUF1943 UniProtKB/TrEMBL
  LPD_N UniProtKB/TrEMBL
Superfamily-SCOP SSF48431 UniProtKB/TrEMBL
UniProt A0A0D9R703 ENTREZGENE, UniProtKB/TrEMBL