APOB (apolipoprotein B) - Rat Genome Database

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Gene: APOB (apolipoprotein B) Sus scrofa
Analyze
Symbol: APOB
Name: apolipoprotein B
RGD ID: 14164489
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); INTERACTS WITH ammonia
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: apolipoprotein B (including Ag(x) antigen); apolipoprotein B-100
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Bonobo
Dog
Squirrel
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: Sscrofa11.1 - Pig Sscrofa11.1 Assembly
Position:
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
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-Chemical Interaction Annotations     Click to see Annotation Detail View
ammonia  (EXP)

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Molecular Function

Molecular Pathway Annotations     Click to see Annotation Detail View
References
Additional References at PubMed
PMID:1570895   PMID:2256939   PMID:2905687   PMID:7904801   PMID:8409766   PMID:8422508   PMID:14681463   PMID:19544207   PMID:30032202  


Genomics

Comparative Map Data
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
(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
(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
(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
2421 total Variants

Expression

RNA-SEQ Expression

alimentary part of gastrointestinal system
ectoderm
endocrine system
hemolymphoid system
mesenchyme
mesoderm
nervous system
renal system
reproductive system
respiratory system
10 3 1 2 9 5 3 3 3 1

Sequence


Ensembl Acc Id: ENSSSCT00000009406   ⟹   ENSSSCP00000009166
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1 Ensembl3117,277,055 - 117,316,155 (+)Ensembl
Ensembl Acc Id: ENSSSCT00000037331   ⟹   ENSSSCP00000042786
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1 Ensembl3117,275,981 - 117,316,200 (+)Ensembl
Ensembl Acc Id: ENSSSCT00000062425   ⟹   ENSSSCP00000038841
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1 Ensembl3117,250,096 - 117,316,200 (+)Ensembl
Ensembl Acc Id: ENSSSCT00000085003   ⟹   ENSSSCP00000072773
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1 Ensembl3117,277,055 - 117,316,200 (+)Ensembl
RefSeq Acc Id: NM_001315684   ⟹   NP_001302613
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.13117,250,096 - 117,316,200 (+)NCBI
Sequence:
RefSeq Acc Id: XM_021085692   ⟹   XP_020941351
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.13117,275,981 - 117,316,200 (+)NCBI
Sequence:
RefSeq Acc Id: NP_001302613   ⟸   NM_001315684
- Sequence:
RefSeq Acc Id: XP_020941351   ⟸   XM_021085692
- Peptide Label: isoform X1
- Sequence:
Ensembl Acc Id: ENSSSCP00000009166   ⟸   ENSSSCT00000009406
Ensembl Acc Id: ENSSSCP00000072773   ⟸   ENSSSCT00000085003
Ensembl Acc Id: ENSSSCP00000042786   ⟸   ENSSSCT00000037331
Ensembl Acc Id: ENSSSCP00000038841   ⟸   ENSSSCT00000062425

Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSSSCG00000008595 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
  ENSSSCG00030069085 UniProtKB/TrEMBL
  ENSSSCG00035043833 UniProtKB/TrEMBL
  ENSSSCG00040008524 UniProtKB/TrEMBL
  ENSSSCG00045029291 UniProtKB/TrEMBL
  ENSSSCG00055026711 UniProtKB/TrEMBL
  ENSSSCG00070013343 UniProtKB/TrEMBL
Ensembl Transcript ENSSSCT00000009406.5 UniProtKB/TrEMBL
  ENSSSCT00000037331 ENTREZGENE
  ENSSSCT00000037331.2 UniProtKB/TrEMBL
  ENSSSCT00000062425.1 UniProtKB/TrEMBL
  ENSSSCT00000085003.1 UniProtKB/TrEMBL
  ENSSSCT00030096875.1 UniProtKB/TrEMBL
  ENSSSCT00030096973.1 UniProtKB/TrEMBL
  ENSSSCT00030097070.1 UniProtKB/TrEMBL
  ENSSSCT00035058295.1 UniProtKB/TrEMBL
  ENSSSCT00035058309.1 UniProtKB/TrEMBL
  ENSSSCT00035058323.1 UniProtKB/TrEMBL
  ENSSSCT00040011391.1 UniProtKB/TrEMBL
  ENSSSCT00040011547.1 UniProtKB/TrEMBL
  ENSSSCT00040011575.1 UniProtKB/TrEMBL
  ENSSSCT00040011607.1 UniProtKB/TrEMBL
  ENSSSCT00045050145.1 UniProtKB/TrEMBL
  ENSSSCT00045050343.1 UniProtKB/TrEMBL
  ENSSSCT00045050604.1 UniProtKB/TrEMBL
  ENSSSCT00055053001.1 UniProtKB/TrEMBL
  ENSSSCT00055053169.1 UniProtKB/TrEMBL
  ENSSSCT00055053310.1 UniProtKB/TrEMBL
  ENSSSCT00070026167.1 UniProtKB/TrEMBL
  ENSSSCT00070026239.1 UniProtKB/TrEMBL
  ENSSSCT00070026280.1 UniProtKB/TrEMBL
  ENSSSCT00070026293.1 UniProtKB/TrEMBL
  ENSSSCT00070026301.1 UniProtKB/TrEMBL
Gene3D-CATH 1.25.10.20 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
KEGG Report ssc:100523371 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 A0A0F6RAQ8_PIG UniProtKB/TrEMBL
  A0A0F6TNY5_PIG UniProtKB/TrEMBL
  A0A287A4X9_PIG UniProtKB/TrEMBL
  A0A287AG13 ENTREZGENE, UniProtKB/TrEMBL
  A0A4X1U1Q0_PIG UniProtKB/TrEMBL
  A0A4X1U1X1_PIG UniProtKB/TrEMBL
  A0A4X1U1X7 ENTREZGENE, UniProtKB/TrEMBL
  A0A4X1U229_PIG UniProtKB/TrEMBL
  A0A4X1U273_PIG UniProtKB/TrEMBL
  A0A5G2RKR8_PIG UniProtKB/TrEMBL
  A0A8D0Y496_PIG UniProtKB/TrEMBL
  A0A8D0Y573_PIG UniProtKB/TrEMBL
  A0A8D0Y5A7_PIG UniProtKB/TrEMBL
  A0A8D0ZTN4_PIG UniProtKB/TrEMBL
  A0A8D0ZXA8_PIG UniProtKB/TrEMBL
  A0A8D1A205_PIG UniProtKB/TrEMBL
  A0A8D1DB34_PIG UniProtKB/TrEMBL
  A0A8D1DB67_PIG UniProtKB/TrEMBL
  A0A8D1DBA1_PIG UniProtKB/TrEMBL
  A0A8D1DBA2_PIG UniProtKB/TrEMBL
  A0A8D1INP7_PIG UniProtKB/TrEMBL
  A0A8D1IU98_PIG UniProtKB/TrEMBL
  A0A8D1L463_PIG UniProtKB/TrEMBL
  A0A8D1S2T9_PIG UniProtKB/TrEMBL
  A0A8D1S9C4_PIG UniProtKB/TrEMBL
  A0A8D1UC32_PIG UniProtKB/TrEMBL
  F1SCV9_PIG UniProtKB/TrEMBL
  G5CW13_PIG UniProtKB/TrEMBL
  G8ABQ4_PIG UniProtKB/TrEMBL
  G8ABQ7_PIG UniProtKB/TrEMBL
  G8ABQ8_PIG UniProtKB/TrEMBL
  G8ABR3_PIG UniProtKB/TrEMBL
  G8ABR4_PIG UniProtKB/TrEMBL
  G8ABR7_PIG UniProtKB/TrEMBL
  G8ABR8_PIG UniProtKB/TrEMBL
  G8ABS0_PIG UniProtKB/TrEMBL
  G8ABS3_PIG UniProtKB/TrEMBL
  G8ABS5_PIG UniProtKB/TrEMBL
  G8ABT1_PIG UniProtKB/TrEMBL
  Q29020_PIG UniProtKB/TrEMBL
  Q29021_PIG UniProtKB/TrEMBL
  Q29022_PIG UniProtKB/TrEMBL
  Q29433_PIG UniProtKB/TrEMBL
  Q99016_PIG UniProtKB/TrEMBL
VGNC ID VGNC:85417 ENTREZGENE