Apol9a (apolipoprotein L9a) - Rat Genome Database

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Advanced Search (OLGA)
Gene: Apol9a (apolipoprotein L9a) Rattus norvegicus
Analyze
Symbol: Apol9a
Name: apolipoprotein L9a
RGD ID: 1562332
Description: Predicted to enable lipid binding activity. Predicted to be involved in lipid transport and lipoprotein metabolic process. Predicted to be located in extracellular region. Human ortholog(s) of this gene implicated in schizophrenia. Orthologous to human APOL1 (apolipoprotein L1); APOL2 (apolipoprotein L2); and APOL4 (apolipoprotein L4); INTERACTS WITH 1-naphthyl isothiocyanate; 17beta-estradiol; 17beta-estradiol 3-benzoate.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: apolipoprotein L 9a; hypothetical protein LOC503164; LOC503164
RGD Orthologs
Human
Mouse
Green Monkey
Alliance Orthologs
More Info more info ...
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr87111,021,452 - 111,030,380 (-)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl7111,021,453 - 111,028,213 (-)EnsemblGRCr8
mRatBN7.27109,140,871 - 109,149,799 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl7109,140,871 - 109,147,649 (-)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx7110,896,421 - 110,903,180 (-)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.07113,120,004 - 113,126,763 (-)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.07113,081,441 - 113,088,205 (-)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.07118,927,013 - 118,933,778 (-)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl7118,927,008 - 118,933,812 (-)Ensemblrn6Rnor6.0
Rnor_5.07118,924,869 - 118,931,634 (-)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.47115,472,725 - 115,479,486 (-)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera7105,488,312 - 105,495,073 (-)NCBICelera
Cytogenetic Map7q34NCBI
JBrowse:




Disease Annotations     Click to see Annotation Detail View

Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(1->4)-beta-D-glucan  (ISO)
1-naphthyl isothiocyanate  (EXP)
17beta-estradiol  (EXP,ISO)
17beta-estradiol 3-benzoate  (EXP)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
2,3,7,8-Tetrachlorodibenzofuran  (ISO)
3-isobutyl-1-methyl-7H-xanthine  (ISO)
4,4'-diaminodiphenylmethane  (EXP)
4,4'-sulfonyldiphenol  (ISO)
6-propyl-2-thiouracil  (EXP)
acetamide  (EXP)
aflatoxin B1  (EXP)
Aflatoxin B2 alpha  (ISO)
aldehydo-D-glucose  (ISO)
alpha-Zearalanol  (EXP)
antirheumatic drug  (ISO)
aristolochic acid A  (ISO)
benzo[a]pyrene  (ISO)
benzo[b]fluoranthene  (ISO)
bisphenol A  (EXP,ISO)
bortezomib  (ISO)
butanal  (ISO)
C60 fullerene  (EXP)
cadmium dichloride  (EXP)
carbon nanotube  (ISO)
CGP 52608  (ISO)
chlormequat chloride  (EXP)
chloroprene  (EXP)
chrysene  (ISO)
copper atom  (EXP)
copper(0)  (EXP)
D-glucose  (ISO)
dexamethasone  (ISO)
dichloroacetic acid  (ISO)
diethyl maleate  (EXP)
dimethylarsinic acid  (ISO)
dioxygen  (EXP)
epoxiconazole  (ISO)
flutamide  (EXP)
fructose  (ISO)
furan  (EXP)
gentamycin  (EXP)
glucose  (ISO)
glycidol  (EXP)
glyphosate  (ISO)
GW 4064  (ISO)
indometacin  (ISO)
lead(0)  (ISO)
methylarsonic acid  (ISO)
N-nitrosodiethylamine  (EXP)
N-nitrosodimethylamine  (EXP)
nickel atom  (ISO)
paracetamol  (EXP)
pentachlorophenol  (ISO)
pentanal  (ISO)
perfluorohexanesulfonic acid  (ISO)
perfluorooctane-1-sulfonic acid  (ISO)
phenobarbital  (ISO)
pirinixic acid  (ISO)
potassium dichromate  (ISO)
pregnenolone 16alpha-carbonitrile  (ISO)
propanal  (ISO)
rotenone  (EXP)
silicon dioxide  (ISO)
sodium arsenate  (ISO)
sodium arsenite  (ISO)
succimer  (ISO)
tamoxifen  (ISO)
testosterone  (EXP)
tetraphene  (ISO)
Theaflavin 3,3'-digallate  (ISO)
thioacetamide  (EXP)
titanium dioxide  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component

Molecular Function
lipid binding  (IBA,IEA)
protein binding  (ISO)

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. OMIM Disease Annotation Pipeline OMIM Disease Annotation Pipeline
3. GOA pipeline RGD automated data pipeline
4. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
5. 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.

Genomics

Comparative Map Data
Apol9a
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr87111,021,452 - 111,030,380 (-)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl7111,021,453 - 111,028,213 (-)EnsemblGRCr8
mRatBN7.27109,140,871 - 109,149,799 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl7109,140,871 - 109,147,649 (-)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx7110,896,421 - 110,903,180 (-)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.07113,120,004 - 113,126,763 (-)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.07113,081,441 - 113,088,205 (-)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.07118,927,013 - 118,933,778 (-)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl7118,927,008 - 118,933,812 (-)Ensemblrn6Rnor6.0
Rnor_5.07118,924,869 - 118,931,634 (-)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.47115,472,725 - 115,479,486 (-)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera7105,488,312 - 105,495,073 (-)NCBICelera
Cytogenetic Map7q34NCBI
APOL4
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh382236,189,128 - 36,204,833 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl2236,189,124 - 36,204,840 (-)Ensemblhg38GRCh38
GRCh372236,585,176 - 36,600,879 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 362234,915,122 - 34,930,825 (-)NCBIBuild 36Build 36hg18NCBI36
Build 342234,909,675 - 34,925,379NCBI
Celera2220,387,749 - 20,403,452 (-)NCBICelera
Cytogenetic Map22q12.3NCBI
HuRef2219,553,303 - 19,569,009 (-)NCBIHuRef
CHM1_12236,544,308 - 36,559,997 (-)NCBICHM1_1
T2T-CHM13v2.02236,649,310 - 36,664,999 (-)NCBIT2T-CHM13v2.0
Apol9a
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391577,287,989 - 77,295,280 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1577,287,989 - 77,295,335 (-)EnsemblGRCm39 EnsemblGRCm39
GRCm381577,403,789 - 77,411,080 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1577,403,789 - 77,411,135 (-)Ensemblmm10GRCm38
MGSCv371577,234,219 - 77,241,510 (-)NCBIMGSCv37MGSCv37mm9NCBIm37
MGSCv361577,231,044 - 77,238,382 (-)NCBIMGSCv36mm8
Celera1578,892,749 - 78,894,701 (-)NCBICelera
Cytogenetic Map15D3NCBI
cM Map1536.4NCBI
LOC103223625
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11918,907,967 - 18,917,968 (-)NCBIChlSab1.1ChlSab1.1chlSab2
Vero_WHO_p1.0NW_023666045106,981,189 - 106,991,930 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0

Variants

.
Variants in Apol9a
83 total Variants
miRNA Target Status (No longer updated)

Predicted Target Of
Summary Value
Count of predictions:214
Count of miRNA genes:157
Interacting mature miRNAs:168
Transcripts:ENSRNOT00000031951
Prediction methods:Microtar, Miranda, Rnahybrid
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
1300179Kidm5Kidney mass QTL 53.51kidney mass (VT:0002707)left kidney wet weight (CMO:0000083)792388565119280177Rat
1331728Bp214Blood pressure QTL 2142.825arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)782111245123048330Rat
1331731Bp216Blood pressure QTL 2162.851arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)7104186212135371468Rat
1357338Stl17Serum triglyceride level QTL 173.23blood triglyceride amount (VT:0002644)serum triglyceride level (CMO:0000360)771621154114982716Rat
70159Bp61Blood pressure QTL 610.0001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)773618702118618702Rat
631687Hcas1Hepatocarcinoma susceptibility QTL 13.90.001liver integrity trait (VT:0010547)liver tumorous lesion volume to total liver volume ratio (CMO:0001082)793302009131686183Rat
61397Bw17Body weight QTL 176.3body mass (VT:0001259)body weight (CMO:0000012)795485047137014596Rat
631504Cm27Cardiac mass QTL 273.45heart left ventricle mass (VT:0007031)heart left ventricle wet weight (CMO:0000071)746307490127866166Rat
634322Bw12Body weight QTL 120body mass (VT:0001259)body weight (CMO:0000012)785043242130043242Rat
70173Niddm19Non-insulin dependent diabetes mellitus QTL 194.330.00005blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)785497398130497398Rat
1549899Stresp8Stress response QTL 84.370.0008stress-related behavior trait (VT:0010451)defensive burying duration (CMO:0001961)792362341137014596Rat
2317052Aia17Adjuvant induced arthritis QTL 172.13joint integrity trait (VT:0010548)left rear ankle joint diameter (CMO:0002149)783626689128626689Rat
1331723Bw25Body weight QTL 253.348body mass (VT:0001259)body weight (CMO:0000012)796700404111672180Rat
631529Tls2T-lymphoma susceptibility QTL 200.001thymus integrity trait (VT:0010555)percentage of study population developing T-cell lymphomas during a period of time (CMO:0001911)782111382132099989Rat
731176Glom5Glomerulus QTL 52.50.0035kidney glomerulus morphology trait (VT:0005325)count of superficial glomeruli not directly contacting the kidney surface (CMO:0001002)798549867137014596Rat
7411607Foco15Food consumption QTL 150.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)777807807122807807Rat
631201Panci1Pancreas inflammation QTL 100.001pancreas integrity trait (VT:0010560)percentage of study population displaying chronic pancreatitis at a point in time (CMO:0001214)773557047118557047Rat
634336Anxrr17Anxiety related response QTL 173.66locomotor behavior trait (VT:0001392)number of entries into a discrete space in an experimental apparatus (CMO:0000960)71509236116977875Rat
1331768Kidm10Kidney mass QTL 104.62096kidney mass (VT:0002707)left kidney wet weight (CMO:0000083)782111245123048330Rat
61357Bp38Blood pressure QTL 381.60.052arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)740540077123682549Rat
2313102Bmd79Bone mineral density QTL 792.30.0001tibia mineral mass (VT:1000283)total volumetric bone mineral density (CMO:0001728)796700404118618702Rat
2316947Rf58Renal function QTL 587.8kidney glomerulus morphology trait (VT:0005325)index of glomerular damage (CMO:0001135)749682832115766396Rat
1331748Bp215Blood pressure QTL 2154.043arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)7110725024135371468Rat
10450862Kidm55Kidney mass QTL 554.9kidney mass (VT:0002707)kidney weight (CMO:0000081)772725037117725037Rat
61428Scl3Serum cholesterol level QTL 33.2blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)7100548246137014596Rat
1331746Kidm9Kidney mass QTL 93.934kidney mass (VT:0002707)right kidney wet weight (CMO:0000082)782111245134948181Rat
10450856Livw4Liver weight QTL 43.8liver mass (VT:0003402)liver weight (CMO:0000092)772725037117725037Rat
7411654Foco25Food consumption QTL 259.30.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)777807807122807807Rat
2316955Stl24Serum triglyceride level QTL 247.1blood triglyceride amount (VT:0002644)plasma triglyceride level (CMO:0000548)749682832115766396Rat
10402855Bp379Blood pressure QTL 3790.21arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)778682549123682549Rat
2316952Pur22Proteinuria QTL 225.2urine protein amount (VT:0005160)urine protein level (CMO:0000591)749682832115766396Rat
631540Bw9Body weight QTL 94.5body mass (VT:0001259)body weight (CMO:0000012)771621154119349044Rat
1358891Bp265Blood pressure QTL 2652.21arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)771827901136544683Rat

Markers in Region
RH137445  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.27109,140,932 - 109,141,149 (+)MAPPERmRatBN7.2
Rnor_6.07118,927,079 - 118,927,295NCBIRnor6.0
Rnor_5.07118,924,935 - 118,925,151UniSTSRnor5.0
RGSC_v3.47115,472,787 - 115,473,003UniSTSRGSC3.4
Celera7105,488,374 - 105,488,590UniSTS
Cytogenetic Map7q34UniSTS


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 67 127 83 82 51 74 51 6 327 174 11 105 78 83 31 15 15

Sequence

Nucleotide Sequences
RefSeq Transcripts NM_001025066 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NM_001429364 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NM_001429365 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NM_001429366 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NM_001429367 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NM_001429368 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NM_001429369 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NM_001429370 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NM_001429377 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NM_001429378 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008765642 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039079781 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_063264153 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide BC083768 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CH473950 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JAXUCZ010000007 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Ensembl Acc Id: ENSRNOT00000031951   ⟹   ENSRNOP00000036679
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl7111,021,453 - 111,028,213 (-)Ensembl
mRatBN7.2 Ensembl7109,140,871 - 109,147,649 (-)Ensembl
Rnor_6.0 Ensembl7118,927,008 - 118,933,812 (-)Ensembl
RefSeq Acc Id: NM_001025066   ⟹   NP_001020237
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr87111,021,452 - 111,028,213 (-)NCBI
mRatBN7.27109,140,871 - 109,147,632 (-)NCBI
Rnor_6.07118,927,017 - 118,933,778 (-)NCBI
Rnor_5.07118,924,869 - 118,931,634 (-)NCBI
RGSC_v3.47115,472,725 - 115,479,486 (-)RGD
Celera7105,488,312 - 105,495,073 (-)RGD
Sequence:
RefSeq Acc Id: XM_008765642   ⟹   XP_008763864
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr87111,021,452 - 111,030,338 (-)NCBI
mRatBN7.27109,140,871 - 109,142,627 (-)NCBI
Rnor_6.07118,927,013 - 118,928,870 (-)NCBI
Sequence:
RefSeq Acc Id: XM_039079781   ⟹   XP_038935709
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr87111,021,452 - 111,030,380 (-)NCBI
mRatBN7.27109,140,871 - 109,149,799 (-)NCBI
RefSeq Acc Id: XM_063264153   ⟹   XP_063120223
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr87111,021,452 - 111,028,208 (-)NCBI
RefSeq Acc Id: NP_001020237   ⟸   NM_001025066
- UniProtKB: Q5XIB6 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_008763864   ⟸   XM_008765642
- Peptide Label: isoform X2
- Sequence:
Ensembl Acc Id: ENSRNOP00000036679   ⟸   ENSRNOT00000031951
RefSeq Acc Id: XP_038935709   ⟸   XM_039079781
- Peptide Label: isoform X1
RefSeq Acc Id: XP_063120223   ⟸   XM_063264153
- Peptide Label: isoform X1

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q5XIB6-F1-model_v2 AlphaFold Q5XIB6 1-313 view protein structure

Transcriptome

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

Promoters
RGD ID:13695452
Promoter ID:EPDNEW_R5976
Type:multiple initiation site
Name:Apol9a_1
Description:apolipoprotein L 9a
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_6.07118,933,795 - 118,933,855EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1562332 AgrOrtholog
BioCyc Gene G2FUF-32881 BioCyc
Ensembl Genes ENSRNOG00000023410 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000031951 ENTREZGENE
  ENSRNOT00000031951.6 UniProtKB/TrEMBL
IMAGE_CLONE IMAGE:7193209 IMAGE-MGC_LOAD
InterPro ApoL UniProtKB/TrEMBL
KEGG Report rno:503164 UniProtKB/TrEMBL
MGC_CLONE MGC:94714 IMAGE-MGC_LOAD
NCBI Gene 503164 ENTREZGENE
PANTHER ApoL UniProtKB/TrEMBL
  APOL9A PROTEIN-RELATED UniProtKB/TrEMBL
Pfam ApoL UniProtKB/TrEMBL
PhenoGen Apol9a PhenoGen
RatGTEx ENSRNOG00000023410 RatGTEx
UniProt Q5XIB6 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2024-03-29 Apol9a  apolipoprotein L9a  Apol9a  apolipoprotein L 9a  Name changed 629549 APPROVED
2008-03-17 Apol9a  apolipoprotein L 9a  LOC503164  hypothetical protein LOC503164  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2006-02-09 LOC503164  hypothetical protein LOC503164      Symbol and Name status set to provisional 70820 PROVISIONAL