Pla2g12b (phospholipase A2, group XIIB) - Rat Genome Database

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Gene: Pla2g12b (phospholipase A2, group XIIB) Rattus norvegicus
Analyze
Symbol: Pla2g12b
Name: phospholipase A2, group XIIB
RGD ID: 1588484
Description: Predicted to enable calcium ion binding activity and phospholipase A2 activity. Predicted to be involved in cholesterol homeostasis and triglyceride homeostasis. Predicted to act upstream of or within low-density lipoprotein particle remodeling. Predicted to be located in extracellular region. Orthologous to human PLA2G12B (phospholipase A2 group XIIB); PARTICIPATES IN alpha-linolenic acid metabolic pathway; arachidonic acid metabolic pathway; ether lipid metabolic pathway; INTERACTS WITH 17beta-estradiol; 2,3,7,8-tetrachlorodibenzodioxine; bisphenol A.
Type: protein-coding
RefSeq Status: MODEL
Previously known as: group XIIB secretory phospholipase A2-like protein; LOC367415; similar to phospholipase A2, group XIIB
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
GRCr82027,910,620 - 27,931,734 (+)NCBIGRCr8
mRatBN7.22027,369,196 - 27,389,517 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl2027,370,266 - 27,388,743 (+)EnsemblmRatBN7.2 Ensembl
Rnor_6.02028,989,440 - 29,007,967 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl2028,989,491 - 29,007,968 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.02030,793,778 - 30,812,293 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
Celera2028,813,714 - 28,832,140 (+)NCBICelera
Cytogenetic Map20q11NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component

Molecular Function

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. KEGG Annotation Import Pipeline Pipeline to import KEGG annotations from KEGG into RGD
3. GOA pipeline RGD automated data pipeline
4. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:22912808  


Genomics

Comparative Map Data
Pla2g12b
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr82027,910,620 - 27,931,734 (+)NCBIGRCr8
mRatBN7.22027,369,196 - 27,389,517 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl2027,370,266 - 27,388,743 (+)EnsemblmRatBN7.2 Ensembl
Rnor_6.02028,989,440 - 29,007,967 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl2028,989,491 - 29,007,968 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.02030,793,778 - 30,812,293 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
Celera2028,813,714 - 28,832,140 (+)NCBICelera
Cytogenetic Map20q11NCBI
PLA2G12B
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381072,934,762 - 72,954,806 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1072,934,762 - 72,954,806 (-)EnsemblGRCh38hg38GRCh38
GRCh371074,694,520 - 74,714,564 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361074,364,944 - 74,384,516 (-)NCBINCBI36Build 36hg18NCBI36
Build 341074,364,943 - 74,384,516NCBI
Celera1067,980,077 - 67,999,649 (-)NCBICelera
Cytogenetic Map10q22.1NCBI
HuRef1068,688,779 - 68,708,351 (-)NCBIHuRef
CHM1_11074,976,668 - 74,996,240 (-)NCBICHM1_1
T2T-CHM13v2.01073,806,140 - 73,826,184 (-)NCBIT2T-CHM13v2.0
Pla2g12b
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391059,239,242 - 59,257,798 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1059,239,482 - 59,257,798 (+)EnsemblGRCm39 Ensembl
GRCm381059,403,420 - 59,421,976 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1059,403,660 - 59,421,976 (+)EnsemblGRCm38mm10GRCm38
MGSCv371058,866,433 - 58,884,724 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361058,799,042 - 58,817,333 (+)NCBIMGSCv36mm8
Celera1060,503,964 - 60,522,245 (+)NCBICelera
Cytogenetic Map10B4NCBI
cM Map1029.54NCBI
Pla2g12b
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495543718,694,496 - 18,719,337 (+)EnsemblChiLan1.0
ChiLan1.0NW_00495543718,694,496 - 18,723,311 (+)NCBIChiLan1.0ChiLan1.0
PLA2G12B
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2885,111,134 - 85,130,164 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11085,116,402 - 85,135,486 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01069,482,065 - 69,502,398 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11071,946,072 - 71,965,616 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1071,946,506 - 71,965,482 (-)Ensemblpanpan1.1panPan2
PLA2G12B
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1423,539,909 - 23,561,211 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl423,541,258 - 23,561,041 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha423,678,362 - 23,699,685 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0423,826,379 - 23,847,936 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl423,827,748 - 23,847,930 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1423,725,146 - 23,746,673 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0423,924,120 - 23,945,646 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0424,279,156 - 24,300,450 (-)NCBIUU_Cfam_GSD_1.0
Pla2g12b
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440721357,579,733 - 57,604,031 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365216,072,486 - 6,096,791 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049365216,072,487 - 6,096,791 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
PLA2G12B
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1475,753,727 - 75,778,800 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11475,754,525 - 75,778,933 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21481,819,851 - 81,844,252 (-)NCBISscrofa10.2Sscrofa10.2susScr3
PLA2G12B
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1958,311,609 - 58,335,286 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl958,312,500 - 58,336,930 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366604818,907,588 - 18,935,677 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Pla2g12b
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046247546,653,698 - 6,680,489 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046247546,653,307 - 6,680,063 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Pla2g12b
120 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:55
Count of miRNA genes:46
Interacting mature miRNAs:55
Transcripts:ENSRNOT00000074524
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
8694189Bw153Body weight QTL 1533.130.001body mass (VT:0001259)body weight gain (CMO:0000420)20129191651Rat
9590275Scort15Serum corticosterone level QTL 153.480.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)20129191651Rat
7411650Foco23Food consumption QTL 2320.70.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)20129191651Rat
9590109Sffal8Serum free fatty acids level QTL 85.320.01blood free fatty acid amount (VT:0001553)plasma free fatty acids level (CMO:0000546)20129191651Rat
9589155Insul32Insulin level QTL 326.380.001blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)20129191651Rat
6893685Bw111Body weight QTL 1112.70.004body mass (VT:0001259)body weight (CMO:0000012)20132578807Rat
7411668Foco32Food consumption QTL 3280.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)20136600972Rat
9590252Scort12Serum corticosterone level QTL 1220.460.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)20136600972Rat
2305926Iddm37Insulin dependent diabetes mellitus QTL 376blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)20152784246527842Rat
1641915Colcr9Colorectal carcinoma resistance QTL 92.970.0024intestine integrity trait (VT:0010554)benign colorectal tumor number (CMO:0001795)20153065546530655Rat
1598816Memor12Memory QTL 122.4exploratory behavior trait (VT:0010471)average horizontal distance between subject and target during voluntary locomotion in an experimental apparatus (CMO:0002674)20260683647606836Rat
4889870Pur30Proteinuria QTL 30190.005urine total protein amount (VT:0000032)urine total protein excretion rate (CMO:0000756)20804241029322208Rat
7411652Foco24Food consumption QTL 240.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)201175751554435887Rat
9590092Insglur9Insulin/glucose ratio QTL 918.380.001blood insulin amount (VT:0001560)calculated plasma insulin level (CMO:0002170)201175751554435887Rat
4889610Pancm3Pancreatic morphology QTL 33.750.001pancreas mass (VT:0010144)pancreas wet weight (CMO:0000626)201761783247606836Rat
2317880Alcrsp25Alcohol response QTL 252.3response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)201769755054435887Rat
2303626Vencon10Ventilatory control QTL 100.001respiration trait (VT:0001943)respiration rate (CMO:0000289)201919072154435887Rat
2303578Gluco50Glucose level QTL 502blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)202510672254435887Rat
2303587Bw93Body weight QTL 9313body mass (VT:0001259)body weight (CMO:0000012)202510672254435887Rat
2300188Bmd68Bone mineral density QTL 686.40.0001femur mineral mass (VT:0010011)volumetric bone mineral density (CMO:0001553)202510672254435887Rat
1331747Hrtrt16Heart rate QTL 163.163heart pumping trait (VT:2000009)heart rate (CMO:0000002)202520973454435887Rat

Markers in Region
Pla2g12b  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.22027,388,212 - 27,388,706 (+)MAPPERmRatBN7.2
Rnor_6.02029,007,431 - 29,007,924NCBIRnor6.0
Rnor_5.02030,811,757 - 30,812,250UniSTSRnor5.0
Celera2028,831,604 - 28,832,097UniSTS


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 41 41 41
Low 2 4 2 6 1
Below cutoff 1 17 6 9 3 3 1 5 14 4 3

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000074524   ⟹   ENSRNOP00000067304
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl2027,370,266 - 27,388,743 (+)Ensembl
Rnor_6.0 Ensembl2028,989,491 - 29,007,968 (+)Ensembl
RefSeq Acc Id: XM_006256432   ⟹   XP_006256494
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr82027,910,620 - 27,931,734 (+)NCBI
mRatBN7.22027,369,196 - 27,389,517 (+)NCBI
Rnor_6.02028,989,440 - 29,007,967 (+)NCBI
Rnor_5.02030,793,778 - 30,812,293 (+)NCBI
Sequence:
RefSeq Acc Id: XM_346131   ⟹   XP_346132
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr82027,910,962 - 27,931,734 (+)NCBI
mRatBN7.22027,369,202 - 27,389,517 (+)NCBI
Rnor_6.02028,989,441 - 29,007,967 (+)NCBI
Rnor_5.02030,793,778 - 30,812,293 (+)NCBI
Sequence:
Protein Sequences
Protein RefSeqs XP_006256494 (Get FASTA)   NCBI Sequence Viewer  
  XP_346132 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein EDL93073 (Get FASTA)   NCBI Sequence Viewer  
  EDL93074 (Get FASTA)   NCBI Sequence Viewer  
  EDL93075 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000067304
  ENSRNOP00000067304.2
Reference Protein Sequences
RefSeq Acc Id: XP_346132   ⟸   XM_346131
- Peptide Label: isoform X1
- UniProtKB: A6K3U7 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006256494   ⟸   XM_006256432
- Peptide Label: isoform X2
- UniProtKB: M0RCI5 (UniProtKB/TrEMBL),   A6K3U8 (UniProtKB/TrEMBL),   A6K3U7 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000067304   ⟸   ENSRNOT00000074524

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-M0RCI5-F1-model_v2 AlphaFold M0RCI5 1-195 view protein structure

Transcriptome

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

Promoters
RGD ID:13701591
Promoter ID:EPDNEW_R12112
Type:multiple initiation site
Name:Pla2g12b_1
Description:phospholipase A2, group XIIB
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_6.02028,989,484 - 28,989,544EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1588484 AgrOrtholog
BioCyc Gene G2FUF-3766 BioCyc
Ensembl Genes ENSRNOG00000046619 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000074524.3 UniProtKB/TrEMBL
Gene3D-CATH 1.20.90.10 UniProtKB/TrEMBL
InterPro PLipase_A2_dom_sf UniProtKB/TrEMBL
  PLipase_A2_secretory_G12 UniProtKB/TrEMBL
KEGG Report rno:367415 UniProtKB/TrEMBL
NCBI Gene 367415 ENTREZGENE
PANTHER GROUP XIIB SECRETORY PHOSPHOLIPASE A2-LIKE PROTEIN UniProtKB/TrEMBL
  PTHR12824 UniProtKB/TrEMBL
Pfam PLA2G12 UniProtKB/TrEMBL
PhenoGen Pla2g12b PhenoGen
RatGTEx ENSRNOG00000046619 RatGTEx
Superfamily-SCOP PhospholipaseA2 UniProtKB/TrEMBL
UniProt A6K3U7 ENTREZGENE, UniProtKB/TrEMBL
  A6K3U8 ENTREZGENE, UniProtKB/TrEMBL
  M0RCI5 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2008-03-05 Pla2g12b  phospholipase A2, group XIIB  LOC367415  similar to phospholipase A2, group XIIB  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2006-11-19 LOC367415  similar to phospholipase A2, group XIIB      Symbol and Name status set to provisional 70820 PROVISIONAL