Plxdc2 (plexin domain containing 2) - Rat Genome Database

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Gene: Plxdc2 (plexin domain containing 2) Rattus norvegicus
Analyze
Symbol: Plxdc2
Name: plexin domain containing 2
RGD ID: 1305962
Description: Orthologous to human PLXDC2 (plexin domain containing 2); INTERACTS WITH 17beta-estradiol; 17beta-estradiol 3-benzoate; 2,3,7,8-tetrachlorodibenzodioxine.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: LOC108348594; LOC361282; plexin domain-containing protein 2; uncharacterized LOC108348594
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
mRatBN7.21779,169,238 - 79,594,279 (+)NCBImRatBN7.2
mRatBN7.2 Ensembl1779,196,369 - 79,585,282 (+)Ensembl
Rnor_6.01783,221,795 - 83,619,291 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1783,221,827 - 83,610,272 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01784,957,281 - 85,352,887 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41790,572,391 - 90,982,074 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11790,582,853 - 90,992,907 (+)NCBI
Celera1778,507,721 - 78,892,103 (+)NCBICelera
Cytogenetic Map17q12.3NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
17alpha-ethynylestradiol  (ISO)
17beta-estradiol  (EXP,ISO)
17beta-estradiol 3-benzoate  (EXP)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
2,3,7,8-Tetrachlorodibenzofuran  (EXP)
2-hydroxypropanoic acid  (ISO)
3,3',5,5'-tetrabromobisphenol A  (ISO)
3,4-methylenedioxymethamphetamine  (EXP)
3-chloropropane-1,2-diol  (EXP)
4,4'-sulfonyldiphenol  (ISO)
6-propyl-2-thiouracil  (EXP)
acrylamide  (ISO)
aflatoxin B1  (ISO)
Aflatoxin B2 alpha  (ISO)
aristolochic acid  (ISO)
arsane  (ISO)
arsenic atom  (ISO)
arsenite(3-)  (ISO)
atrazine  (EXP)
azoxystrobin  (ISO)
benzo[a]pyrene  (ISO)
bisphenol A  (EXP,ISO)
bisphenol F  (ISO)
cadmium atom  (ISO)
cadmium dichloride  (ISO)
calcitriol  (ISO)
carbon nanotube  (ISO)
chlordecone  (ISO)
choline  (ISO)
cyclosporin A  (ISO)
DDT  (EXP)
dexamethasone  (ISO)
diethylstilbestrol  (ISO)
dioxygen  (ISO)
dorsomorphin  (ISO)
doxorubicin  (ISO)
endosulfan  (EXP)
ethanol  (ISO)
folic acid  (ISO)
fonofos  (ISO)
furan  (EXP)
gentamycin  (EXP)
indole-3-methanol  (EXP)
L-methionine  (ISO)
lead(0)  (ISO)
lead(2+)  (ISO)
methoxychlor  (EXP)
methylmercury chloride  (ISO)
mifepristone  (ISO)
oxaliplatin  (EXP)
paracetamol  (EXP,ISO)
parathion  (ISO)
phenobarbital  (ISO)
phorbol 13-acetate 12-myristate  (ISO)
picoxystrobin  (ISO)
pyrogallol  (ISO)
rac-lactic acid  (ISO)
resveratrol  (ISO)
rotenone  (ISO)
SB 431542  (ISO)
silicon dioxide  (ISO)
sodium arsenate  (ISO)
Soman  (EXP)
sulforaphane  (ISO)
terbufos  (ISO)
testosterone  (EXP)
tetrachloromethane  (ISO)
titanium dioxide  (ISO)
topotecan  (EXP)
tributylstannane  (EXP)
trichostatin A  (ISO)
valproic acid  (EXP,ISO)
vinclozolin  (EXP)
zearalenone  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

Molecular Function

References

References - curated
# Reference Title Reference Citation
1. Rat ISS GO annotations from MGI mouse gene data--August 2006 MGD data from the GO Consortium
2. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
3. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:12477932   PMID:23376485  


Genomics

Comparative Map Data
Plxdc2
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21779,169,238 - 79,594,279 (+)NCBImRatBN7.2
mRatBN7.2 Ensembl1779,196,369 - 79,585,282 (+)Ensembl
Rnor_6.01783,221,795 - 83,619,291 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1783,221,827 - 83,610,272 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01784,957,281 - 85,352,887 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41790,572,391 - 90,982,074 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11790,582,853 - 90,992,907 (+)NCBI
Celera1778,507,721 - 78,892,103 (+)NCBICelera
Cytogenetic Map17q12.3NCBI
PLXDC2
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381019,816,432 - 20,289,856 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p13 Ensembl1019,816,239 - 20,289,856 (+)EnsemblGRCh38hg38GRCh38
GRCh371020,105,361 - 20,578,785 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361020,145,378 - 20,609,121 (+)NCBINCBI36hg18NCBI36
Build 341020,145,377 - 20,609,121NCBI
Celera1019,791,420 - 20,255,195 (+)NCBI
Cytogenetic Map10p12.31NCBI
HuRef1019,769,351 - 20,233,265 (+)NCBIHuRef
CHM1_11020,105,332 - 20,569,079 (+)NCBICHM1_1
T2T-CHM13v2.01019,834,692 - 20,308,236 (+)NCBI
Plxdc2
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39216,360,551 - 16,765,941 (+)NCBIGRCm39mm39
GRCm39 Ensembl216,361,115 - 16,760,650 (+)Ensembl
GRCm38216,355,740 - 16,761,132 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl216,356,304 - 16,755,839 (+)EnsemblGRCm38mm10GRCm38
MGSCv37216,277,949 - 16,673,742 (+)NCBIGRCm37mm9NCBIm37
MGSCv36216,274,076 - 16,669,869 (+)NCBImm8
Celera216,260,069 - 16,656,112 (+)NCBICelera
Cytogenetic Map2A2- A3NCBI
Plxdc2
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554298,150,477 - 8,567,475 (-)EnsemblChiLan1.0
ChiLan1.0NW_0049554298,141,253 - 8,566,927 (-)NCBIChiLan1.0ChiLan1.0
PLXDC2
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.11020,266,534 - 20,733,415 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1020,451,855 - 20,733,415 (+)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v01019,967,265 - 20,443,843 (+)NCBIMhudiblu_PPA_v0panPan3
PLXDC2
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1212,599,907 - 13,111,180 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl212,609,246 - 13,058,236 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha211,292,654 - 11,803,438 (-)NCBI
ROS_Cfam_1.0210,851,378 - 11,309,501 (-)NCBI
UMICH_Zoey_3.1210,161,186 - 10,672,122 (-)NCBI
UNSW_CanFamBas_1.0210,246,228 - 10,758,221 (-)NCBI
UU_Cfam_GSD_1.0210,444,241 - 10,956,254 (-)NCBI
Plxdc2
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440934420,130,043 - 20,545,256 (+)NCBI
SpeTri2.0NW_0049365207,417,112 - 7,831,140 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
PLXDC2
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1054,268,471 - 54,675,927 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11054,260,300 - 54,677,233 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21060,025,884 - 60,239,402 (-)NCBISscrofa10.2Sscrofa10.2susScr3
PLXDC2
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1919,719,032 - 20,171,917 (+)NCBIChlSab1.1chlSab2
Vero_WHO_p1.0NW_02366605125,432,544 - 25,884,472 (+)NCBIVero_WHO_p1.0
Plxdc2
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046247967,876,194 - 8,298,296 (-)EnsemblHetGla_female_1.0hetGla2
HetGla 1.0NW_0046247967,872,864 - 8,298,139 (-)NCBIHetGla_female_1.0hetGla2

Position Markers
D17Got218  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21779,545,943 - 79,546,083 (+)MAPPERmRatBN7.2
Rnor_6.01783,570,570 - 83,570,709NCBIRnor6.0
Rnor_5.01785,304,166 - 85,304,305UniSTSRnor5.0
RGSC_v3.41790,942,736 - 90,942,875UniSTSRGSC3.4
Celera1778,852,879 - 78,853,018UniSTS
Cytogenetic Map17q12.3UniSTS
AV231634  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21779,585,141 - 79,585,223 (+)MAPPERmRatBN7.2
Rnor_6.01783,610,132 - 83,610,213NCBIRnor6.0
Rnor_5.01785,343,728 - 85,343,809UniSTSRnor5.0
RGSC_v3.41790,981,933 - 90,982,014UniSTSRGSC3.4
Celera1778,891,962 - 78,892,043UniSTS
Cytogenetic Map17q12.3UniSTS
AU046959  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21779,468,320 - 79,468,427 (+)MAPPERmRatBN7.2
Rnor_6.01783,494,005 - 83,494,111NCBIRnor6.0
Rnor_5.01785,228,040 - 85,228,146UniSTSRnor5.0
RGSC_v3.41790,862,949 - 90,863,055UniSTSRGSC3.4
Celera1778,775,414 - 78,775,520UniSTS
Cytogenetic Map17q12.3UniSTS
AU022916  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21779,585,548 - 79,585,659 (+)MAPPERmRatBN7.2
Rnor_6.01783,610,539 - 83,610,649NCBIRnor6.0
Rnor_5.01785,344,135 - 85,344,245UniSTSRnor5.0
RGSC_v3.41790,982,340 - 90,982,450UniSTSRGSC3.4
Celera1778,892,369 - 78,892,479UniSTS
Cytogenetic Map17q12.3UniSTS
RH141997  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2537,475,854 - 37,476,073 (-)MAPPERmRatBN7.2
Rnor_6.0538,149,618 - 38,149,836NCBIRnor6.0
Rnor_5.0542,776,712 - 42,776,930UniSTSRnor5.0
RGSC_v3.41790,898,002 - 90,898,220UniSTSRGSC3.4
RGSC_v3.4538,801,490 - 38,801,708UniSTSRGSC3.4
Celera536,444,626 - 36,444,844UniSTS
RH 3.4 Map5170.9UniSTS
Cytogenetic Map17q12.3UniSTS
BE119757  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21779,512,568 - 79,512,734 (+)MAPPERmRatBN7.2
Rnor_6.01783,537,413 - 83,537,578NCBIRnor6.0
Rnor_5.01785,271,009 - 85,271,174UniSTSRnor5.0
RGSC_v3.41790,909,355 - 90,909,520UniSTSRGSC3.4
Celera1778,819,663 - 78,819,828UniSTS
RH 3.4 Map17795.6UniSTS
Cytogenetic Map17q12.3UniSTS
AU049469  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21779,248,583 - 79,248,784 (+)MAPPERmRatBN7.2
Rnor_6.01783,273,764 - 83,273,964NCBIRnor6.0
Rnor_5.01785,009,264 - 85,009,464UniSTSRnor5.0
RGSC_v3.41790,631,180 - 90,631,380UniSTSRGSC3.4
Cytogenetic Map17q12.3UniSTS


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1354663Bvd5Brain ventricular dilatation QTL 53.510.001brain ventricle morphology trait (VT:0000822)hydrocephalus severity score (CMO:0001881)173199078481292925Rat
2301412Kidm40Kidney mass QTL 400.001kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)173747984782479847Rat
2317054Aia12Adjuvant induced arthritis QTL 124.24joint integrity trait (VT:0010548)left rear ankle joint diameter (CMO:0002149)173828150983281509Rat
2317060Aia26Adjuvant induced arthritis QTL 263.22joint integrity trait (VT:0010548)right rear ankle joint diameter (CMO:0002150)173828150983281509Rat
1598871Memor5Memory QTL 55.3exploratory behavior trait (VT:0010471)total horizontal distance resulting from voluntary locomotion in an experimental apparatus (CMO:0001443)174054004180387013Rat
1358295Aocep1Aortic cell protein QTL 16.10.00000071thoracic aorta cellular protein amount (VT:0010598)aortic cell percentage174099000585990005Rat
7411575Bw140Body weight QTL 14030.20.001body mass (VT:0001259)body weight gain (CMO:0000420)174856093586533673Rat
8694181Bw151Body weight QTL 1514.360.001body mass (VT:0001259)body weight gain (CMO:0000420)174856093586533673Rat
2317038Ginf3Gastrointestinal inflammation QTL 32.890.005liver integrity trait (VT:0010547)liver granuloma severity score (CMO:0002157)174992015486533673Rat
2303580Gluco49Glucose level QTL 492blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)175004027186533673Rat
4889894Eae33Experimental allergic encephalomyelitis QTL 335.20.0001nervous system integrity trait (VT:0010566)experimental autoimmune encephalomyelitis severity score (CMO:0001419)175090909986022412Rat
1354588Bvd4Brain ventricular dilatation QTL 45.310.001brain ventricle morphology trait (VT:0000822)hydrocephalus severity score (CMO:0001881)175349882882479847Rat
2302365Gluco40Glucose level QTL 404.79blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)175724684382046127Rat
2317045Aia11Adjuvant induced arthritis QTL 114.06joint integrity trait (VT:0010548)left rear ankle joint diameter (CMO:0002149)176078142686533673Rat
7411577Bw141Body weight QTL 1410.001body mass (VT:0001259)body weight gain (CMO:0000420)176261951686533673Rat
631502Cm26Cardiac mass QTL 263.71heart left ventricle mass (VT:0007031)heart left ventricle wet weight (CMO:0000071)176570358081153923Rat
1300129Rf25Renal function QTL 253.03blood creatinine amount (VT:0005328)creatinine clearance (CMO:0000765)177100332581153923Rat
12904736Cm121Cardiac mass QTL 1210.043heart mass (VT:0007028)heart wet weight to body weight ratio (CMO:0002408)177177462182479847Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:176
Count of miRNA genes:129
Interacting mature miRNAs:144
Transcripts:ENSRNOT00000000155
Prediction methods:Microtar, 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.


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 25 20 4 19 4 8 9 70 35 34 11 8
Low 3 18 36 36 36 2 4 7
Below cutoff 1 1 1

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000000155   ⟹   ENSRNOP00000000155
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1779,196,369 - 79,585,282 (+)Ensembl
Rnor_6.0 Ensembl1783,221,827 - 83,610,272 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000117521   ⟹   ENSRNOP00000080623
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1779,196,369 - 79,585,282 (+)Ensembl
RefSeq Acc Id: NM_001108422   ⟹   NP_001101892
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21779,196,369 - 79,585,283 (+)NCBI
Rnor_6.01783,221,827 - 83,610,273 (+)NCBI
Rnor_5.01784,957,281 - 85,352,887 (+)NCBI
RGSC_v3.41790,572,391 - 90,982,074 (+)RGD
Celera1778,507,721 - 78,892,103 (+)RGD
Sequence:
RefSeq Acc Id: XM_017600633   ⟹   XP_017456122
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21779,196,234 - 79,594,279 (+)NCBI
Rnor_6.01783,221,795 - 83,619,291 (+)NCBI
Sequence:
RefSeq Acc Id: XM_039095935   ⟹   XP_038951863
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21779,280,003 - 79,594,279 (+)NCBI
RefSeq Acc Id: XM_039095936   ⟹   XP_038951864
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21779,279,172 - 79,594,279 (+)NCBI
RefSeq Acc Id: XM_039095937   ⟹   XP_038951865
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21779,169,238 - 79,594,279 (+)NCBI
RefSeq Acc Id: XM_039095938   ⟹   XP_038951866
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21779,169,238 - 79,594,279 (+)NCBI
RefSeq Acc Id: XM_039095939   ⟹   XP_038951867
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21779,169,238 - 79,594,279 (+)NCBI
RefSeq Acc Id: XM_039095940   ⟹   XP_038951868
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21779,195,807 - 79,594,279 (+)NCBI
Reference Sequences
RefSeq Acc Id: NP_001101892   ⟸   NM_001108422
- Peptide Label: precursor
- UniProtKB: B5DEZ8 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_017456122   ⟸   XM_017600633
- Peptide Label: isoform X4
- Sequence:
RefSeq Acc Id: ENSRNOP00000000155   ⟸   ENSRNOT00000000155
RefSeq Acc Id: XP_038951866   ⟸   XM_039095938
- Peptide Label: isoform X3
RefSeq Acc Id: XP_038951865   ⟸   XM_039095937
- Peptide Label: isoform X3
RefSeq Acc Id: XP_038951867   ⟸   XM_039095939
- Peptide Label: isoform X3
RefSeq Acc Id: XP_038951868   ⟸   XM_039095940
- Peptide Label: isoform X3
RefSeq Acc Id: XP_038951864   ⟸   XM_039095936
- Peptide Label: isoform X2
RefSeq Acc Id: XP_038951863   ⟸   XM_039095935
- Peptide Label: isoform X1
RefSeq Acc Id: ENSRNOP00000080623   ⟸   ENSRNOT00000117521
Protein Domains
PSI

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-B5DEZ8-F1-model_v2 AlphaFold B5DEZ8 1-530 view protein structure

Transcriptome

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

Promoters
RGD ID:13700603
Promoter ID:EPDNEW_R11127
Type:initiation region
Name:Plxdc2_1
Description:plexin domain containing 2
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_6.01783,221,778 - 83,221,838EPDNEW

Strain Variation

Strain Sequence Variants (mRatBN7.2)
ACI/EurMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
ACI/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN-Lx/CubMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/NHsdMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/NHsdMcwi (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/SsN (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BUF/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BXH2/CubMcwi (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BXH3/CubMcwi (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
DA/OlaHsd (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Envigo
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/DuCrl (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/NCrl (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/Stm (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FHH/EurMcwi (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FXLE16/Stm (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FXLE18/Stm (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
GK/FarMcwi (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB10/IpcvMcwi (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB2/IpcvMcwi (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB20/IpcvMcwi (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB31/IpcvMcwi (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB4/IpcvMcwi (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LE/Stm (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEW/Crl (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF10A/StmMcwi (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF11/Stm (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF1A/Stm (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF1C/Stm (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF2B/Stm (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF3/Stm (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF4/Stm (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LH/MavRrrcAek (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LL/MavRrrcAek (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LN/MavRrrcAek (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
M520/N (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
M520/NRrrcMcwi (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
MR/N (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
MWF/Hsd (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
PVG/Seac (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SHR/OlalpcvMcwi (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SHRSP/A3NCrl (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SR/JrHsd (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Envigo
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SS/JrHsdMcwi (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WAG/RijCrl (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WKY/N (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WKY/NCrl (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WN/N (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1305962 AgrOrtholog
BioCyc Gene G2FUF-8583 BioCyc
Ensembl Genes ENSRNOG00000000142 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000000155 ENTREZGENE
  ENSRNOP00000000155.5 UniProtKB/TrEMBL
  ENSRNOP00000080623.1 UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000000155 ENTREZGENE
  ENSRNOT00000000155.5 UniProtKB/TrEMBL
  ENSRNOT00000117521.1 UniProtKB/TrEMBL
InterPro Plexin-like_fold UniProtKB/TrEMBL
  Plexin_repeat UniProtKB/TrEMBL
  PLXDC UniProtKB/TrEMBL
  PLXDC2 UniProtKB/TrEMBL
KEGG Report rno:361282 UniProtKB/TrEMBL
NCBI Gene 361282 ENTREZGENE
PANTHER PTHR13055 UniProtKB/TrEMBL
  PTHR13055:SF11 UniProtKB/TrEMBL
Pfam PSI UniProtKB/TrEMBL
PhenoGen Plxdc2 PhenoGen
SMART PSI UniProtKB/TrEMBL
UniProt A0A8I5ZQ78_RAT UniProtKB/TrEMBL
  B5DEZ8 ENTREZGENE, UniProtKB/TrEMBL
  F7EUH5_RAT UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2021-03-09 Plxdc2  plexin domain containing 2  LOC108348594  uncharacterized LOC108348594  Data Merged 737654 PROVISIONAL
2016-08-02 LOC108348594  uncharacterized LOC108348594      Symbol and Name status set to provisional 70820 PROVISIONAL
2008-04-30 Plxdc2  plexin domain containing 2   Plxdc2_predicted  plexin domain containing 2 (predicted)  'predicted' is removed 2292626 APPROVED
2005-01-12 Plxdc2_predicted  plexin domain containing 2 (predicted)      Symbol and Name status set to approved 70820 APPROVED