Plxnb2 (plexin B2) - Rat Genome Database

Send us a Message



Submit Data |  Help |  Video Tutorials |  News |  Publications |  Download |  REST API |  Citing RGD |  Contact   
Gene: Plxnb2 (plexin B2) Rattus norvegicus
Analyze
Symbol: Plxnb2
Name: plexin B2
RGD ID: 1305495
Description: Predicted to have semaphorin receptor activity. Predicted to be involved in several processes, including homophilic cell adhesion via plasma membrane adhesion molecules; nervous system development; and regulation of cellular protein metabolic process. Predicted to localize to integral component of plasma membrane and semaphorin receptor complex. Orthologous to human PLXNB2 (plexin B2); INTERACTS WITH 6-propyl-2-thiouracil; bisphenol A; C60 fullerene.
Type: protein-coding
RefSeq Status: PROVISIONAL
Also known as: LOC315217; plexin-B2
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: Rnor_6.0 - RGSC Genome Assembly v6.0
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.27120,232,276 - 120,258,385 (-)NCBI
Rnor_6.0 Ensembl7130,135,464 - 130,151,880 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.07130,135,484 - 130,161,568 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.07129,821,099 - 129,847,380 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.47127,457,133 - 127,483,162 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.17127,492,148 - 127,508,267 (-)NCBI
Celera7116,706,163 - 116,732,180 (-)NCBICelera
Cytogenetic Map7q34NCBI
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
(S)-colchicine  (ISO)
1,2-dimethylhydrazine  (ISO)
14-Deoxy-11,12-didehydroandrographolide  (ISO)
17beta-estradiol  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (ISO)
2-methylcholine  (ISO)
3,4-methylenedioxymethamphetamine  (ISO)
4-hydroxyphenyl retinamide  (ISO)
6-propyl-2-thiouracil  (EXP)
acrolein  (ISO)
acrylamide  (ISO)
adenine  (ISO)
aflatoxin B1  (ISO)
aflatoxin B2  (ISO)
alpha-pinene  (ISO)
antirheumatic drug  (ISO)
aristolochic acid  (ISO)
arsane  (ISO)
arsenic atom  (ISO)
arsenite(3-)  (ISO)
arsenous acid  (ISO)
benzo[a]pyrene  (ISO)
benzo[e]pyrene  (ISO)
bisphenol A  (EXP,ISO)
C60 fullerene  (EXP)
carbamazepine  (ISO)
carbon nanotube  (ISO)
cisplatin  (ISO)
cocaine  (EXP)
copper atom  (ISO)
copper(0)  (ISO)
coumestrol  (ISO)
diarsenic trioxide  (ISO)
dioxygen  (ISO)
disulfiram  (ISO)
doxorubicin  (ISO)
elemental selenium  (ISO)
endosulfan  (EXP)
ethanol  (ISO)
ethyl methanesulfonate  (ISO)
fenamidone  (ISO)
folic acid  (ISO)
formaldehyde  (ISO)
hypochlorous acid  (ISO)
isobutanol  (ISO)
lead(0)  (ISO)
lead(2+)  (ISO)
methapyrilene  (ISO)
methyl methanesulfonate  (ISO)
N-ethyl-N-nitrosourea  (ISO)
nefazodone  (EXP)
nickel atom  (ISO)
ozone  (ISO)
paracetamol  (ISO)
phenytoin  (ISO)
pirinixic acid  (ISO)
piroxicam  (ISO)
quercetin  (ISO)
resveratrol  (ISO)
selenium atom  (ISO)
serpentine asbestos  (ISO)
Soman  (EXP)
tert-butyl hydroperoxide  (ISO)
tetrachloromethane  (EXP)
titanium dioxide  (ISO)
triclosan  (ISO)
tungsten  (ISO)
valproic acid  (ISO)
vinclozolin  (EXP)

References

Additional References at PubMed
PMID:15330859   PMID:16122393   PMID:17554007   PMID:19581412   PMID:20458337   PMID:21966369   PMID:23376485   PMID:29100074   PMID:29981480  


Genomics

Comparative Map Data
Plxnb2
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.27120,232,276 - 120,258,385 (-)NCBI
Rnor_6.0 Ensembl7130,135,464 - 130,151,880 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.07130,135,484 - 130,161,568 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.07129,821,099 - 129,847,380 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.47127,457,133 - 127,483,162 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.17127,492,148 - 127,508,267 (-)NCBI
Celera7116,706,163 - 116,732,180 (-)NCBICelera
Cytogenetic Map7q34NCBI
PLXNB2
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl2250,274,979 - 50,307,646 (-)EnsemblGRCh38hg38GRCh38
GRCh382250,274,979 - 50,307,646 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh372250,713,408 - 50,746,075 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 362249,055,535 - 49,086,830 (-)NCBINCBI36hg18NCBI36
Celera2234,588,312 - 34,609,097 (-)NCBI
Cytogenetic Map22q13.33NCBI
HuRef2233,610,818 - 33,631,643 (-)NCBIHuRef
CHM1_12250,672,148 - 50,704,747 (-)NCBICHM1_1
Plxnb2
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391589,039,749 - 89,065,384 (-)NCBIGRCm39mm39
GRCm39 Ensembl1589,039,752 - 89,064,991 (-)Ensembl
GRCm381589,155,546 - 89,182,018 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1589,155,549 - 89,180,788 (-)EnsemblGRCm38mm10GRCm38
MGSCv371588,985,979 - 89,011,218 (-)NCBIGRCm37mm9NCBIm37
MGSCv361588,983,312 - 89,008,554 (-)NCBImm8
Celera1591,284,651 - 91,309,986 (-)NCBICelera
Cytogenetic Map15E3NCBI
cM Map1544.68NCBI
Plxnb2
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495541333,298,317 - 33,309,961 (-)EnsemblChiLan1.0
ChiLan1.0NW_00495541333,297,617 - 33,314,371 (-)NCBIChiLan1.0ChiLan1.0
PLXNB2
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.12249,502,117 - 49,527,780 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl2249,502,489 - 49,517,613 (-)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v02230,503,884 - 30,537,082 (-)NCBIMhudiblu_PPA_v0panPan3
PLXNB2
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11016,949,230 - 16,975,109 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl1016,963,396 - 16,974,705 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha1016,928,363 - 16,953,552 (+)NCBI
ROS_Cfam_1.01017,677,119 - 17,702,321 (+)NCBI
UMICH_Zoey_3.11017,401,245 - 17,426,434 (+)NCBI
UNSW_CanFamBas_1.01017,724,556 - 17,749,721 (+)NCBI
UU_Cfam_GSD_1.01017,856,713 - 17,881,895 (+)NCBI
Plxnb2
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024404945522,686 - 539,474 (+)NCBI
SpeTri2.0NW_004936629521,981 - 539,475 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
PLXNB2
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.15390,347 - 416,805 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
PLXNB2
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11932,764,329 - 32,797,223 (-)NCBI
ChlSab1.1 Ensembl1932,764,272 - 32,784,566 (-)Ensembl
Vero_WHO_p1.0NW_02366604592,557,436 - 92,590,397 (+)NCBI
Plxnb2
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_004624752473,451 - 498,555 (+)NCBI

Position Markers
D7Rat197  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.27120,240,322 - 120,240,550 (+)MAPPER
Rnor_6.07130,143,531 - 130,143,758NCBIRnor6.0
Rnor_5.07129,829,146 - 129,829,373UniSTSRnor5.0
RGSC_v3.47127,465,179 - 127,465,407RGDRGSC3.4
RGSC_v3.47127,465,180 - 127,465,407UniSTSRGSC3.4
RGSC_v3.17127,499,409 - 127,499,637RGD
Celera7116,714,209 - 116,714,436UniSTS
SHRSP x BN Map770.3499RGD
SHRSP x BN Map770.3499UniSTS
Cytogenetic Map7q34UniSTS
BB195788  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.27120,259,549 - 120,259,687 (+)MAPPER
Rnor_6.07130,162,753 - 130,162,890NCBIRnor6.0
Rnor_5.07129,848,584 - 129,848,721UniSTSRnor5.0
RGSC_v3.47127,484,402 - 127,484,539UniSTSRGSC3.4
Celera7116,733,417 - 116,733,554UniSTS
Cytogenetic Map7q34UniSTS
RH138860  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.27120,259,619 - 120,259,764 (+)MAPPER
Rnor_6.07130,162,823 - 130,162,967NCBIRnor6.0
Rnor_5.07129,848,654 - 129,848,798UniSTSRnor5.0
RGSC_v3.47127,484,472 - 127,484,616UniSTSRGSC3.4
Celera7116,733,487 - 116,733,631UniSTS
RH 3.4 Map7958.3UniSTS
Cytogenetic Map7q34UniSTS


QTLs in Region (Rnor_6.0)
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)751251919145729302Rat
70173Niddm19Non-insulin dependent diabetes mellitus QTL 194.330.00005blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)771448715145729302Rat
634331Pia17Pristane induced arthritis QTL 174.7joint integrity trait (VT:0010548)arthritic paw count (CMO:0001460)781645773140745067Rat
7411607Foco15Food consumption QTL 150.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)785595369130595369Rat
7411654Foco25Food consumption QTL 259.30.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)785595369130595369Rat
1331768Kidm10Kidney mass QTL 104.62096kidney mass (VT:0002707)left kidney wet weight (CMO:0000083)788365265133365265Rat
1331728Bp214Blood pressure QTL 2142.825arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)788365265134673427Rat
2317052Aia17Adjuvant induced arthritis QTL 172.13joint integrity trait (VT:0010548)left rear ankle joint diameter (CMO:0002149)791018361136018361Rat
1358914Bp266Blood pressure QTL 266arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)791832949145158140Rat
1358891Bp265Blood pressure QTL 2652.21arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)791832949145158140Rat
71114Niddm14Non-insulin dependent diabetes mellitus QTL 144.5blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)793726906138726906Rat
2298475Eau6Experimental allergic uveoretinitis QTL 60.0029uvea integrity trait (VT:0010551)experimental autoimmune uveitis score (CMO:0001504)793726906138726906Rat
1558655Swd4Spike wave discharge measurement QTL 43.680.0002brain electrophysiology trait (VT:0010557)brain spike-and-wave discharge severity grade (CMO:0001988)796630946141630946Rat
2299163Iddm34Insulin dependent diabetes mellitus QTL 342.71blood glucose amount (VT:0000188)age at onset/diagnosis of type 1 diabetes mellitus (CMO:0001140)7100028953145729302Rat
631687Hcas1Hepatocarcinoma susceptibility QTL 13.90.001liver integrity trait (VT:0010547)liver tumorous lesion volume to total liver volume ratio (CMO:0001082)7100160423140335001Rat
1549899Stresp8Stress response QTL 84.370.0008stress-related behavior trait (VT:0010451)defensive burying duration (CMO:0001961)7100192194145192194Rat
731176Glom5Glomerulus QTL 52.50.0035kidney glomerulus morphology trait (VT:0005325)count of superficial glomeruli not directly contacting the kidney surface (CMO:0001002)7106564316145729302Rat
1331731Bp216Blood pressure QTL 2162.851arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)7111519266143965591Rat
731174Uae23Urinary albumin excretion QTL 232.40.0042urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)7114825174145729302Rat
2306821Bp335Blood pressure QTL 3350.001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)7115922628145729302Rat
631663Bw6Body weight QTL 63.4body mass (VT:0001259)body weight (CMO:0000012)7120746024145692398Rat
1300112Bp183Blood pressure QTL 1833.51arterial blood pressure trait (VT:2000000)blood pressure time series experimental set point of the baroreceptor response (CMO:0002593)7121654760145729302Rat
1331748Bp215Blood pressure QTL 2154.043arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)7121986439143965591Rat
1357339Stl14Serum triglyceride level QTL 143.450.0001blood triglyceride amount (VT:0002644)serum triglyceride level (CMO:0000360)7122421276143965415Rat
1582240Sffal1Serum free fatty acids level QTL 13.40.0021blood free fatty acid amount (VT:0001553)serum free fatty acids level (CMO:0000547)7126463649134098026Rat
631201Panci1Pancreas inflammation QTL 100.001pancreas integrity trait (VT:0010560)percentage of study population displaying chronic pancreatitis at a point in time (CMO:0001214)7126463827137325116Rat
1354582Stl11Serum triglyceride level QTL 113.42blood triglyceride amount (VT:0002644)serum triglyceride level (CMO:0000360)7129412003145729302Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:111
Count of miRNA genes:85
Interacting mature miRNAs:96
Transcripts:ENSRNOT00000010467
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.


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 3 37 51 41 13 41 1 4 74 35 41 11 1
Low 6 6 6 7 7 7
Below cutoff

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000010467   ⟹   ENSRNOP00000010467
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl7130,135,484 - 130,151,414 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000088623   ⟹   ENSRNOP00000072434
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl7130,135,464 - 130,151,880 (-)Ensembl
RefSeq Acc Id: NM_001108106   ⟹   NP_001101576
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.27120,232,276 - 120,258,310 (-)NCBI
Rnor_6.07130,135,484 - 130,161,513 (-)NCBI
Rnor_5.07129,821,099 - 129,847,380 (-)NCBI
RGSC_v3.47127,457,133 - 127,483,162 (-)RGD
Celera7116,706,163 - 116,732,180 (-)RGD
Sequence:
RefSeq Acc Id: XM_006242202   ⟹   XP_006242264
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.27120,232,331 - 120,258,294 (-)NCBI
Rnor_6.07130,135,539 - 130,161,568 (-)NCBI
Rnor_5.07129,821,099 - 129,847,380 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006242205   ⟹   XP_006242267
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.07130,135,539 - 130,157,280 (-)NCBI
Rnor_5.07129,821,099 - 129,847,380 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006242206   ⟹   XP_006242268
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.07130,135,539 - 130,161,568 (-)NCBI
Rnor_5.07129,821,099 - 129,847,380 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006242207   ⟹   XP_006242269
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.27120,232,331 - 120,258,294 (-)NCBI
Rnor_6.07130,135,539 - 130,161,568 (-)NCBI
Rnor_5.07129,821,099 - 129,847,380 (-)NCBI
Sequence:
RefSeq Acc Id: XM_008765727   ⟹   XP_008763949
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.27120,232,331 - 120,248,679 (-)NCBI
Rnor_6.07130,135,539 - 130,161,568 (-)NCBI
Sequence:
RefSeq Acc Id: XM_008765728   ⟹   XP_008763950
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.07130,135,539 - 130,157,280 (-)NCBI
Sequence:
RefSeq Acc Id: XM_008765729   ⟹   XP_008763951
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.27120,232,331 - 120,258,360 (-)NCBI
Rnor_6.07130,135,539 - 130,161,568 (-)NCBI
Sequence:
RefSeq Acc Id: XM_017594880   ⟹   XP_017450369
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.07130,135,539 - 130,154,657 (-)NCBI
Sequence:
RefSeq Acc Id: XM_017594881   ⟹   XP_017450370
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.07130,135,539 - 130,158,541 (-)NCBI
Sequence:
RefSeq Acc Id: XM_039079305   ⟹   XP_038935233
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.27120,232,331 - 120,258,385 (-)NCBI
Reference Sequences
RefSeq Acc Id: NP_001101576   ⟸   NM_001108106
- Peptide Label: precursor
- UniProtKB: D3ZQ57 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006242264   ⟸   XM_006242202
- Peptide Label: isoform X1
- UniProtKB: D3ZQ57 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006242269   ⟸   XM_006242207
- Peptide Label: isoform X1
- UniProtKB: D3ZQ57 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006242268   ⟸   XM_006242206
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_006242267   ⟸   XM_006242205
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_008763951   ⟸   XM_008765729
- Peptide Label: isoform X1
- UniProtKB: D3ZQ57 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_008763949   ⟸   XM_008765727
- Peptide Label: isoform X1
- UniProtKB: D3ZQ57 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_008763950   ⟸   XM_008765728
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_017450370   ⟸   XM_017594881
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_017450369   ⟸   XM_017594880
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: ENSRNOP00000010467   ⟸   ENSRNOT00000010467
RefSeq Acc Id: ENSRNOP00000072434   ⟸   ENSRNOT00000088623
RefSeq Acc Id: XP_038935233   ⟸   XM_039079305
- Peptide Label: isoform X1
Protein Domains
Sema

Transcriptome

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


Strain Variation

Strain Sequence Variants (Rnor 6.0)
ACI/EurMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
ACI/EurMcwi (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
ACI/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
BBDP/Wor (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
BN/SsN (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
Buf/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
COP/CrCrl (MCW & UW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
University of Wisconsin (Dr. James Shull)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Charles River Laboratories
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob) and UW Madison (Dr. James Shull)
F344/NCrl (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
F344/NRrrc (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
FHH/EurMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
FHH/EurMcwi (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
FHL/EurMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
FHL/EurMcwi (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
GH/OmrMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
GK/Ox (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LE/Stm (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LEW/Crl (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LEW/NCrlBR (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LH/MavRrrc (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LL/MavRrrc (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LN/MavRrrc (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
M520/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
MHS/Gib (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
MNS/Gib (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
MR/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
SBH/Ygl (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: SBH/Ygl sequenced by MCW
SBH/Ygl (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SBN/Ygl (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: SBN/Ygl sequenced by MCW
SBN/Ygl (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SHR/NHsd (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SHRSP/Gcrc (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SR/JrHsd (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Harlan Laboratories
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
SR/JrHsd (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SS/Jr (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SS/JrHsdMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
SS/JrHsdMcwi (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WAG/Rij (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/Gcrc (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
WKY/NCrl (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/NHsd (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WN/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1305495 AgrOrtholog
Ensembl Genes ENSRNOG00000007133 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000010467 ENTREZGENE, UniProtKB/TrEMBL
  ENSRNOP00000072434 UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000010467 UniProtKB/TrEMBL
  ENSRNOT00000088623 UniProtKB/TrEMBL
Gene3D-CATH 2.130.10.10 UniProtKB/TrEMBL
  2.60.40.10 UniProtKB/TrEMBL
InterPro Ig-like_fold UniProtKB/TrEMBL
  Ig_E-set UniProtKB/TrEMBL
  IPT_TIG_rcpt UniProtKB/TrEMBL
  Plexin UniProtKB/TrEMBL
  Plexin-like_fold UniProtKB/TrEMBL
  Plexin_cytoplasmic_RasGAP_dom UniProtKB/TrEMBL
  Plexin_repeat UniProtKB/TrEMBL
  Rho_GTPase_activation_prot UniProtKB/TrEMBL
  Semap_dom_sf UniProtKB/TrEMBL
  Semaphorin/CD100_Ag UniProtKB/TrEMBL
  TIG1_plexin UniProtKB/TrEMBL
  WD40/YVTN_repeat-like_dom UniProtKB/TrEMBL
KEGG Report rno:315217 UniProtKB/TrEMBL
NCBI Gene 315217 ENTREZGENE
PANTHER PTHR22625 UniProtKB/TrEMBL
Pfam Plexin_cytopl UniProtKB/TrEMBL
  PSI UniProtKB/TrEMBL
  Sema UniProtKB/TrEMBL
  TIG UniProtKB/TrEMBL
  TIG_plexin UniProtKB/TrEMBL
PhenoGen Plxnb2 PhenoGen
PROSITE SEMA UniProtKB/TrEMBL
SMART IPT UniProtKB/TrEMBL
  PSI UniProtKB/TrEMBL
  Sema UniProtKB/TrEMBL
Superfamily-SCOP Ig_E-set UniProtKB/TrEMBL
  Rho_GAP UniProtKB/TrEMBL
  Sema UniProtKB/TrEMBL
UniProt D3ZQ57 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2005-12-06 Plxnb2  plexin B2  Plxnb2_predicted  plexin B2 (predicted)  Symbol and Name updated 1559027 APPROVED
2005-01-12 Plxnb2_predicted  plexin B2 (predicted)      Symbol and Name status set to approved 70820 APPROVED