Ltbr (lymphotoxin beta receptor) - Rat Genome Database

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Gene: Ltbr (lymphotoxin beta receptor) Rattus norvegicus
Analyze
Symbol: Ltbr
Name: lymphotoxin beta receptor
RGD ID: 1309448
Description: Predicted to enable identical protein binding activity and ubiquitin protein ligase binding activity. Predicted to be involved in cellular response to mechanical stimulus and positive regulation of signal transduction. Predicted to act upstream of or within myeloid dendritic cell differentiation. Predicted to be located in Golgi apparatus. Orthologous to human LTBR (lymphotoxin beta receptor); PARTICIPATES IN cytokine mediated signaling pathway; tuberculosis pathway; INTERACTS WITH 1,1,1-Trichloro-2-(o-chlorophenyl)-2-(p-chlorophenyl)ethane; 17alpha-ethynylestradiol; 2,3,7,8-tetrachlorodibenzodioxine.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: LOC297604; lymphotoxin B receptor; lymphotoxin beta receptor (TNFR superfamily, member 3); MGC94657; tumor necrosis factor receptor superfamily member 3
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
GRCr84159,795,115 - 159,801,571 (-)NCBIGRCr8
mRatBN7.24158,108,884 - 158,115,339 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl4158,108,886 - 158,121,539 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx4164,338,520 - 164,344,944 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.04160,121,438 - 160,127,864 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.04158,760,354 - 158,766,779 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.04157,822,838 - 157,829,291 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl4157,822,840 - 157,829,241 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.04224,839,881 - 224,846,334 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.44161,431,864 - 161,438,265 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.14161,676,799 - 161,683,201 (-)NCBI
Celera4146,845,135 - 146,851,536 (-)NCBICelera
Cytogenetic Map4q42NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
1,1,1-Trichloro-2-(o-chlorophenyl)-2-(p-chlorophenyl)ethane  (EXP)
1,2-dimethylhydrazine  (ISO)
17alpha-ethynylestradiol  (EXP)
17beta-estradiol  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
2,4-dinitrotoluene  (EXP)
6-propyl-2-thiouracil  (EXP)
all-trans-retinoic acid  (ISO)
amitrole  (EXP)
amphetamine  (EXP)
arsenite(3-)  (ISO)
arsenous acid  (EXP)
benzene  (EXP,ISO)
benzo[a]pyrene  (ISO)
bis(2-chloroethyl) sulfide  (ISO)
bisphenol A  (EXP,ISO)
butan-1-ol  (ISO)
butanal  (ISO)
C60 fullerene  (EXP)
cadmium dichloride  (EXP)
captan  (ISO)
CGP 52608  (ISO)
chloropicrin  (ISO)
chlorpyrifos  (ISO)
cisplatin  (ISO)
cocaine  (ISO)
copper atom  (ISO)
copper(0)  (ISO)
Cuprizon  (EXP)
curcumin  (ISO)
cyclophosphamide  (ISO)
cyclosporin A  (ISO)
dexamethasone  (ISO)
diarsenic trioxide  (EXP)
dibutyl phthalate  (EXP)
diethylstilbestrol  (ISO)
dioxygen  (ISO)
elemental selenium  (ISO)
ethanol  (ISO)
etoposide  (ISO)
flutamide  (EXP)
folic acid  (ISO)
folpet  (ISO)
fulvestrant  (ISO)
fumonisin B1  (ISO)
furosemide  (EXP)
genistein  (ISO)
ibuprofen  (ISO)
inulin  (ISO)
isoflurane  (EXP)
leflunomide  (EXP)
methotrexate  (ISO)
methylmercury chloride  (ISO)
methylmercury(1+)  (EXP)
N-ethylmaleimide  (ISO)
nefazodone  (EXP)
nimesulide  (EXP)
o-anisidine  (ISO)
p-menthan-3-ol  (ISO)
paracetamol  (EXP,ISO)
paraquat  (ISO)
pentachlorophenol  (ISO)
pentobarbital  (EXP)
perfluorooctane-1-sulfonic acid  (ISO)
pirinixic acid  (ISO)
pregnenolone 16alpha-carbonitrile  (EXP)
pyrethrins  (ISO)
resveratrol  (ISO)
retinyl acetate  (ISO)
selenium atom  (ISO)
selenomethionine  (ISO)
sodium dichromate  (EXP,ISO)
Soman  (EXP)
sulfadimethoxine  (EXP)
trichloroethene  (EXP)
trichostatin A  (EXP,ISO)
valdecoxib  (EXP)
vinclozolin  (EXP)
vorinostat  (ISO)
zoledronic acid  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component
Golgi apparatus  (IEA,ISO)
membrane  (IEA)

Molecular Function

Molecular Pathway Annotations     Click to see Annotation Detail View
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. Rat ISS GO annotations from GOA human gene data--August 2006 GOA data from the GO Consortium
3. Rat ISS GO annotations from MGI mouse gene data--August 2006 MGD data from the GO Consortium
4. KEGG Annotation Import Pipeline Pipeline to import KEGG annotations from KEGG into RGD
5. GOA pipeline RGD automated data pipeline
6. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
7. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:11279055   PMID:12477932   PMID:12761501   PMID:19593445   PMID:20732415   PMID:23913046  


Genomics

Comparative Map Data
Ltbr
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr84159,795,115 - 159,801,571 (-)NCBIGRCr8
mRatBN7.24158,108,884 - 158,115,339 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl4158,108,886 - 158,121,539 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx4164,338,520 - 164,344,944 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.04160,121,438 - 160,127,864 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.04158,760,354 - 158,766,779 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.04157,822,838 - 157,829,291 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl4157,822,840 - 157,829,241 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.04224,839,881 - 224,846,334 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.44161,431,864 - 161,438,265 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.14161,676,799 - 161,683,201 (-)NCBI
Celera4146,845,135 - 146,851,536 (-)NCBICelera
Cytogenetic Map4q42NCBI
LTBR
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38126,375,160 - 6,391,566 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl126,375,045 - 6,391,571 (+)EnsemblGRCh38hg38GRCh38
GRCh37126,484,326 - 6,500,732 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36126,363,618 - 6,370,993 (+)NCBINCBI36Build 36hg18NCBI36
Build 34126,363,617 - 6,370,993NCBI
Celera128,110,613 - 8,117,993 (+)NCBICelera
Cytogenetic Map12p13.31NCBI
HuRef126,338,399 - 6,354,609 (+)NCBIHuRef
CHM1_1126,483,716 - 6,499,925 (+)NCBICHM1_1
T2T-CHM13v2.0126,385,218 - 6,401,631 (+)NCBIT2T-CHM13v2.0
Ltbr
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm396125,283,534 - 125,291,026 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl6125,283,534 - 125,290,848 (-)EnsemblGRCm39 Ensembl
GRCm386125,306,571 - 125,313,885 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl6125,306,571 - 125,313,885 (-)EnsemblGRCm38mm10GRCm38
MGSCv376125,256,589 - 125,263,888 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv366125,272,195 - 125,279,473 (-)NCBIMGSCv36mm8
Celera6126,977,444 - 126,984,756 (-)NCBICelera
Cytogenetic Map6F3NCBI
cM Map659.32NCBI
Ltbr
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554134,031,754 - 4,038,992 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049554134,031,659 - 4,038,396 (+)NCBIChiLan1.0ChiLan1.0
LTBR
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21011,944,839 - 11,952,833 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11211,941,870 - 11,953,500 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0126,514,432 - 6,521,966 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1126,430,976 - 6,438,510 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl126,422,470 - 6,438,510 (+)Ensemblpanpan1.1panPan2
LTBR
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12738,598,725 - 38,605,829 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl2738,599,268 - 38,605,780 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha278,008,635 - 8,015,747 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.02738,954,542 - 38,961,857 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl2738,954,545 - 38,961,808 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.12738,827,414 - 38,834,524 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.02738,868,850 - 38,875,963 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0277,487,407 - 7,494,770 (+)NCBIUU_Cfam_GSD_1.0
Ltbr
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024404945102,695,297 - 102,701,728 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049367091,362,840 - 1,369,365 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049367091,362,846 - 1,369,287 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
LTBR
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl564,270,310 - 64,287,523 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1564,271,372 - 64,278,422 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2566,732,888 - 66,739,937 (-)NCBISscrofa10.2Sscrofa10.2susScr3
LTBR
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1116,425,223 - 6,431,881 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl116,425,324 - 6,433,583 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_0236660631,802,673 - 1,810,671 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Ltbr
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046248603,152,517 - 3,162,848 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046248603,152,041 - 3,158,690 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Ltbr
25 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:127
Count of miRNA genes:86
Interacting mature miRNAs:109
Transcripts:ENSRNOT00000026184
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
61362Oia2Oil induced arthritis QTL 20.001joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)4138503169173369699Rat
61422Cia13Collagen induced arthritis QTL 134.5joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)4132642577167139601Rat
61451Ciaa4CIA Autoantibody QTL 43.1blood autoantibody amount (VT:0003725)calculated serum anti-rat type 2 collagen autoantibody titer (CMO:0001281)4126395976167139601Rat
724535Cm18Cardiac mass QTL 182.6heart mass (VT:0007028)calculated heart weight (CMO:0000073)4118856416163856416Rat
724558Plsm2Polydactyly-luxate syndrome (PLS) morphotypes QTL 20.0003hindlimb integrity trait (VT:0010563)hind foot phalanges count (CMO:0001949)4132422778177422778Rat
737821Hcar9Hepatocarcinoma resistance QTL 93.7liver integrity trait (VT:0010547)volume of individual liver tumorous lesion (CMO:0001078)4109866907167139601Rat
631683Bp116Blood pressure QTL 1160.0001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)4124303370169303370Rat
737978Pia23Pristane induced arthritis QTL 235.3joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)4131730738167139601Rat
1298524Oia8Oil induced arthritis QTL 8joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)4138503169173369699Rat
631511Pia7Pristane induced arthritis QTL 74.3joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)4131730738167139601Rat
634335Anxrr16Anxiety related response QTL 167.22locomotor behavior trait (VT:0001392)number of entries into a discrete space in an experimental apparatus (CMO:0000960)493308457167139447Rat
634342Cia24Collagen induced arthritis QTL 244.5joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)4146565735175236377Rat
634347Hcar8Hepatocarcinoma resistance QTL 85.8liver integrity trait (VT:0010547)liver tumorous lesion area to total liver area ratio (CMO:0001075)4123143783168143783Rat
1300109Rf13Renal function QTL 133.91renal blood flow trait (VT:2000006)absolute change in renal blood flow rate (CMO:0001168)4157710145182687754Rat
1331738Bp209Blood pressure QTL 2092.979arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)4138503169179293946Rat
1331759Hrtrt13Heart rate QTL 133.54628heart pumping trait (VT:2000009)heart rate (CMO:0000002)4110275411168266883Rat
1358202Gluco11Glucose level QTL 112.40.02adipocyte glucose uptake trait (VT:0004185)absolute change in adipocyte glucose uptake (CMO:0000873)485379421167139601Rat
1549827Scl46Serum cholesterol level QTL 463.5blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)4132396220177396220Rat
1582237Kidm34Kidney mass QTL 3440.0001kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)4148090542168069246Rat
1581566Eae21Experimental allergic encephalomyelitis QTL 216.2body mass (VT:0001259)maximum body weight loss to initial body weight ratio (CMO:0001400)4157680158158841762Rat
1581574Eae20Experimental allergic encephalomyelitis QTL 207.8nervous system integrity trait (VT:0010566)percentage of study population developing experimental autoimmune encephalomyelitis during a period of time (CMO:0001047)4153031106158841762Rat
1576316Ept5Estrogen-induced pituitary tumorigenesis QTL 53.8pituitary gland mass (VT:0010496)pituitary gland wet weight (CMO:0000853)483428419177635233Rat
1578674Bmd12Bone mineral density QTL 123.8femur mineral mass (VT:0010011)compact volumetric bone mineral density (CMO:0001730)4135699135180699135Rat
2293659Bmd35Bone mineral density QTL 354.50.0001femur strength trait (VT:0010010)femoral neck ultimate force (CMO:0001703)4137755016181392681Rat
2303623Vencon2Ventilatory control QTL 23.8respiration trait (VT:0001943)minute ventilation (CMO:0000132)4135204660180204660Rat
2316958Gluco58Glucose level QTL 5810blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)411320076180699135Rat
6478718Anxrr34Anxiety related response QTL 340.00896locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)4144639524182687754Rat
6478748Anxrr42Anxiety related response QTL 420.28008locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)4144639524182687754Rat
6478754Anxrr43Anxiety related response QTL 430.14035locomotor behavior trait (VT:0001392)distance moved per unit of time into, out of or within a discrete space in an experimental apparatus (CMO:0001493)4144639524182687754Rat
6478778Anxrr51Anxiety related response QTL 510.25384locomotor behavior trait (VT:0001392)measurement of voluntary locomotion into, out of or within a discrete space in an experimental apparatus (CMO:0000957)4124778595169778595Rat
6478693Anxrr32Anxiety related response QTL 320.00092locomotor behavior trait (VT:0001392)measurement of voluntary locomotion into, out of or within a discrete space in an experimental apparatus (CMO:0000957)4144639524182687754Rat
6478700Anxrr33Anxiety related response QTL 330.00896locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)4144639524182687754Rat
7411558Bw133Body weight QTL 13313.840.001body mass (VT:0001259)body weight gain (CMO:0000420)4125590636170590636Rat
10053718Scort25Serum corticosterone level QTL 252.150.0097blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)4155561574182687754Rat
10401796Kidm48Kidney mass QTL 48kidney mass (VT:0002707)both kidneys wet weight (CMO:0000085)4145568712182687754Rat
12798525Anxrr57Anxiety related response QTL 573.210.05locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)4147278504167139601Rat
12798519Anxrr54Anxiety related response QTL 542.540.05locomotor behavior trait (VT:0001392)distance moved per unit of time into, out of or within a discrete space in an experimental apparatus (CMO:0001493)4114627026159627026Rat

Markers in Region
D4Rat203  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.24158,112,655 - 158,112,799 (+)MAPPERmRatBN7.2
Rnor_6.04157,826,610 - 157,826,751NCBIRnor6.0
Rnor_5.04224,843,653 - 224,843,794UniSTSRnor5.0
RGSC_v3.44161,435,633 - 161,435,775RGDRGSC3.4
RGSC_v3.44161,435,634 - 161,435,775UniSTSRGSC3.4
RGSC_v3.14161,680,570 - 161,680,711RGD
Celera4146,848,905 - 146,849,046UniSTS
RH 3.4 Map41005.8UniSTS
RH 3.4 Map41005.8RGD
SHRSP x BN Map483.82UniSTS
SHRSP x BN Map483.82RGD
Cytogenetic Map4q42UniSTS
Ltbr  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.24158,109,432 - 158,109,598 (+)MAPPERmRatBN7.2
Rnor_6.04157,823,387 - 157,823,552NCBIRnor6.0
Rnor_5.04224,840,430 - 224,840,595UniSTSRnor5.0
RGSC_v3.44161,432,411 - 161,432,576UniSTSRGSC3.4
Celera4146,845,682 - 146,845,847UniSTS
Cytogenetic Map4q42UniSTS
RH131296  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.24158,108,974 - 158,109,179 (+)MAPPERmRatBN7.2
Rnor_6.04157,822,929 - 157,823,133NCBIRnor6.0
Rnor_5.04224,839,972 - 224,840,176UniSTSRnor5.0
RGSC_v3.44161,431,953 - 161,432,157UniSTSRGSC3.4
Celera4146,845,224 - 146,845,428UniSTS
RH 3.4 Map41008.2UniSTS
Cytogenetic Map4q42UniSTS
AU048042  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.24158,112,657 - 158,112,846 (+)MAPPERmRatBN7.2
Rnor_6.04157,826,612 - 157,826,798NCBIRnor6.0
Rnor_5.04224,843,655 - 224,843,841UniSTSRnor5.0
RGSC_v3.44161,435,636 - 161,435,822UniSTSRGSC3.4
Celera4146,848,907 - 146,849,093UniSTS
Cytogenetic Map4q42UniSTS


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 43 57 41 19 41 7 10 68 35 37 11 7
Low 1 1 6 4 1
Below cutoff

Sequence


RefSeq Acc Id: ENSRNOT00000026184   ⟹   ENSRNOP00000026184
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl4158,108,886 - 158,115,289 (-)Ensembl
Rnor_6.0 Ensembl4157,822,840 - 157,829,241 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000114935   ⟹   ENSRNOP00000092482
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl4158,108,886 - 158,121,539 (-)Ensembl
RefSeq Acc Id: NM_001008315   ⟹   NP_001008316
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr84159,795,115 - 159,801,516 (-)NCBI
mRatBN7.24158,108,886 - 158,115,289 (-)NCBI
Rnor_6.04157,822,840 - 157,829,241 (-)NCBI
Rnor_5.04224,839,881 - 224,846,334 (-)NCBI
RGSC_v3.44161,431,864 - 161,438,265 (-)RGD
Celera4146,845,135 - 146,851,536 (-)RGD
Sequence:
RefSeq Acc Id: XM_006237351   ⟹   XP_006237413
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr84159,795,115 - 159,801,571 (-)NCBI
mRatBN7.24158,108,884 - 158,115,339 (-)NCBI
Rnor_6.04157,822,838 - 157,829,291 (-)NCBI
Rnor_5.04224,839,881 - 224,846,334 (-)NCBI
Sequence:
Protein Sequences
Protein RefSeqs NP_001008316 (Get FASTA)   NCBI Sequence Viewer  
  XP_006237413 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAH85880 (Get FASTA)   NCBI Sequence Viewer  
  EDM01849 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000026184
  ENSRNOP00000026184.5
  ENSRNOP00000092482.1
RefSeq Acc Id: NP_001008316   ⟸   NM_001008315
- Peptide Label: precursor
- UniProtKB: Q5U2S8 (UniProtKB/TrEMBL),   F7FAR8 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006237413   ⟸   XM_006237351
- Peptide Label: isoform X1
- UniProtKB: F7FAR8 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000026184   ⟸   ENSRNOT00000026184
RefSeq Acc Id: ENSRNOP00000092482   ⟸   ENSRNOT00000114935
Protein Domains
TNFR-Cys

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q5U2S8-F1-model_v2 AlphaFold Q5U2S8 1-416 view protein structure

Transcriptome

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

Promoters
RGD ID:13693411
Promoter ID:EPDNEW_R3936
Type:multiple initiation site
Name:Ltbr_1
Description:lymphotoxin beta receptor
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_6.04157,829,232 - 157,829,292EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1309448 AgrOrtholog
BioCyc Gene G2FUF-42995 BioCyc
Ensembl Genes ENSRNOG00000019264 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000026184 ENTREZGENE
  ENSRNOT00000026184.5 UniProtKB/TrEMBL
  ENSRNOT00000114935.1 UniProtKB/TrEMBL
Gene3D-CATH Tumor Necrosis Factor Receptor, subunit A, domain 2 UniProtKB/TrEMBL
IMAGE_CLONE IMAGE:7191913 IMAGE-MGC_LOAD
InterPro TNFR_3_LTBR UniProtKB/TrEMBL
  TNFR_Cys_rich_reg UniProtKB/TrEMBL
  TNFRSF3_N UniProtKB/TrEMBL
KEGG Report rno:297604 UniProtKB/TrEMBL
MGC_CLONE MGC:94657 IMAGE-MGC_LOAD
NCBI Gene 297604 ENTREZGENE
PANTHER PTHR47607 UniProtKB/TrEMBL
  TUMOR NECROSIS FACTOR RECEPTOR SUPERFAMILY MEMBER 3 UniProtKB/TrEMBL
Pfam TNFR_c6 UniProtKB/TrEMBL
PhenoGen Ltbr PhenoGen
PIRSF TNFR_3_LTBR UniProtKB/TrEMBL
PRINTS TNFACTORR3 UniProtKB/TrEMBL
PROSITE TNFR_NGFR_1 UniProtKB/TrEMBL
  TNFR_NGFR_2 UniProtKB/TrEMBL
RatGTEx ENSRNOG00000019264 RatGTEx
SMART TNFR UniProtKB/TrEMBL
Superfamily-SCOP TNF receptor-like UniProtKB/TrEMBL
UniProt A0A8I6GJT5_RAT UniProtKB/TrEMBL
  F7FAR8 ENTREZGENE, UniProtKB/TrEMBL
  Q5U2S8 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2015-11-30 Ltbr  lymphotoxin beta receptor  Ltbr  lymphotoxin beta receptor (TNFR superfamily, member 3)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-09-18 Ltbr  lymphotoxin beta receptor (TNFR superfamily, member 3)  Ltbr  lymphotoxin B receptor  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2005-12-06 Ltbr  lymphotoxin B receptor  Ltbr_predicted  lymphotoxin B receptor (predicted)  Symbol and Name updated 1559027 APPROVED
2005-01-12 Ltbr_predicted  lymphotoxin B receptor (predicted)      Symbol and Name status set to approved 70820 APPROVED