LOC102551082 (T-cell receptor alpha chain V region CTL-F3-like) - Rat Genome Database

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Gene: LOC102551082 (T-cell receptor alpha chain V region CTL-F3-like) Rattus norvegicus
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Symbol: LOC102551082
Name: T-cell receptor alpha chain V region CTL-F3-like
RGD ID: 11051997
Description: Orthologous to human TRAV18 (T cell receptor alpha variable 18).
Type: pseudo
RefSeq Status: MODEL
RGD Orthologs
Human
Mouse
Pig
Alliance Orthologs
More Info more info ...
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81529,428,339 - 29,428,888 (+)NCBIGRCr8GRCr8GRCr8
mRatBN7.21526,175,760 - 26,176,516 (+)NCBImRatBN7.2mRatBN7.2
Rnor_6.01530,862,370 - 30,863,037 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_5.01534,676,998 - 34,677,949 (+)NCBIRnor_5.0Rnor_5.0rn5
Cytogenetic Map15p13NCBI
JBrowse:




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.

Genomics

Comparative Map Data
LOC102551082
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81529,428,339 - 29,428,888 (+)NCBIGRCr8GRCr8GRCr8
mRatBN7.21526,175,760 - 26,176,516 (+)NCBImRatBN7.2mRatBN7.2
Rnor_6.01530,862,370 - 30,863,037 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_5.01534,676,998 - 34,677,949 (+)NCBIRnor_5.0Rnor_5.0rn5
Cytogenetic Map15p13NCBI
TRAV18
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381422,003,211 - 22,003,673 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1422,003,106 - 22,003,673 (+)Ensemblhg38GRCh38
GRCh371422,471,450 - 22,471,912 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361421,541,290 - 21,541,752 (+)NCBIBuild 36Build 36hg18NCBI36
Celera142,335,019 - 2,335,481 (+)NCBICelera
Cytogenetic Map14q11.2NCBI
HuRef142,589,290 - 2,589,752 (+)NCBIHuRef
CHM1_11422,471,113 - 22,471,575 (+)NCBICHM1_1
T2T-CHM13v2.01416,200,891 - 16,201,353 (+)NCBIT2T-CHM13v2.0
Trav12-1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391453,775,723 - 53,776,195 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1453,775,648 - 53,776,195 (+)EnsemblGRCm39 EnsemblGRCm39
GRCm381453,538,266 - 53,538,738 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1453,538,191 - 53,538,738 (+)Ensemblmm10GRCm38
MGSCv371454,157,941 - 54,158,413 (+)NCBIMGSCv37MGSCv37mm9NCBIm37
Cytogenetic Map14C2NCBI
cM Map1427.41NCBI
LOC110261595
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1777,029,370 - 77,032,022 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1

Variants

.
Variants in LOC102551082
22 total Variants

QTLs in Region (GRCr8)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1641913Colcr2Colorectal carcinoma resistance QTL 26.570.0197intestine integrity trait (VT:0010554)poorly differentiated malignant colorectal tumor number (CMO:0002076)15231575947315759Rat
5684946Bss98Bone structure and strength QTL 983.90.0026tibia strength trait (VT:1000284)tibia ultimate force (CMO:0001734)15139411584Rat
1641887Alcrsp14Alcohol response QTL 14response to alcohol trait (VT:0010489)brain neurotensin receptor 1 density (CMO:0002068)15144836456Rat
738017Hcas7Hepatocarcinoma susceptibility QTL 72.91liver integrity trait (VT:0010547)liver nonremodeling tumorous lesion volume to total liver volume ratio (CMO:0001464)15231575953331089Rat
10755503Bp391Blood pressure QTL 3912.37arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)152272835342072050Rat
10054130Srcrt8Stress Responsive Cort QTL 82.180.0085blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)152852773273527732Rat
1578646Bmd18Bone mineral density QTL 185.2femur mineral mass (VT:0010011)trabecular volumetric bone mineral density (CMO:0001729)1525285835104695021Rat
2324620Coatc3Coat color QTL 3coat/hair pigmentation trait (VT:0010463)pigmented coat/hair area to total coat/hair area ratio (CMO:0001810)152233635152597086Rat
1578647Bmd17Bone mineral density QTL 174femur mineral mass (VT:0010011)total volumetric bone mineral density (CMO:0001728)1525285835104695021Rat
61424Scl1Serum cholesterol level QTL 17.70.001blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)151915576287086765Rat
10401805Kidm51Kidney mass QTL 51kidney mass (VT:0002707)both kidneys wet weight (CMO:0000085)15278592347785923Rat
1354657Despr13Despair related QTL 130.0022locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)15132342855Rat
2317750Glom26Glomerulus QTL 264.3urine protein amount (VT:0005160)urine protein level (CMO:0000591)151492659471614418Rat
631550Bw7Body weight QTL 73.6body mass (VT:0001259)body weight (CMO:0000012)152233635167336351Rat
5685002Bss103Bone structure and strength QTL 1032.8tibia strength trait (VT:1000284)tibia total energy absorbed before break (CMO:0001736)151691152132439851Rat
1578660Bss19Bone structure and strength QTL 194.3femur morphology trait (VT:0000559)bone trabecular cross-sectional area (CMO:0002311)1525285835104695021Rat


Expression

RNA-SEQ Expression

alimentary part of gastrointestinal system
ectoderm
hemolymphoid system
mesenchyme
mesoderm
nervous system
renal system
reproductive system
1 1 52 55 52 1 2 1

Sequence

Nucleotide Sequences
GenBank Nucleotide JAXUCZ010000015 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles


Additional Information

Database Acc Id Source(s)
AGR Gene RGD:11051997 AgrOrtholog
BioCyc Gene G2FUF-13893 BioCyc
NCBI Gene LOC102551082 ENTREZGENE
PhenoGen LOC102551082 PhenoGen


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2016-04-12 LOC102551082  T-cell receptor alpha chain V region CTL-F3-like      Symbol and Name status set to provisional 70820 PROVISIONAL