Ctla2a (cytotoxic T lymphocyte-associated protein 2 alpha) - Rat Genome Database

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Gene: Ctla2a (cytotoxic T lymphocyte-associated protein 2 alpha) Rattus norvegicus
Analyze
No known orthologs.
Symbol: Ctla2a
Name: cytotoxic T lymphocyte-associated protein 2 alpha
RGD ID: 1565540
Description: INTERACTS WITH 1-naphthyl isothiocyanate; 17alpha-ethynylestradiol; 2,3,7,8-tetrachlorodibenzodioxine
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: LOC498690; protein CTLA-2-alpha; RGD1565540; similar to ctla-2-beta protein (141 AA)
RGD Orthologs
Alliance Orthologs
More Info homologs ...
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8173,809,052 - 3,828,872 (+)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl173,808,943 - 3,829,344 (+)EnsemblGRCr8
mRatBN7.2173,803,844 - 3,805,729 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl173,803,831 - 3,823,111 (+)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx173,823,384 - 3,825,269 (+)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0175,365,020 - 5,366,905 (+)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0173,819,822 - 3,821,707 (+)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0174,169,696 - 4,194,700 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl174,169,838 - 4,171,723 (+)Ensemblrn6Rnor6.0
Rnor_5.0176,397,804 - 6,418,087 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.4179,489,385 - 9,491,270 (+)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera173,932,662 - 3,934,547 (+)NCBICelera
Cytogenetic Map17p14NCBI
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.
2. GOA pipeline RGD automated data pipeline
3. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions

Genomics

Variants

.
Variants in Ctla2a
149 total Variants
miRNA Target Status (No longer updated)

Predicted Target Of
Summary Value
Count of predictions:39
Count of miRNA genes:38
Interacting mature miRNAs:39
Transcripts:ENSRNOT00000061422
Prediction methods:Miranda, Rnahybrid
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 (GRCr8)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
10401807Kidm52Kidney mass QTL 52kidney mass (VT:0002707)both kidneys wet weight (CMO:0000085)17131706603Rat
1354613Kidm14Kidney mass QTL 146.2kidney mass (VT:0002707)left kidney wet weight (CMO:0000083)17136045694Rat
1354581Bp247Blood pressure QTL 2474.5arterial blood pressure trait (VT:2000000)pulse pressure (CMO:0000292)17143999106Rat
1354662Rf49Renal function QTL 492.9blood creatinine amount (VT:0005328)plasma creatinine level (CMO:0000537)17143999106Rat
1354658Spl8Serum phospholipid level QTL 83.8blood VLDL phospholipid amount (VT:0010507)blood very low density lipoprotein phospholipid level (CMO:0001571)17143999106Rat
1641902Colcr7Colorectal carcinoma resistance QTL 73.350.0044intestine integrity trait (VT:0010554)benign colorectal tumor surface area measurement (CMO:0001799)17212084322087569Rat
2324619Coatc4Coat color QTL 40.001coat/hair pigmentation trait (VT:0010463)pigmented dorsal coat/hair area to total dorsal coat/hair area ratio (CMO:0001811)17121499218Rat
1300123Bp194Blood pressure QTL 1942.82arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)17212084342054133Rat
1549900Iddm20Insulin dependent diabetes mellitus QTL 203.7pancreas integrity trait (VT:0010560)percentage of study population developing diabetes mellitus during a period of time (CMO:0001114)17122181410Rat
9590316Scort21Serum corticosterone level QTL 214.750.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)17122877318Rat
631207Niddm41Non-insulin dependent diabetes mellitus QTL 41blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)17138037084Rat


Expression

RNA-SEQ Expression

alimentary part of gastrointestinal system
appendage
circulatory system
ectoderm
endocrine system
endoderm
exocrine system
hemolymphoid system
hepatobiliary system
integumental system
mesenchyme
mesoderm
musculoskeletal system
nervous system
renal system
reproductive system
respiratory system
sensory system
visual system
16 12 67 160 91 90 59 92 59 6 356 192 11 138 81 92 31 12 12

Sequence


Ensembl Acc Id: ENSRNOT00000061422   ⟹   ENSRNOP00000058141
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl173,808,943 - 3,811,341 (+)Ensembl
mRatBN7.2 Ensembl173,803,844 - 3,805,729 (+)Ensembl
Rnor_6.0 Ensembl174,169,838 - 4,171,723 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000096326   ⟹   ENSRNOP00000097527
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl173,809,417 - 3,829,076 (+)Ensembl
mRatBN7.2 Ensembl173,803,831 - 3,823,111 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000119963   ⟹   ENSRNOP00000085362
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl173,809,417 - 3,820,939 (+)Ensembl
mRatBN7.2 Ensembl173,803,831 - 3,808,252 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000168437   ⟹   ENSRNOP00000102408
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl173,809,417 - 3,829,344 (+)Ensembl
RefSeq Acc Id: NM_001109115   ⟹   NP_001102585
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8173,809,456 - 3,811,341 (+)NCBI
mRatBN7.2173,803,844 - 3,805,729 (+)NCBI
Rnor_6.0174,169,838 - 4,171,723 (+)NCBI
Rnor_5.0176,397,804 - 6,418,087 (+)NCBI
RGSC_v3.4179,489,385 - 9,491,270 (+)RGD
Celera173,932,662 - 3,934,547 (+)RGD
Sequence:
RefSeq Acc Id: XM_063276680   ⟹   XP_063132750
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8173,809,052 - 3,828,872 (+)NCBI
RefSeq Acc Id: XM_063276681   ⟹   XP_063132751
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8173,809,052 - 3,811,339 (+)NCBI
RefSeq Acc Id: NP_001102585   ⟸   NM_001109115
- UniProtKB: D3ZHI6 (UniProtKB/TrEMBL),   A6KAE9 (UniProtKB/TrEMBL),   A6KAF1 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000058141   ⟸   ENSRNOT00000061422
Ensembl Acc Id: ENSRNOP00000085362   ⟸   ENSRNOT00000119963
Ensembl Acc Id: ENSRNOP00000097527   ⟸   ENSRNOT00000096326
RefSeq Acc Id: XP_063132750   ⟸   XM_063276680
- Peptide Label: isoform X1
RefSeq Acc Id: XP_063132751   ⟸   XM_063276681
- Peptide Label: isoform X2
- UniProtKB: A6KAE9 (UniProtKB/TrEMBL),   D3ZHI6 (UniProtKB/TrEMBL),   A6KAF1 (UniProtKB/TrEMBL)
Ensembl Acc Id: ENSRNOP00000102408   ⟸   ENSRNOT00000168437
Protein Domains
Cathepsin propeptide inhibitor

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-D3ZHI6-F1-model_v2 AlphaFold D3ZHI6 1-113 view protein structure

Transcriptome

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

Promoters
RGD ID:13700270
Promoter ID:EPDNEW_R10793
Type:initiation region
Name:Ctla2a_1
Description:cytotoxic T lymphocyte-associated protein 2 alpha
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_6.0174,169,825 - 4,169,885EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1565540 AgrOrtholog
BioCyc Gene G2FUF-10473 BioCyc
Ensembl Genes ENSRNOG00000039971 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000061422.4 UniProtKB/TrEMBL
  ENSRNOT00000096326.2 UniProtKB/TrEMBL
  ENSRNOT00000119963.2 UniProtKB/TrEMBL
  ENSRNOT00000168437 ENTREZGENE
  ENSRNOT00000168437.1 UniProtKB/TrEMBL
Gene3D-CATH 1.10.287.2250 UniProtKB/TrEMBL
InterPro Papain_like_cys_pep_sf UniProtKB/TrEMBL
  Prot_inhib_I29 UniProtKB/TrEMBL
KEGG Report rno:498690 UniProtKB/TrEMBL
NCBI Gene 498690 ENTREZGENE
Pfam Inhibitor_I29 UniProtKB/TrEMBL
PhenoGen Ctla2a PhenoGen
RatGTEx ENSRNOG00000039971 RatGTEx
SMART Inhibitor_I29 UniProtKB/TrEMBL
Superfamily-SCOP SSF54001 UniProtKB/TrEMBL
UniProt A0A8I6A3W4_RAT UniProtKB/TrEMBL
  A0A8I6ANI3_RAT UniProtKB/TrEMBL
  A0ABK0L1P9_RAT UniProtKB/TrEMBL
  A6KAE9 ENTREZGENE, UniProtKB/TrEMBL
  A6KAF1 ENTREZGENE, UniProtKB/TrEMBL
  D3ZHI6 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2008-03-07 Ctla2a  cytotoxic T lymphocyte-associated protein 2 alpha  RGD1565540_predicted  similar to ctla-2-beta protein (141 AA) (predicted)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2006-03-07 RGD1565540_predicted  similar to ctla-2-beta protein (141 AA) (predicted)  LOC498690  similar to ctla-2-beta protein (141 AA)  Symbol and Name status set to approved 1299863 APPROVED
2006-02-09 LOC498690  similar to ctla-2-beta protein (141 AA)      Symbol and Name status set to provisional 70820 PROVISIONAL