Clec2e (C-type lectin domain family 2, member E) - Rat Genome Database

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Gene: Clec2e (C-type lectin domain family 2, member E) Rattus norvegicus
Analyze
No known orthologs.
Symbol: Clec2e
Name: C-type lectin domain family 2, member E
RGD ID: 1587527
Description: Predicted to enable natural killer cell lectin-like receptor binding activity. Predicted to be active in external side of plasma membrane. Orthologous to human CLEC2D (C-type lectin domain family 2 member D).
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: C-type lectin domain family 2 member d10; C-type lectin domain family 2 member E; Clec2d10; LOC689853; similar to C-type lectin domain family 2, member e
RGD Orthologs
Alliance Orthologs
More Info homologs ...
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr84164,219,885 - 164,226,640 (-)NCBIGRCr8
mRatBN7.24162,533,853 - 162,540,608 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl4162,534,278 - 162,541,971 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx4168,770,094 - 168,775,343 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.04164,553,034 - 164,558,283 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.04163,187,081 - 163,192,330 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.04162,849,880 - 162,866,383 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl4162,850,192 - 162,856,663 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.04211,495,903 - 211,501,029 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.44166,332,184 - 166,337,469 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera4151,223,248 - 151,228,497 (-)NCBICelera
Cytogenetic Map4q42NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model



Cellular Component

  
Object Symbol
Species
Term
Qualifier
Evidence
With
Reference
Notes
Source
Original Reference(s)
Clec2eRatexternal side of plasma membrane is_active_inIBAMGI:2135589 more ...1600115GO_REF:0000033GO_CentralGO_REF:0000033

Molecular Function

  
Object Symbol
Species
Term
Qualifier
Evidence
With
Reference
Notes
Source
Original Reference(s)
Clec2eRatcarbohydrate binding enablesIEAUniProtKB-KW:KW-04301600115GO_REF:0000043UniProtGO_REF:0000043
Clec2eRatnatural killer cell lectin-like receptor binding enablesIBAMGI:1918059 more ...1600115GO_REF:0000033GO_CentralGO_REF:0000033


#
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. 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
PMID:19130483  



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Variants in Clec2e
124 total Variants


Assembly: Rnor_5.0
Chromosome Start Pos End Pos Reference Nucleotide Variant Nucleotide Variant Type Strain Variant Page
4 211495907 211495908 C T snv DOB/Oda (KyushuU) View more Information
4 211497639 211497640 G A snv IS-Tlk/Kyo (KyushuU), IS/Kyo (KyushuU) View more Information
4 211500242 211500243 A C snv IS/Kyo (KyushuU), IS-Tlk/Kyo (KyushuU) View more Information
4 211500306 211500307 C A snv DOB/Oda (KyushuU), IS/Kyo (KyushuU), IS-Tlk/Kyo (KyushuU) View more Information


Assembly: Rnor_6.0
Chromosome Start Pos End Pos Reference Nucleotide Variant Nucleotide Variant Type Strain Variant Page
4 162852990 162852991 T C snv F344/NCrl (RGD) View more Information

Predicted Target Of
Summary Value
Count of predictions:65
Count of miRNA genes:59
Interacting mature miRNAs:60
Transcripts:ENSRNOT00000037596
Prediction methods:Microtar, 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.


1 to 10 of 35 rows
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD ID
Symbol
Name
LOD
P Value
Trait
Sub Trait
Chr
Start
Stop
Species
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
724558Plsm2Polydactyly-luxate syndrome (PLS) morphotypes QTL 20.0003hindlimb integrity trait (VT:0010563)hind foot phalanges count (CMO:0001949)4132422778177422778Rat
1582237Kidm34Kidney mass QTL 3440.0001kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)4148090542168069246Rat
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
10755501Bp390Blood pressure QTL 3902.5arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)426775591168368347Rat
631683Bp116Blood pressure QTL 1160.0001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)4124303370169303370Rat
61451Ciaa4CIA Autoantibody QTL 43.1blood autoantibody amount (VT:0003725)calculated serum anti-rat type 2 collagen autoantibody titer (CMO:0001281)4126395976167139601Rat
1331738Bp209Blood pressure QTL 2092.979arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)4138503169179293946Rat
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
1298524Oia8Oil induced arthritis QTL 8joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)4138503169173369699Rat

1 to 10 of 35 rows



alimentary part of gastrointestinal system
appendage
circulatory system
ectoderm
endocrine system
endoderm
exocrine system
hemolymphoid system
hepatobiliary system
integumental system
mesenchyme
mesoderm
nervous system
renal system
reproductive system
respiratory system
9 7 42 81 74 73 42 25 42 6 186 87 61 41 52 31



Ensembl Acc Id: ENSRNOT00000077791   ⟹   ENSRNOP00000072383
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl4162,534,278 - 162,541,971 (-)Ensembl
Rnor_6.0 Ensembl4162,850,192 - 162,856,663 (-)Ensembl
RefSeq Acc Id: NM_001177689   ⟹   NP_001171160
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr84164,219,885 - 164,226,640 (-)NCBI
mRatBN7.24162,533,853 - 162,540,608 (-)NCBI
Rnor_6.04162,851,305 - 162,856,431 (-)NCBI
Rnor_5.04211,495,903 - 211,501,029 (-)NCBI
Celera4151,223,248 - 151,228,497 (-)NCBI
Sequence:
Protein RefSeqs NP_001171160 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein ACJ23592 (Get FASTA)   NCBI Sequence Viewer  
  EDM01755 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000072383.1
RefSeq Acc Id: NP_001171160   ⟸   NM_001177689
- UniProtKB: B7TXW5 (UniProtKB/TrEMBL),   A6IM34 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000072383   ⟸   ENSRNOT00000077791
C-type lectin

Name Modeler Protein Id AA Range Protein Structure
AF-B7TXW5-F1-model_v2 AlphaFold B7TXW5 1-214 view protein structure


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

RGD ID:13693430
Promoter ID:EPDNEW_R3955
Type:multiple initiation site
Name:Clec2e_1
Description:C-type lectin domain family 2, member E
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_6.04162,856,512 - 162,856,572EPDNEW


1 to 21 of 21 rows
Database
Acc Id
Source(s)
BioCyc Gene G2FUF-42808 BioCyc
Ensembl Genes ENSRNOG00000052128 Ensembl, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000077791.2 UniProtKB/TrEMBL
Gene3D-CATH 3.10.100.10 UniProtKB/TrEMBL
InterPro C-type_lectin UniProtKB/TrEMBL
  C-type_lectin-like UniProtKB/TrEMBL
  C-type_lectin/matrix_domain UniProtKB/TrEMBL
  C-type_lectin_fold UniProtKB/TrEMBL
  NKR-like_CTLD UniProtKB/TrEMBL
KEGG Report rno:689853 UniProtKB/TrEMBL
NCBI Gene 689853 ENTREZGENE
PANTHER C-TYPE LECTIN DOMAIN FAMILY 2 MEMBER D UniProtKB/TrEMBL
  C-TYPE LECTIN DOMAIN-CONTAINING PROTEIN 180 UniProtKB/TrEMBL
Pfam Lectin_C UniProtKB/TrEMBL
PhenoGen Clec2e PhenoGen
PROSITE C_TYPE_LECTIN_2 UniProtKB/TrEMBL
RatGTEx ENSRNOG00000052128 RatGTEx
SMART CLECT UniProtKB/TrEMBL
Superfamily-SCOP C-type_lectin_fold UniProtKB/TrEMBL
UniProt A6IM34 ENTREZGENE, UniProtKB/TrEMBL
  B7TXW5 ENTREZGENE, UniProtKB/TrEMBL
1 to 21 of 21 rows


Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2008-03-06 Clec2e  C-type lectin domain family 2, member E  LOC689853  similar to C-type lectin domain family 2, member e  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-01-09 LOC689853  similar to C-type lectin domain family 2, member e  LOC683817  similar to C-type lectin domain family 2, member e  Data merged from RGD:1597862 1643240 APPROVED
2006-11-20 LOC683817  similar to C-type lectin domain family 2, member e      Symbol and Name status set to provisional 70820 PROVISIONAL
2006-11-19 LOC689853  similar to C-type lectin domain family 2, member e      Symbol and Name status set to provisional 70820 PROVISIONAL