Clec2d2l1 (C-type lectin domain family 2 member D2 like 1) - Rat Genome Database

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Gene: Clec2d2l1 (C-type lectin domain family 2 member D2 like 1) Rattus norvegicus
Analyze
No known orthologs.
Symbol: Clec2d2l1
Name: C-type lectin domain family 2 member D2 like 1
RGD ID: 1588731
Description: Predicted to enable natural killer cell lectin-like receptor binding activity. Predicted to be located in plasma membrane. 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: PROVISIONAL
Previously known as: C-type lectin domain family 2 member d3; Clec2d3; LOC362446; LOC689757; RGD1563033; similar to osteoclast inhibitory lectin
RGD Orthologs
Alliance Orthologs
More Info homologs ...
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr84163,785,135 - 163,794,490 (-)NCBIGRCr8
mRatBN7.24162,099,067 - 162,107,301 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl4162,098,942 - 162,109,157 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx4168,333,920 - 168,341,991 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.04164,116,862 - 164,124,933 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.04162,750,904 - 162,758,975 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.04162,181,798 - 162,229,435 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl4162,181,158 - 162,230,859 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.04227,379,693 - 227,493,189 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.44165,853,013 - 165,862,182 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera4150,798,631 - 150,806,702 (-)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)
Clec2d2l1Ratexternal side of plasma membrane is_active_inIBAMGI:2135589 more ...1600115GO_REF:0000033GO_CentralGO_REF:0000033
Clec2d2l1Ratplasma membrane located_inIEAUniProtKB-SubCell:SL-00391600115GO_REF:0000044UniProtGO_REF:0000044

Molecular Function

  
Object Symbol
Species
Term
Qualifier
Evidence
With
Reference
Notes
Source
Original Reference(s)
Clec2d2l1Ratcarbohydrate binding enablesIEAUniProtKB-KW:KW-04301600115GO_REF:0000043UniProtGO_REF:0000043
Clec2d2l1Ratnatural 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. GOA pipeline RGD automated data pipeline
3. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
PMID:17462921   PMID:19130483  



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Variants in Clec2d2l1
161 total Variants

Predicted Target Of
Summary Value
Count of predictions:200
Count of miRNA genes:89
Interacting mature miRNAs:93
Transcripts:ENSRNOT00000042872, ENSRNOT00000045501
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 11 49 55 87 86 55 25 55 6 193 97 35 24 53 31



Ensembl Acc Id: ENSRNOT00000042872   ⟹   ENSRNOP00000040749
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl4162,181,158 - 162,230,859 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000045501   ⟹   ENSRNOP00000045915
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl4162,098,942 - 162,109,157 (-)Ensembl
Rnor_6.0 Ensembl4162,181,923 - 162,189,994 (-)Ensembl
RefSeq Acc Id: NM_001101019   ⟹   NP_001094489
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr84163,785,135 - 163,793,206 (-)NCBI
mRatBN7.24162,099,067 - 162,107,138 (-)NCBI
Rnor_6.04162,181,923 - 162,189,994 (-)NCBI
Rnor_5.04227,379,693 - 227,493,189 (-)NCBI
RGSC_v3.44165,853,013 - 165,862,182 (-)RGD
Celera4150,798,631 - 150,806,702 (-)NCBI
Sequence:
RefSeq Acc Id: XM_039108382   ⟹   XP_038964310
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr84163,785,235 - 163,794,490 (-)NCBI
mRatBN7.24162,099,167 - 162,107,301 (-)NCBI
Protein RefSeqs NP_001094489 (Get FASTA)   NCBI Sequence Viewer  
  XP_038964310 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein A4KWA6 (Get FASTA)   NCBI Sequence Viewer  
  ABO15827 (Get FASTA)   NCBI Sequence Viewer  
  ACJ23591 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000045915.6
RefSeq Acc Id: NP_001094489   ⟸   NM_001101019
- UniProtKB: A4KWA6 (UniProtKB/Swiss-Prot),   B7TXW4 (UniProtKB/TrEMBL),   F7FME4 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000045915   ⟸   ENSRNOT00000045501
Ensembl Acc Id: ENSRNOP00000040749   ⟸   ENSRNOT00000042872
RefSeq Acc Id: XP_038964310   ⟸   XM_039108382
- Peptide Label: isoform X1
C-type lectin

Name Modeler Protein Id AA Range Protein Structure
AF-A4KWA6-F1-model_v2 AlphaFold A4KWA6 1-252 view protein structure


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



1 to 25 of 25 rows
Database
Acc Id
Source(s)
BioCyc Gene G2FUF-42829 BioCyc
Ensembl Genes ENSRNOG00000037076 Ensembl, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000045501.6 UniProtKB/TrEMBL
Gene3D-CATH 3.10.100.10 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
InterPro C-type_lectin-like UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  C-type_lectin-like/link_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  C-type_lectin/matrix_domain UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  CTDL_fold UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  NKR-like_CTLD UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:689757 UniProtKB/TrEMBL
NCBI Gene 689757 ENTREZGENE
PANTHER C-TYPE LECTIN DOMAIN FAMILY 2 MEMBER D-RELATED UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  C-TYPE LECTIN DOMAIN-CONTAINING PROTEIN 180 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam Lectin_C UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Clec2d2l1 PhenoGen
PROSITE C_TYPE_LECTIN_2 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
RatGTEx ENSRNOG00000037076 RatGTEx
SMART CLECT UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP SSF56436 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt A0A8J8YB25_RAT UniProtKB/TrEMBL
  A4KWA6 ENTREZGENE
  B7TXW4 ENTREZGENE, UniProtKB/TrEMBL
  CL2D3_RAT UniProtKB/Swiss-Prot
  F7FME4 ENTREZGENE
UniProt Secondary F7FME4 UniProtKB/TrEMBL
1 to 25 of 25 rows


Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2023-09-19 Clec2d2l1  C-type lectin domain family 2 member D2 like 1  LOC689757  similar to osteoclast inhibitory lectin  Symbol and Name Changed 1299863 APPROVED
2008-01-09 LOC689757  similar to osteoclast inhibitory lectin  RGD1563033_predicted  similar to osteoclast inhibitory lectin (predicted)  Data merged from RGD:1563033 1643240 APPROVED
2006-11-19 LOC689757  similar to osteoclast inhibitory lectin      Symbol and Name status set to provisional 70820 PROVISIONAL
2006-03-07 RGD1563033_predicted  similar to osteoclast inhibitory lectin (predicted)  LOC362446  similar to osteoclast inhibitory lectin  Symbol and Name status set to approved 1299863 APPROVED
2006-02-09 LOC362446  similar to osteoclast inhibitory lectin      Symbol and Name status set to provisional 70820 PROVISIONAL