Cd99l2 (CD99 molecule-like 2) - Rat Genome Database

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Gene: Cd99l2 (CD99 molecule-like 2) Rattus norvegicus
Analyze
Symbol: Cd99l2
Name: CD99 molecule-like 2
RGD ID: 620896
Description: Predicted to act upstream of or within diapedesis; homotypic cell-cell adhesion; and positive regulation of cellular extravasation. Predicted to be located in adherens junction and cell surface. Orthologous to human CD99L2 (CD99 molecule like 2); INTERACTS WITH (+)-schisandrin B; 2,3,7,8-tetrachlorodibenzodioxine; 2,4-dinitrotoluene.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: Cd99 antigen-like 2; CD99 antigen-like protein 2; CD99 antigen-like protein 2-like; LOC100911604; LOC691632; MIC2 like 1; MIC2-like protein 1; Mic2l1; rhombencephalic expression protein 40 kDa; Rhombex-40; similar to MIC2 like 1; single-pass transmembrane protein; vms-tm2
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
NCBI Annotation Information: Annotation category: suggests misassembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8156,861,242 - 6,906,838 (-)NCBIGRCr8
UTH_Rnor_SHR_Utx156,563,091 - 6,608,585 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0157,475,775 - 7,521,269 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0155,776,277 - 5,821,775 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0155,265,257 - 5,311,232 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl155,715,592 - 5,894,854 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.0 Ensembl155,265,307 - 5,311,233 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0159,928,042 - 9,962,371 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
Rnor_5.0159,351,873 - 9,397,808 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4155,673,664 - 5,719,158 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.1155,673,663 - 5,719,158 (+)NCBI
Cytogenetic Map15p16NCBI


Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component

Molecular Function

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 MGI mouse gene data--August 2006 MGD data from the GO Consortium
3. Electronic Transfer of LocusLink and RefSeq Data NCBI rat LocusLink and RefSeq merged data July 26, 2002
4. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
5. Molecular cloning of Rhombex-40 a transmembrane protein from the ventral medullary surface of the rat brain by differential display. Shimokawa N, etal., Life Sci 2000 Apr 21;66(22):2183-91.
6. Cloning, genomic organization, alternative transcripts and expression analysis of CD99L2, a novel paralog of human CD99, and identification of evolutionary conserved motifs. Suh YH, etal., Gene 2003 Mar 27;307:63-76.
Additional References at PubMed
PMID:17344467   PMID:21423176   PMID:23293350  


Genomics

Comparative Map Data
Cd99l2
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8156,861,242 - 6,906,838 (-)NCBIGRCr8
UTH_Rnor_SHR_Utx156,563,091 - 6,608,585 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0157,475,775 - 7,521,269 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0155,776,277 - 5,821,775 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0155,265,257 - 5,311,232 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl155,715,592 - 5,894,854 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.0 Ensembl155,265,307 - 5,311,233 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0159,928,042 - 9,962,371 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
Rnor_5.0159,351,873 - 9,397,808 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4155,673,664 - 5,719,158 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.1155,673,663 - 5,719,158 (+)NCBI
Cytogenetic Map15p16NCBI
CD99L2
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38X150,766,336 - 150,898,668 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 EnsemblX150,766,336 - 150,898,816 (-)EnsemblGRCh38hg38GRCh38
GRCh37X149,934,809 - 150,067,141 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36X149,685,467 - 149,817,837 (-)NCBINCBI36Build 36hg18NCBI36
Build 34X149,608,051 - 149,737,665NCBI
CeleraX150,182,357 - 150,315,225 (-)NCBICelera
Cytogenetic MapXq28NCBI
HuRefX138,794,255 - 138,926,584 (-)NCBIHuRef
CHM1_1X149,809,144 - 149,941,706 (-)NCBICHM1_1
T2T-CHM13v2.0X149,033,979 - 149,166,303 (-)NCBIT2T-CHM13v2.0
Cd99l2
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39X70,463,666 - 70,536,467 (-)NCBIGRCm39GRCm39mm39
GRCm39 EnsemblX70,463,666 - 70,536,455 (-)EnsemblGRCm39 Ensembl
GRCm38X71,420,060 - 71,492,866 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 EnsemblX71,420,060 - 71,492,849 (-)EnsemblGRCm38mm10GRCm38
MGSCv37X68,673,245 - 68,745,820 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36X67,680,626 - 67,753,201 (-)NCBIMGSCv36mm8
CeleraX62,400,179 - 62,472,985 (-)NCBICelera
Cytogenetic MapXA7.3NCBI
cM MapX36.82NCBI
Cd99l2
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0NW_0049554986,529,039 - 6,591,728 (-)NCBIChiLan1.0ChiLan1.0
CD99L2
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2X150,903,962 - 151,035,944 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1X150,907,568 - 151,039,550 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0X140,416,510 - 140,548,193 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1X150,348,277 - 150,430,206 (-)NCBIpanpan1.1PanPan1.1panPan2
CD99L2
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1X119,000,342 - 119,041,859 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 EnsemblX119,002,029 - 119,090,682 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_TashaX104,381,618 - 104,476,417 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0X121,220,340 - 121,315,308 (-)NCBIROS_Cfam_1.0
UMICH_Zoey_3.1X117,946,122 - 118,041,070 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0X120,424,046 - 120,518,972 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0X120,306,658 - 120,401,458 (-)NCBIUU_Cfam_GSD_1.0
Cd99l2
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2X116,566,592 - 116,664,265 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049367141,592,422 - 1,688,552 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049367141,592,214 - 1,690,811 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
CD99L2
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 EnsemblX122,456,676 - 122,535,870 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1X122,456,668 - 122,535,989 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2X140,071,641 - 140,150,898 (-)NCBISscrofa10.2Sscrofa10.2susScr3
LOC103232741
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1X125,355,382 - 125,483,765 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 EnsemblX125,355,349 - 125,483,689 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366637419,754 - 52,795 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Cd99l2
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046249231,143,682 - 1,219,791 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046249231,143,884 - 1,219,746 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2


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 1 2 2 2 48 2 8
Low 2 41 55 39 19 39 8 11 26 33 33 11 8
Below cutoff 1 2 4 1 1

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000024427   ⟹   ENSRNOP00000024427
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl155,715,592 - 5,894,854 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000031807   ⟹   ENSRNOP00000036593
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl155,265,307 - 5,311,233 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000092079   ⟹   ENSRNOP00000075068
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl155,306,459 - 5,311,204 (+)Ensembl
RefSeq Acc Id: NM_001409570   ⟹   NP_001396499
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8156,864,268 - 6,906,709 (-)NCBI
RefSeq Acc Id: XM_063273955   ⟹   XP_063130025
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8156,861,242 - 6,906,834 (-)NCBI
RefSeq Acc Id: XM_063273956   ⟹   XP_063130026
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8156,861,242 - 6,906,838 (-)NCBI
RefSeq Acc Id: XM_063273957   ⟹   XP_063130027
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8156,861,242 - 6,906,788 (-)NCBI
Reference Protein Sequences
RefSeq Acc Id: ENSRNOP00000075068   ⟸   ENSRNOT00000092079
RefSeq Acc Id: ENSRNOP00000036593   ⟸   ENSRNOT00000031807
RefSeq Acc Id: ENSRNOP00000024427   ⟸   ENSRNOT00000024427
RefSeq Acc Id: XP_063130026   ⟸   XM_063273956
- Peptide Label: isoform X2
RefSeq Acc Id: XP_063130025   ⟸   XM_063273955
- Peptide Label: isoform X1
RefSeq Acc Id: XP_063130027   ⟸   XM_063273957
- Peptide Label: isoform X3
RefSeq Acc Id: NP_001396499   ⟸   NM_001409570
- Peptide Label: precursor
- UniProtKB: Q9JJL7 (UniProtKB/Swiss-Prot),   Q8R1R5 (UniProtKB/Swiss-Prot)

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q8R1R5-F1-model_v2 AlphaFold Q8R1R5 1-246 view protein structure

Transcriptome

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

Promoters
RGD ID:13699574
Promoter ID:EPDNEW_R10097
Type:initiation region
Name:LOC108348081_1
Description:CD99 antigen-like protein 2
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_6.0155,265,331 - 5,265,391EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:620896 AgrOrtholog
Ensembl Genes ENSRNOG00000018148 Ensembl
  ENSRNOG00000023841 Ensembl
  ENSRNOG00055019830 UniProtKB/Swiss-Prot
  ENSRNOG00060011178 UniProtKB/Swiss-Prot
  ENSRNOG00065011762 UniProtKB/Swiss-Prot
Ensembl Transcript ENSRNOT00055033885 UniProtKB/Swiss-Prot
  ENSRNOT00060018884 UniProtKB/Swiss-Prot
  ENSRNOT00065019111 UniProtKB/Swiss-Prot
InterPro CD99L2 UniProtKB/Swiss-Prot
NCBI Gene 171485 ENTREZGENE
PANTHER CD99 ANTIGEN-LIKE PROTEIN 2 UniProtKB/Swiss-Prot
  PTHR15076 UniProtKB/Swiss-Prot
Pfam CD99L2 UniProtKB/Swiss-Prot
PhenoGen Cd99l2 PhenoGen
RatGTEx ENSRNOG00000018148 RatGTEx
  ENSRNOG00000023841 RatGTEx
  ENSRNOG00055019830 RatGTEx
  ENSRNOG00060011178 RatGTEx
  ENSRNOG00065011762 RatGTEx
UniProt C99L2_RAT UniProtKB/Swiss-Prot, ENTREZGENE
  Q9JJL7 ENTREZGENE
UniProt Secondary Q9JJL7 UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2015-07-29 Cd99l2  CD99 molecule-like 2  LOC100911604  CD99 antigen-like protein 2-like  Data merged from RGD:6492130 737654 PROVISIONAL
2015-07-29 Cd99l2  CD99 molecule-like 2  LOC691632  similar to MIC2 like 1  Data merged from RGD:1597261 737654 PROVISIONAL
2012-07-05 LOC100911604  CD99 antigen-like protein 2-like      Symbol and Name status set to provisional 70820 PROVISIONAL
2008-09-26 Cd99l2  CD99 molecule-like 2  Cd99l2  Cd99 antigen-like 2  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-02-22 Cd99l2  Cd99 antigen-like 2  Mic2l1  MIC2 like 1  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-01-09 LOC691632  similar to MIC2 like 1  LOC686985  similar to MIC2 like 1  Data merged from RGD:1591236 1643240 APPROVED
2006-11-20 LOC691632  similar to MIC2 like 1      Symbol and Name status set to provisional 70820 PROVISIONAL
2006-11-20 LOC686985  similar to MIC2 like 1      Symbol and Name status set to provisional 70820 PROVISIONAL
2002-08-07 Mic2l1  MIC2 like 1      Symbol and Name status set to provisional 70820 PROVISIONAL

RGD Curation Notes
Note Type Note Reference
gene_expression highly expressed in brain; present in lung, liver, and kidney 633188
gene_protein 374 amino acids 633188