Cd99l2 (CD99 molecule-like 2) - Rat Genome Database
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Gene: Cd99l2 (CD99 molecule-like 2) Rattus norvegicus
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Symbol: Cd99l2
Name: CD99 molecule-like 2
RGD ID: 620896
Description: Predicted to be involved in diapedesis; homotypic cell-cell adhesion; and positive regulation of cellular extravasation. Localizes to integral component of membrane. Orthologous to human CD99L2 (CD99 molecule like 2); INTERACTS WITH (+)-schisandrin B; 2,4-dinitrotoluene; 6-propyl-2-thiouracil.
Type: protein-coding
RefSeq Status: PROVISIONAL
Also 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
Orthologs:
Homo sapiens (human) : CD99L2 (CD99 molecule like 2)  HGNC  Alliance
Mus musculus (house mouse) : Cd99l2 (CD99 antigen-like 2)  MGI  Alliance
Chinchilla lanigera (long-tailed chinchilla) : Cd99l2 (CD99 molecule like 2)
Pan paniscus (bonobo/pygmy chimpanzee) : CD99L2 (CD99 molecule like 2)
Canis lupus familiaris (dog) : CD99L2 (CD99 molecule like 2)
Ictidomys tridecemlineatus (thirteen-lined ground squirrel) : Cd99l2 (CD99 molecule like 2)
Sus scrofa (pig) : CD99L2 (CD99 molecule like 2)
Chlorocebus sabaeus (African green monkey) : CD99L2 (CD99 molecule like 2)
Heterocephalus glaber (naked mole-rat) : Cd99l2 (CD99 molecule like 2)
more info ...
Latest Assembly: Rnor_6.0 - RGSC Genome Assembly v6.0
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rnor_6.0155,265,257 - 5,311,232 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl155,265,307 - 5,311,233 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.0 Ensembl155,715,592 - 5,894,854 (-)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 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.1155,673,663 - 5,719,158 (+)NCBI
Cytogenetic Map15p16NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component

Molecular Function

References

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
Rnor_6.0155,265,257 - 5,311,232 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl155,265,307 - 5,311,233 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.0 Ensembl155,715,592 - 5,894,854 (-)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 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.1155,673,663 - 5,719,158 (+)NCBI
Cytogenetic Map15p16NCBI
CD99L2
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 EnsemblX150,766,336 - 150,898,816 (-)EnsemblGRCh38hg38GRCh38
GRCh38X150,766,336 - 150,898,717 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh37X149,934,809 - 150,067,289 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36X149,685,467 - 149,817,837 (-)NCBINCBI36hg18NCBI36
Build 34X149,608,051 - 149,737,665NCBI
CeleraX150,182,357 - 150,315,225 (-)NCBI
Cytogenetic MapXq28NCBI
HuRefX138,794,255 - 138,926,584 (-)NCBIHuRef
CHM1_1X149,809,144 - 149,941,706 (-)NCBICHM1_1
Cd99l2
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39X70,463,666 - 70,536,467 (-)NCBI
GRCm38X71,420,060 - 71,492,866 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 EnsemblX71,420,060 - 71,492,849 (-)EnsemblGRCm38mm10GRCm38
MGSCv37X68,673,245 - 68,745,820 (-)NCBIGRCm37mm9NCBIm37
MGSCv36X67,680,626 - 67,753,201 (-)NCBImm8
CeleraX62,400,179 - 62,472,985 (-)NCBICelera
Cytogenetic MapXA7.3NCBI
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
PanPan1.1X150,348,277 - 150,430,206 (-)NCBIpanpan1.1PanPan1.1panPan2
Mhudiblu_PPA_v0X140,416,510 - 140,548,193 (-)NCBI
CD99L2
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1 EnsemblX119,002,029 - 119,090,682 (-)EnsemblCanFam3.1canFam3CanFam3.1
CanFam3.1X119,000,342 - 119,041,859 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
Cd99l2
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
SpeTri2.0NW_0049367141,592,214 - 1,690,811 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
CD99L2
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 EnsemblX122,456,670 - 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
CD99L2
(Chlorocebus sabaeus - African green monkey)
Vervet AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1 EnsemblX125,355,349 - 125,483,689 (-)Ensembl
ChlSab1.1X125,355,382 - 125,483,765 (-)NCBI
Cd99l2
(Heterocephalus glaber - naked mole-rat)
No map positions available.


QTLs in Region (Rnor_6.0)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1300142Bp191Blood pressure QTL 1913.14arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)15112800829Rat
1354657Despr13Despair related QTL 130.0022locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)15130597196Rat
9589149Insul29Insulin level QTL 299.060.001blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)15137708474Rat
8552920Pigfal8Plasma insulin-like growth factor 1 level QTL 83blood insulin-like growth factor amount (VT:0010479)plasma insulin-like growth factor 1 level (CMO:0001299)15137708474Rat
8694361Abfw6Abdominal fat weight QTL 610.20.001visceral adipose mass (VT:0010063)abdominal fat pad weight to body weight ratio (CMO:0000095)15137708474Rat
731170Pur3Proteinuria QTL 32.30.0005urine protein amount (VT:0005160)urine protein excretion rate (CMO:0000759)15142844179Rat
1641887Alcrsp14Alcohol response QTL 14response to alcohol trait (VT:0010489)brain neurotensin receptor 1 density (CMO:0002068)15143521446Rat
2298549Neuinf12Neuroinflammation QTL 123.5nervous system integrity trait (VT:0010566)spinal cord beta-2 microglobulin mRNA level (CMO:0002125)15162301382Rat
5684946Bss98Bone structure and strength QTL 983.90.0026tibia strength trait (VT:1000284)tibia ultimate force (CMO:0001734)15110589015828368Rat
1641913Colcr2Colorectal carcinoma resistance QTL 26.570.0197intestine integrity trait (VT:0010554)colorectal tumor number (CMO:0001794)15232787726288802Rat
1641913Colcr2Colorectal carcinoma resistance QTL 26.570.0197intestine integrity trait (VT:0010554)poorly differentiated malignant colorectal tumor number (CMO:0002076)15232787726288802Rat
738017Hcas7Hepatocarcinoma susceptibility QTL 72.91liver integrity trait (VT:0010547)liver nonremodeling tumorous lesion volume to total liver volume ratio (CMO:0001464)15232787753535766Rat
10401805Kidm51Kidney mass QTL 51kidney mass (VT:0002707)both kidneys wet weight (CMO:0000085)15388113148881131Rat


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
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl155,715,592 - 5,894,854 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000031807   ⟹   ENSRNOP00000036593
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl155,265,307 - 5,311,233 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000092079   ⟹   ENSRNOP00000075068
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl155,306,459 - 5,311,204 (+)Ensembl
RefSeq Acc Id: NM_134459   ⟹   NP_604454
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0155,265,332 - 5,311,204 (+)NCBI
Rnor_5.0159,351,873 - 9,397,808 (+)NCBI
RGSC_v3.4155,673,664 - 5,719,158 (+)RGD
Sequence:
RefSeq Acc Id: XM_006251676   ⟹   XP_006251738
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0155,265,257 - 5,311,232 (+)NCBI
Rnor_5.0159,351,873 - 9,397,808 (+)NCBI
Sequence:
Protein Sequences
Protein RefSeqs NP_604454 (Get FASTA)   NCBI Sequence Viewer  
  XP_006251738 (Get FASTA)   NCBI Sequence Viewer  
  XP_017443948 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAL89685 (Get FASTA)   NCBI Sequence Viewer  
  BAA90767 (Get FASTA)   NCBI Sequence Viewer  
  Q8R1R5 (Get FASTA)   NCBI Sequence Viewer  
Reference Sequences
RefSeq Acc Id: NP_604454   ⟸   NM_134459
- Peptide Label: precursor
- UniProtKB: Q8R1R5 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: XP_006251738   ⟸   XM_006251676
- Peptide Label: isoform X1
- UniProtKB: Q8R1R5 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: ENSRNOP00000075068   ⟸   ENSRNOT00000092079
RefSeq Acc Id: ENSRNOP00000036593   ⟸   ENSRNOT00000031807
RefSeq Acc Id: ENSRNOP00000024427   ⟸   ENSRNOT00000024427

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

Strain Variation

Strain Sequence Variants (Rnor 6.0)
ACI/EurMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
ACI/EurMcwi (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
ACI/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
BBDP/Wor (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
BN/SsN (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
Buf/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
COP/CrCrl (MCW & UW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
University of Wisconsin (Dr. James Shull)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Charles River Laboratories
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob) and UW Madison (Dr. James Shull)
F344/NCrl (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
F344/NRrrc (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
FHH/EurMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
FHH/EurMcwi (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
FHL/EurMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
FHL/EurMcwi (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
GH/OmrMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
GK/Ox (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LE/Stm (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LEW/Crl (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LEW/NCrlBR (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LH/MavRrrc (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LL/MavRrrc (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LN/MavRrrc (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
M520/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
MHS/Gib (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
MNS/Gib (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
MR/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
SBH/Ygl (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: SBH/Ygl sequenced by MCW
SBH/Ygl (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SBN/Ygl (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: SBN/Ygl sequenced by MCW
SBN/Ygl (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SHR/NHsd (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SHRSP/Gcrc (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SR/JrHsd (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Harlan Laboratories
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
SR/JrHsd (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SS/Jr (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SS/JrHsdMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
SS/JrHsdMcwi (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WAG/Rij (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/Gcrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
WKY/NCrl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/NHsd (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WN/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
Damaging Variants


Assembly: Rnor_6.0

Chromosome Start Pos End Pos Reference Nucleotide Variant Nucleotide Variant Type Strain
15 5323197 5323198 A G snv M520/N (MCW), F344/NRrrc (MCW), Buf/N (MCW)
15 5323213 5323214 G T snv M520/N (MCW), Buf/N (MCW), F344/NRrrc (MCW)


Additional Information

Database Acc Id Source(s)
AGR Gene RGD:620896 AgrOrtholog
Ensembl Genes ENSRNOG00000018148 Ensembl, UniProtKB/Swiss-Prot
  ENSRNOG00000023841 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000024427 UniProtKB/Swiss-Prot
  ENSRNOP00000036593 ENTREZGENE, UniProtKB/Swiss-Prot
  ENSRNOP00000075068 UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000024427 UniProtKB/Swiss-Prot
  ENSRNOT00000031807 ENTREZGENE, UniProtKB/Swiss-Prot
  ENSRNOT00000092079 UniProtKB/TrEMBL
InterPro CD99L2 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:108348081 UniProtKB/Swiss-Prot
  rno:171485 UniProtKB/Swiss-Prot
NCBI Gene 171485 ENTREZGENE
PANTHER PTHR15076 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam CD99L2 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Cd99l2 PhenoGen
UniGene Rn.20204 ENTREZGENE
UniProt A0A0G2K9N8_RAT UniProtKB/TrEMBL
  C99L2_RAT UniProtKB/Swiss-Prot, 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 737654 PROVISIONAL
2015-07-29 Cd99l2  CD99 molecule-like 2  LOC691632  similar to MIC2 like 1  Data Merged 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 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
 



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RGD is funded by grant HL64541 from the National Heart, Lung, and Blood Institute on behalf of the NIH.