Skor2 (SKI family transcriptional corepressor 2) - Rat Genome Database

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Gene: Skor2 (SKI family transcriptional corepressor 2) Rattus norvegicus
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Symbol: Skor2
Name: SKI family transcriptional corepressor 2
RGD ID: 1598071
Description: Predicted to enable several functions, including RNA polymerase II cis-regulatory region sequence-specific DNA binding activity; SMAD binding activity; and histone deacetylase binding activity. Predicted to be involved in negative regulation of BMP signaling pathway; negative regulation of transcription by RNA polymerase II; and negative regulation of transforming growth factor beta receptor signaling pathway. Predicted to act upstream of or within several processes, including cerebellar Purkinje cell differentiation; positive regulation of smoothened signaling pathway; and regulation of neural precursor cell proliferation. Predicted to be part of transcription regulator complex. Predicted to be active in cytoplasm and nucleus. Orthologous to human SKOR2 (SKI family transcriptional corepressor 2); INTERACTS WITH bisphenol A; methoxychlor; 2,3',4,4',5-Pentachlorobiphenyl (ortholog).
Type: protein-coding
RefSeq Status: MODEL
Previously known as: LOC681200; similar to Ladybird homeobox corepressor 1; SKI family transcriptional corepressor 2, pseudogene 1; Skor2-ps1
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Black Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81872,679,449 - 72,721,117 (+)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl1872,677,215 - 72,715,350 (+)EnsemblGRCr8
mRatBN7.21870,404,431 - 70,446,330 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1870,404,489 - 70,440,342 (+)EnsemblmRatBN7.2
Rnor_6.01873,145,596 - 73,199,395 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1873,157,973 - 73,193,377 (+)Ensemblrn6Rnor6.0
Rnor_5.01872,836,465 - 72,877,011 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.41873,821,250 - 73,864,209 (+)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera1868,920,342 - 68,974,524 (+)NCBICelera
Cytogenetic Map18q12.3NCBI
JBrowse:




Disease Annotations     Click to see Annotation Detail View
Dysarthria  (ISO)

Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component
cytoplasm  (IBA,IEA,ISO)
nucleus  (IBA,IEA,ISO)
transcription regulator complex  (IBA)

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
4. Comprehensive gene review and curation RGD comprehensive gene curation
Additional References at PubMed
PMID:16200078   PMID:18522874   PMID:21937600   PMID:24491816  


Genomics

Comparative Map Data
Skor2
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81872,679,449 - 72,721,117 (+)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl1872,677,215 - 72,715,350 (+)EnsemblGRCr8
mRatBN7.21870,404,431 - 70,446,330 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1870,404,489 - 70,440,342 (+)EnsemblmRatBN7.2
Rnor_6.01873,145,596 - 73,199,395 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1873,157,973 - 73,193,377 (+)Ensemblrn6Rnor6.0
Rnor_5.01872,836,465 - 72,877,011 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.41873,821,250 - 73,864,209 (+)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera1868,920,342 - 68,974,524 (+)NCBICelera
Cytogenetic Map18q12.3NCBI
SKOR2
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381847,206,169 - 47,251,660 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1847,206,169 - 47,251,660 (-)Ensemblhg38GRCh38
GRCh371844,732,540 - 44,778,031 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361843,000,291 - 43,029,552 (-)NCBIBuild 36Build 36hg18NCBI36
Celera1841,579,319 - 41,626,006 (-)NCBICelera
Cytogenetic Map18q21.1NCBI
HuRef1841,586,480 - 41,623,743 (-)NCBIHuRef
CHM1_11844,733,580 - 44,770,699 (-)NCBICHM1_1
T2T-CHM13v2.01847,396,432 - 47,441,946 (-)NCBIT2T-CHM13v2.0
Skor2
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391876,934,428 - 76,988,759 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1876,944,100 - 76,988,037 (+)EnsemblGRCm39 EnsemblGRCm39
GRCm381876,846,733 - 76,901,064 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1876,856,405 - 76,900,342 (+)Ensemblmm10GRCm38
MGSCv371877,095,144 - 77,139,081 (+)NCBIMGSCv37MGSCv37mm9NCBIm37
MGSCv361877,060,652 - 77,098,605 (+)NCBIMGSCv36mm8
Celera1878,040,716 - 78,084,655 (+)NCBICelera
Cytogenetic Map18E3NCBI
cM Map1851.93NCBI
Skor2
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495540232,582,575 - 32,618,436 (-)Ensembl
ChiLan1.0NW_00495540232,577,189 - 32,618,611 (-)NCBIChiLan1.0ChiLan1.0
SKOR2
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21764,741,516 - 64,787,115 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11850,434,117 - 50,479,718 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01840,594,124 - 40,639,720 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11843,979,245 - 43,997,434 (-)NCBIPanPan1.1PanPan1.1panPan2
SKOR2
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1744,250,822 - 44,289,737 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha743,735,496 - 43,774,017 (+)NCBIDog10K_Boxer_TashaDog10K_Boxer_Tasha
ROS_Cfam_1.0744,204,550 - 44,243,076 (+)NCBIROS_Cfam_1.0ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl744,204,550 - 44,243,129 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1743,904,624 - 43,943,147 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0743,959,109 - 43,997,423 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0744,242,454 - 44,280,984 (+)NCBIUU_Cfam_GSD_1.0UU_Cfam_GSD_1.0
Skor2
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440494440,472,580 - 40,516,135 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_004936983161,836 - 197,276 (-)EnsemblSpeTri2.0 Ensembl
SpeTri2.0NW_004936983156,466 - 197,281 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
SKOR2
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl196,803,098 - 96,844,492 (-)EnsemblsusScr11Sscrofa11.1
Sscrofa11.1196,795,362 - 96,842,360 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21309,491,307 - 309,538,198 (+)NCBISscrofa10.2Sscrofa10.2susScr3
SKOR2
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11833,687,044 - 33,731,464 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl1833,687,057 - 33,716,606 (+)EnsemblChlSab1.1 EnsemblchlSab2Vervet-AGM
Vero_WHO_p1.0NW_0236660507,988,355 - 8,035,852 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Skor2
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462477810,758,013 - 10,809,789 (-)EnsemblHetGla_female_1.0 EnsemblhetGla2HetGla_female_1.0 Ensembl
HetGla 1.0NW_00462477810,757,829 - 10,807,277 (-)NCBIHetGla 1.0HetGla 1.0hetGla2
Skor2
(Rattus rattus - black rat)
Black Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rrattus_CSIRO_v11555,164,444 - 55,197,411 (-)NCBIRrattus_CSIRO_v1

Variants

.
Variants in Skor2
349 total Variants
miRNA Target Status (No longer updated)

Predicted Target Of
Summary Value
Count of predictions:47
Count of miRNA genes:46
Interacting mature miRNAs:47
Transcripts:ENSRNOT00000031993
Prediction methods:Miranda, Rnahybrid, Targetscan
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
1331733Bp233Blood pressure QTL 2333.97196arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)182507112683910656Rat
12904069Cm123Cardiac mass QTL 1230.001heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)183337915878379158Rat
1331798Bp224Blood pressure QTL 2243.53873arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)183161050577371277Rat
12904070Cm124Cardiac mass QTL 1240.01heart right ventricle mass (VT:0007033)heart right ventricle weight to body weight ratio (CMO:0000914)183337915878379158Rat
12904071Am18Aortic mass QTL 180.001aorta mass (VT:0002845)aorta weight to aorta length to body weight ratio (CMO:0002722)183337915878379158Rat
2303584Gluco55Glucose level QTL 552blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)185079521286134022Rat
1331730Scl27Serum cholesterol level QTL 273.826blood HDL cholesterol amount (VT:0000184)serum high density lipoprotein cholesterol level (CMO:0000361)185449080186134022Rat
61383Bp47Blood pressure QTL 4717.3arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)183152278376522783Rat
12904067Cm122Cardiac mass QTL 1220.001heart mass (VT:0007028)heart wet weight to body weight ratio (CMO:0002408)183337915878379158Rat
61384Bp48Blood pressure QTL 4819.4arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)186289225779484461Rat
1331741Bp232Blood pressure QTL 2323.59112arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)182349405785487725Rat
1331742Bp228Blood pressure QTL 2283.88752arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)183161050577371277Rat
2301417Bp319Blood pressure QTL 3190.002arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)183337915878379158Rat
1298072Cia26Collagen induced arthritis QTL 263.6joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)186438376279484311Rat
12904073Kidm71Kidney mass QTL 710.001kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)183337915878379158Rat
631834Sach3Saccharin preference QTL 33.90.01consumption behavior trait (VT:0002069)calculated saccharin drink intake volume (CMO:0001600)183857591983575919Rat
738008Hcar14Hepatocarcinoma resistance QTL 144.3liver integrity trait (VT:0010547)liver nonremodeling tumorous lesion number (CMO:0001462)185782524385493247Rat
1331776Bp225Blood pressure QTL 2252.829arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)183161050577371277Rat
631518Bw11Body weight QTL 112.8body mass (VT:0001259)body weight (CMO:0000012)183612162681121626Rat
1641923Colcr8Colorectal carcinoma resistance QTL 83.10.0014intestine integrity trait (VT:0010554)poorly differentiated malignant colorectal tumor number (CMO:0002076)183199089176990891Rat
6893683Bw110Body weight QTL 1102.70.002body mass (VT:0001259)body weight (CMO:0000012)184562030686134022Rat
8694366Abfw8Abdominal fat weight QTL 86.380.001visceral adipose mass (VT:0010063)abdominal fat pad weight to body weight ratio (CMO:0000095)184891573786134022Rat
7794793Mcs34Mammary carcinoma susceptibility QTL 341.54mammary gland integrity trait (VT:0010552)mammary tumor incidence/prevalence measurement (CMO:0000946)186563556785897775Rat
631274Sprol1Serum protein level QTL 15.3blood total protein amount (VT:0005567)serum total protein level (CMO:0000661)183164450879484311Rat
9589041Epfw12Epididymal fat weight QTL 1217.080.001epididymal fat pad mass (VT:0010421)epididymal fat pad weight to body weight ratio (CMO:0000658)184891573786134022Rat
8694432Bw165Body weight QTL 1653.810.001body lean mass (VT:0010483)lean tissue morphological measurement (CMO:0002184)184891573786134022Rat
1358193Emca2Estrogen-induced mammary cancer QTL 21.6mammary gland integrity trait (VT:0010552)post-insult time to mammary tumor formation (CMO:0000345)186584644786134022Rat
1598832Glom11Glomerulus QTL 112.9kidney glomerulus morphology trait (VT:0005325)index of glomerular damage (CMO:0001135)185326667186134022Rat
1331774Bp226Blood pressure QTL 2264.41065arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)183161050577371277Rat
9589816Gluco68Glucose level QTL 687.250.001blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)183199089176990891Rat
1600373Mamtr6Mammary tumor resistance QTL 6mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)181955353285493247Rat
8694378Bw157Body weight QTL 1573.590.001body lean mass (VT:0010483)lean tissue morphological measurement (CMO:0002184)183199089176990891Rat
1331770Bp234Blood pressure QTL 2343.807arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)184562030686134022Rat
2303571Bw92Body weight QTL 923body mass (VT:0001259)body weight (CMO:0000012)185079521286134022Rat
2301969Bp324Blood pressure QTL 3244.05arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)186198220476619168Rat
631675Iddm15Insulin dependent diabetes mellitus QTL 15urine glucose amount (VT:0001758)percentage of study population developing diabetes mellitus during a period of time (CMO:0001114)186289225779484461Rat
1578667Bss21Bone structure and strength QTL 213.5femur morphology trait (VT:0000559)femoral neck cortical cross-sectional area (CMO:0001702)181206648285493247Rat
2303120Mamtr8Mammary tumor resistance QTL 80.001mammary gland integrity trait (VT:0010552)mammary tumor growth rate (CMO:0000344)183161050585493247Rat
12880368Bw187Body weight QTL 1870.045body mass (VT:0001259)body weight (CMO:0000012)183337915878379158Rat
724542Kidm2Kidney mass QTL 22.6kidney mass (VT:0002707)calculated kidney weight (CMO:0000160)186144685386134022Rat
61367Iddm4Insulin dependent diabetes mellitus QTL 42.330.0074blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)184046238385462383Rat
1359020Ppulsi2Prepulse inhibition QTL 22.71prepulse inhibition trait (VT:0003088)acoustic startle response measurement (CMO:0001519)185449080176272247Rat
9590318Scort22Serum corticosterone level QTL 227.640.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)183199089176990891Rat
1578661Bss20Bone structure and strength QTL 203.7femur morphology trait (VT:0000559)femoral neck cross-sectional area (CMO:0001697)181206648285493247Rat
1331754Bp230Blood pressure QTL 2304.61609arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)181564228086134022Rat


Expression

RNA-SEQ Expression

circulatory system
ectoderm
endocrine system
endoderm
exocrine system
hemolymphoid system
hepatobiliary system
mesenchyme
mesoderm
nervous system
renal system
reproductive system
respiratory system
sensory system
visual system
2 65 3 2 1 1 1 8 3 65 4 33 1 6 6

Sequence


Ensembl Acc Id: ENSRNOT00000031993   ⟹   ENSRNOP00000029409
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl1872,677,215 - 72,715,350 (+)Ensembl
mRatBN7.2 Ensembl1870,404,489 - 70,440,342 (+)Ensembl
Rnor_6.0 Ensembl1873,157,973 - 73,193,377 (+)Ensembl
RefSeq Acc Id: XM_039097333   ⟹   XP_038953261
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81872,679,449 - 72,721,117 (+)NCBI
mRatBN7.21870,404,431 - 70,446,330 (+)NCBI
Protein Sequences
Protein RefSeqs XP_038953261 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000029409
  ENSRNOP00000029409.7
Ensembl Acc Id: ENSRNOP00000029409   ⟸   ENSRNOT00000031993
RefSeq Acc Id: XP_038953261   ⟸   XM_039097333
- UniProtKB: D3ZAH4 (UniProtKB/TrEMBL)
Protein Domains
c-SKI SMAD4-binding

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-D3ZAH4-F1-model_v2 AlphaFold D3ZAH4 1-1007 view protein structure

Transcriptome

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

Promoters
RGD ID:13700874
Promoter ID:EPDNEW_R11398
Type:single initiation site
Name:Skor2_1
Description:SKI family transcriptional corepressor 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_6.01873,157,930 - 73,157,990EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1598071 AgrOrtholog
BioCyc Gene G2FUF-6951 BioCyc
Ensembl Genes ENSRNOG00000018006 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000031993 ENTREZGENE
  ENSRNOT00000031993.8 UniProtKB/TrEMBL
Gene3D-CATH 3.10.260.20 UniProtKB/TrEMBL
  3.10.390.10 UniProtKB/TrEMBL
InterPro c-SKI_SMAD-bd_dom UniProtKB/TrEMBL
  DNA-bd_dom_put UniProtKB/TrEMBL
  SAND_dom-like UniProtKB/TrEMBL
  Ski_DNA-bd_sf UniProtKB/TrEMBL
  Transform_Ski UniProtKB/TrEMBL
  Tscrpt_reg_SKI_SnoN UniProtKB/TrEMBL
NCBI Gene 681200 ENTREZGENE
PANTHER PTHR10005:SF7 UniProtKB/TrEMBL
  Tscrpt_reg_SKI_SnoN UniProtKB/TrEMBL
Pfam c-SKI_SMAD_bind UniProtKB/TrEMBL
  Ski_Sno UniProtKB/TrEMBL
PhenoGen Skor2 PhenoGen
RatGTEx ENSRNOG00000018006 RatGTEx
SMART c-SKI_SMAD_bind UniProtKB/TrEMBL
Superfamily-SCOP Putativ_DNA_bind UniProtKB/TrEMBL
  SAND_like UniProtKB/TrEMBL
UniProt D3ZAH4 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2013-03-07 Skor2  SKI family transcriptional corepressor 2  Skor2-ps1  SKI family transcriptional corepressor 2, pseudogene 1  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2011-06-09 Skor2-ps1  SKI family transcriptional corepressor 2, pseudogene 1  Skor2  SKI family transcriptional corepressor 2  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2010-09-15 Skor2  SKI family transcriptional corepressor 2  LOC681200  similar to Ladybird homeobox corepressor 1  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2006-11-20 LOC681200  similar to Ladybird homeobox corepressor 1      Symbol and Name status set to provisional 70820 PROVISIONAL