Ldb2 (LIM domain binding 2) - Rat Genome Database

Send us a Message



Submit Data |  Help |  Video Tutorials |  News |  Publications |  Download |  REST API |  Citing RGD |  Contact   
Gene: Ldb2 (LIM domain binding 2) Rattus norvegicus
Analyze
Symbol: Ldb2
Name: LIM domain binding 2
RGD ID: 1307921
Description: Predicted to enable LIM domain binding activity and enzyme binding activity. Predicted to be involved in several processes, including regulation of cell migration; regulation of kinase activity; and regulation of transcription by RNA polymerase II. Predicted to act upstream of or within several processes, including epithelial structure maintenance; hair follicle development; and somatic stem cell population maintenance. Predicted to be located in cell leading edge; nuclear lumen; and plasma membrane. Predicted to be part of transcription regulator complex. Predicted to be active in nucleus. Orthologous to human LDB2 (LIM domain binding 2); INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; 6-propyl-2-thiouracil; acrylamide.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: LIM domain-binding protein 2; LOC289664
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
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21466,277,044 - 66,598,071 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1466,277,085 - 66,597,778 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1470,673,511 - 70,993,888 (+)NCBIRnor_SHR
UTH_Rnor_SHRSP_BbbUtx_1.01471,957,095 - 72,277,709 (+)NCBIRnor_SHRSP
UTH_Rnor_WKY_Bbb_1.01468,383,948 - 68,704,320 (+)NCBIRnor_WKY
Rnor_6.01470,780,605 - 71,112,857 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1470,780,623 - 71,112,552 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01470,817,435 - 70,817,796 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
Rnor_5.01470,920,028 - 71,144,813 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41471,374,621 - 71,695,965 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11471,377,028 - 71,698,910 (+)NCBI
Celera1465,250,557 - 65,570,430 (+)NCBICelera
Cytogenetic Map14q21NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component
cell leading edge  (ISO)
nucleolus  (IEA,ISO)
nucleoplasm  (IEA,ISO)
nucleus  (IBA,ISO)
plasma membrane  (IEA,ISO)
transcription regulator complex  (IBA,ISO)

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 GOA human gene data--August 2006 GOA data from the GO Consortium
3. Rat ISS GO annotations from MGI mouse gene data--August 2006 MGD data from the GO Consortium
4. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
5. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:9192866   PMID:9853615   PMID:10431247   PMID:11882901   PMID:12477932   PMID:17991461   PMID:19675209  


Genomics

Comparative Map Data
Ldb2
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21466,277,044 - 66,598,071 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1466,277,085 - 66,597,778 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1470,673,511 - 70,993,888 (+)NCBIRnor_SHR
UTH_Rnor_SHRSP_BbbUtx_1.01471,957,095 - 72,277,709 (+)NCBIRnor_SHRSP
UTH_Rnor_WKY_Bbb_1.01468,383,948 - 68,704,320 (+)NCBIRnor_WKY
Rnor_6.01470,780,605 - 71,112,857 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1470,780,623 - 71,112,552 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01470,817,435 - 70,817,796 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
Rnor_5.01470,920,028 - 71,144,813 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41471,374,621 - 71,695,965 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11471,377,028 - 71,698,910 (+)NCBI
Celera1465,250,557 - 65,570,430 (+)NCBICelera
Cytogenetic Map14q21NCBI
LDB2
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38416,501,541 - 16,898,645 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p13 Ensembl416,501,541 - 16,898,678 (-)EnsemblGRCh38hg38GRCh38
GRCh37416,503,164 - 16,900,268 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36416,112,262 - 16,509,425 (-)NCBINCBI36Build 36hg18NCBI36
Build 34416,179,434 - 16,576,596NCBI
Celera416,968,377 - 17,365,469 (-)NCBICelera
Cytogenetic Map4p15.32NCBI
HuRef415,852,373 - 16,253,922 (-)NCBIHuRef
CHM1_1416,501,239 - 16,898,326 (-)NCBICHM1_1
T2T-CHM13v2.0416,483,292 - 16,880,253 (-)NCBIT2T-CHM13v2.0
Ldb2
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39544,593,292 - 44,957,466 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl544,629,474 - 44,957,022 (-)EnsemblGRCm39 Ensembl
GRCm38544,435,955 - 44,799,759 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl544,472,132 - 44,799,680 (-)EnsemblGRCm38mm10GRCm38
MGSCv37544,863,372 - 45,190,946 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36544,760,963 - 45,087,867 (-)NCBIMGSCv36mm8
Celera541,894,726 - 42,234,169 (-)NCBICelera
Cytogenetic Map5B3NCBI
Ldb2
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554807,199,933 - 7,568,629 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049554807,200,111 - 7,568,567 (+)NCBIChiLan1.0ChiLan1.0
LDB2
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.1416,226,042 - 16,621,851 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl416,227,146 - 16,622,167 (-)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v0410,930,160 - 11,327,367 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
LDB2
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1363,508,721 - 63,883,842 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl363,508,247 - 63,883,717 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha366,026,288 - 66,401,935 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0363,985,593 - 64,361,307 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl363,985,615 - 64,362,099 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1363,476,565 - 63,852,008 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0363,680,390 - 64,055,540 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0364,040,117 - 64,415,250 (+)NCBIUU_Cfam_GSD_1.0
Ldb2
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440528557,497,602 - 57,837,007 (+)NCBIHiC_Itri_2
SpeTri2.0NW_00493647711,199,200 - 11,538,699 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
LDB2
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl811,641,064 - 12,037,265 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1811,641,060 - 12,037,388 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2811,335,352 - 11,566,827 (-)NCBISscrofa10.2Sscrofa10.2susScr3
LDB2
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12733,303,801 - 33,698,460 (+)NCBIChlSab1.1ChlSab1.1chlSab2
Vero_WHO_p1.0NW_02366604780,035,660 - 80,430,270 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Ldb2
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462475514,962,317 - 15,359,814 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462475514,962,538 - 15,358,771 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Position Markers
D14Uia2  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21466,498,316 - 66,498,524 (+)MAPPERmRatBN7.2
Rnor_6.01471,011,822 - 71,012,029NCBIRnor6.0
Rnor_5.01471,045,058 - 71,045,265UniSTSRnor5.0
RGSC_v3.41471,596,783 - 71,596,991RGDRGSC3.4
RGSC_v3.41471,596,784 - 71,596,991UniSTSRGSC3.4
RGSC_v3.11471,599,174 - 71,599,382RGD
Celera1465,471,246 - 65,471,453UniSTS
Cytogenetic Map14q21UniSTS
D14Got125  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21466,385,919 - 66,386,161 (+)MAPPERmRatBN7.2
Rnor_6.01470,898,989 - 70,899,230NCBIRnor6.0
Rnor_5.01470,932,260 - 70,932,501UniSTSRnor5.0
RGSC_v3.41471,483,992 - 71,484,233UniSTSRGSC3.4
Celera1465,360,043 - 65,360,284UniSTS
Cytogenetic Map14q21UniSTS


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1581500Renag1Renal agenesis QTL 1kidney development trait (VT:0000527)percentage of study population developing unilateral renal agenesis during a period of time (CMO:0000940)14817066868298175Rat
631839Niddm37Non-insulin dependent diabetes mellitus QTL 373.37blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)141103062295876975Rat
70187Pancm5Pancreatic morphology QTL 516.7pancreas mass (VT:0010144)pancreas weight to body weight ratio (CMO:0000630)143032009280829842Rat
1300154Bp189Blood pressure QTL 1893.04arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)143088377768757901Rat
2313048Bss84Bone structure and strength QTL 843.10.0001tibia strength trait (VT:1000284)tibia total energy absorbed before break (CMO:0001736)143766971982669719Rat
2313084Bss83Bone structure and strength QTL 832.90.0001tibia size trait (VT:0100001)tibia midshaft endosteal cross-sectional area (CMO:0001716)143766971982669719Rat
2313089Bss81Bone structure and strength QTL 813.40.0001body length (VT:0001256)body length, nose to rump (CMO:0000079)143766971982669719Rat
2313100Bss82Bone structure and strength QTL 8230.0001tibia size trait (VT:0100001)tibia midshaft cross-sectional area (CMO:0001717)143766971982669719Rat
738037Hcas6Hepatocarcinoma susceptibility QTL 62.93liver integrity trait (VT:0010547)liver nonremodeling tumorous lesion volume to total liver volume ratio (CMO:0001464)143905723783368335Rat
70214Niddm28Non-insulin dependent diabetes mellitus QTL 284.06blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)143999825175582726Rat
631523Pia13Pristane induced arthritis QTL 133.3joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)144079346098037301Rat
1300136Rf22Renal function QTL 223.9renal blood flow trait (VT:2000006)absolute change in renal vascular resistance (CMO:0001900)144226252995023211Rat
1549834Scl45Serum cholesterol level QTL 455.8blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)145002321195023211Rat
2300197Scl59Serum cholesterol level QTL 59blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)1455147478100147478Rat
9590294Uminl4Urine mineral level QTL 45.660.001urine mineral amount (VT:0015086)urine electrolyte level (CMO:0000593)1455624247100624247Rat
9589034Epfw11Epididymal fat weight QTL 1160.001epididymal fat pad mass (VT:0010421)epididymal fat pad weight to body weight ratio (CMO:0000658)1455624247100624247Rat
2317879Alcrsp27Alcohol response QTL 273.30.63response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)1456631369101631369Rat
634328Hc5Hypercalciuria QTL 52.3urine calcium amount (VT:0002985)urine calcium excretion rate (CMO:0000763)1458184885103184885Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:132
Count of miRNA genes:93
Interacting mature miRNAs:119
Transcripts:ENSRNOT00000058803
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.


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 4 7 56 24 33 11
Low 3 43 53 41 12 41 8 11 18 11 8 8
Below cutoff

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000058803   ⟹   ENSRNOP00000055594
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1466,277,085 - 66,597,778 (+)Ensembl
Rnor_6.0 Ensembl1470,780,720 - 71,112,131 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000083871   ⟹   ENSRNOP00000072146
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1466,277,085 - 66,597,778 (+)Ensembl
Rnor_6.0 Ensembl1470,780,623 - 71,112,552 (+)Ensembl
RefSeq Acc Id: NM_001106009   ⟹   NP_001099479
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21466,277,085 - 66,597,510 (+)NCBI
Rnor_6.01470,780,605 - 71,111,577 (+)NCBI
Rnor_5.01470,817,435 - 70,817,796 (+)NCBI
Rnor_5.01470,920,028 - 71,144,813 (+)NCBI
RGSC_v3.41471,374,621 - 71,695,965 (+)RGD
Celera1465,250,557 - 65,570,430 (+)RGD
Sequence:
RefSeq Acc Id: XM_008770199   ⟹   XP_008768421
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21466,277,053 - 66,598,071 (+)NCBI
Rnor_6.01470,780,609 - 71,112,857 (+)NCBI
Sequence:
RefSeq Acc Id: XM_008770200   ⟹   XP_008768422
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21466,277,200 - 66,598,067 (+)NCBI
Rnor_6.01470,780,609 - 71,112,134 (+)NCBI
Sequence:
RefSeq Acc Id: XM_008770201   ⟹   XP_008768423
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21466,277,051 - 66,598,071 (+)NCBI
Rnor_6.01470,780,609 - 71,112,857 (+)NCBI
Sequence:
RefSeq Acc Id: XM_008770202   ⟹   XP_008768424
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21466,277,044 - 66,596,832 (+)NCBI
Rnor_6.01470,780,609 - 71,110,849 (+)NCBI
Sequence:
RefSeq Acc Id: XM_008770203   ⟹   XP_008768425
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21466,277,047 - 66,596,832 (+)NCBI
Rnor_6.01470,780,609 - 71,110,849 (+)NCBI
Sequence:
RefSeq Acc Id: XM_017599109   ⟹   XP_017454598
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21466,277,309 - 66,596,832 (+)NCBI
Rnor_6.01470,780,609 - 71,110,849 (+)NCBI
Sequence:
RefSeq Acc Id: XM_017599110   ⟹   XP_017454599
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21466,277,309 - 66,597,007 (+)NCBI
Rnor_6.01470,780,609 - 71,111,074 (+)NCBI
Sequence:
RefSeq Acc Id: XM_017599111   ⟹   XP_017454600
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21466,277,309 - 66,596,832 (+)NCBI
Rnor_6.01470,780,609 - 71,110,849 (+)NCBI
Sequence:
RefSeq Acc Id: XM_017599112   ⟹   XP_017454601
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21466,277,309 - 66,596,832 (+)NCBI
Rnor_6.01470,780,609 - 71,110,849 (+)NCBI
Sequence:
RefSeq Acc Id: XM_017599113   ⟹   XP_017454602
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21466,277,056 - 66,596,832 (+)NCBI
Rnor_6.01470,780,609 - 71,110,849 (+)NCBI
Sequence:
Reference Sequences
RefSeq Acc Id: NP_001099479   ⟸   NM_001106009
- Sequence:
RefSeq Acc Id: XP_008768422   ⟸   XM_008770200
- Peptide Label: isoform X2
- UniProtKB: E9PTQ0 (UniProtKB/TrEMBL),   B5DF10 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_008768421   ⟸   XM_008770199
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_008768423   ⟸   XM_008770201
- Peptide Label: isoform X3
- Sequence:
RefSeq Acc Id: XP_008768424   ⟸   XM_008770202
- Peptide Label: isoform X5
- Sequence:
RefSeq Acc Id: XP_008768425   ⟸   XM_008770203
- Peptide Label: isoform X8
- Sequence:
RefSeq Acc Id: XP_017454599   ⟸   XM_017599110
- Peptide Label: isoform X4
- Sequence:
RefSeq Acc Id: XP_017454598   ⟸   XM_017599109
- Peptide Label: isoform X4
- Sequence:
RefSeq Acc Id: XP_017454601   ⟸   XM_017599112
- Peptide Label: isoform X7
- Sequence:
RefSeq Acc Id: XP_017454600   ⟸   XM_017599111
- Peptide Label: isoform X6
- UniProtKB: A0A0G2K287 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_017454602   ⟸   XM_017599113
- Peptide Label: isoform X9
- Sequence:
RefSeq Acc Id: ENSRNOP00000055594   ⟸   ENSRNOT00000058803
RefSeq Acc Id: ENSRNOP00000072146   ⟸   ENSRNOT00000083871
Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-E9PTQ0-F1-model_v2 AlphaFold E9PTQ0 1-371 view protein structure

Transcriptome

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

Promoters
RGD ID:13699357
Promoter ID:EPDNEW_R9875
Type:single initiation site
Name:Ldb2_1
Description:LIM domain binding 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_6.01470,780,674 - 70,780,734EPDNEW

Strain Variation

Strain Sequence Variants (mRatBN7.2)
ACI/EurMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
ACI/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN-Lx/CubMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/NHsdMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/NHsdMcwi (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/SsN (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BUF/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BXH2/CubMcwi (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BXH3/CubMcwi (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
DA/OlaHsd (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Envigo
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/DuCrl (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/NCrl (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/Stm (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FHH/EurMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FXLE16/Stm (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FXLE18/Stm (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
GK/FarMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB10/IpcvMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB2/IpcvMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB20/IpcvMcwi (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB31/IpcvMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB4/IpcvMcwi (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LE/Stm (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEW/Crl (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF10A/StmMcwi (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF11/Stm (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF1A/Stm (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF1C/Stm (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF2B/Stm (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF3/Stm (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF4/Stm (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LH/MavRrrcAek (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LL/MavRrrcAek (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LN/MavRrrcAek (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
M520/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
M520/NRrrcMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
MR/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
MWF/Hsd (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
PVG/Seac (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SHR/OlalpcvMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SHRSP/A3NCrl (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SR/JrHsd (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Envigo
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SS/JrHsdMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WAG/RijCrl (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WKY/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WKY/NCrl (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WN/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1307921 AgrOrtholog
BioCyc Gene G2FUF-15531 BioCyc
Ensembl Genes ENSRNOG00000003205 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000055594 ENTREZGENE
  ENSRNOP00000055594.5 UniProtKB/TrEMBL
  ENSRNOP00000072146 ENTREZGENE
  ENSRNOP00000072146.2 UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000058803 ENTREZGENE
  ENSRNOT00000058803.4 UniProtKB/TrEMBL
  ENSRNOT00000083871 ENTREZGENE
  ENSRNOT00000083871.2 UniProtKB/TrEMBL
InterPro LDB2 UniProtKB/TrEMBL
  LID UniProtKB/TrEMBL
  LIM-dom_bd/SEUSS UniProtKB/TrEMBL
NCBI Gene 289664 ENTREZGENE
PANTHER LIM_bd UniProtKB/TrEMBL
  PTHR10378:SF8 UniProtKB/TrEMBL
Pfam LID UniProtKB/TrEMBL
  LIM_bind UniProtKB/TrEMBL
PhenoGen Ldb2 PhenoGen
PROSITE LID UniProtKB/TrEMBL
UniProt A0A0G2K287 ENTREZGENE, UniProtKB/TrEMBL
  A0A8J8XZV4_RAT UniProtKB/TrEMBL
  B5DF10 ENTREZGENE
  E9PTQ0 ENTREZGENE, UniProtKB/TrEMBL
UniProt Secondary B5DF10 UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2008-04-30 Ldb2  LIM domain binding 2   Ldb2_predicted  LIM domain binding 2 (predicted)  'predicted' is removed 2292626 APPROVED
2005-01-12 Ldb2_predicted  LIM domain binding 2 (predicted)      Symbol and Name status set to approved 70820 APPROVED