Ldb2 (LIM domain binding 2) - Rat Genome Database

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Gene: Ldb2 (LIM domain binding 2) Rattus norvegicus
Analyze
Symbol: Ldb2
Name: LIM domain binding 2
RGD ID: 1307921
Description: Predicted to enable enzyme binding activity and transcription coregulator activity. Predicted to be involved in nervous system development; regulation of cell migration; 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. 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
Black Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81470,489,243 - 70,810,573 (+)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl1470,489,620 - 70,810,574 (+)EnsemblGRCr8
mRatBN7.21466,277,044 - 66,598,071 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1466,277,085 - 66,597,778 (+)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx1470,673,511 - 70,993,888 (+)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01471,957,095 - 72,277,709 (+)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01468,383,948 - 68,704,320 (+)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.01470,780,605 - 71,112,857 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1470,780,623 - 71,112,552 (+)Ensemblrn6Rnor6.0
Rnor_5.01470,920,028 - 71,144,813 (+)NCBIRnor_5.0Rnor_5.0rn5
Rnor_5.01470,817,435 - 70,817,796 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.41471,374,621 - 71,695,965 (+)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera1465,250,557 - 65,570,430 (+)NCBICelera
RGSC_v3.11471,377,028 - 71,698,910 (+)NCBI
Cytogenetic Map14q21NCBI
JBrowse:




Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(1->4)-beta-D-glucan  (ISO)
1,1,1-trichloroethane  (ISO)
1,1-dichloroethene  (ISO)
1,2-dimethylhydrazine  (ISO)
17alpha-ethynylestradiol  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (EXP)
3-isobutyl-1-methyl-7H-xanthine  (ISO)
4,4'-sulfonyldiphenol  (ISO)
4-hydroxyphenyl retinamide  (ISO)
6-propyl-2-thiouracil  (EXP)
acrylamide  (EXP)
aflatoxin B1  (ISO)
Aflatoxin B2 alpha  (ISO)
antirheumatic drug  (ISO)
arsenous acid  (ISO)
atrazine  (EXP)
benzo[a]pyrene  (ISO)
benzo[a]pyrene diol epoxide I  (ISO)
bis(2-chloroethyl) sulfide  (ISO)
bis(2-ethylhexyl) phthalate  (ISO)
bisphenol A  (EXP,ISO)
bisphenol F  (ISO)
Butylbenzyl phthalate  (ISO)
cadmium atom  (ISO)
cadmium dichloride  (EXP,ISO)
carbon nanotube  (ISO)
CGP 52608  (ISO)
cocaine  (ISO)
cyclosporin A  (ISO)
dexamethasone  (ISO)
diarsenic trioxide  (ISO)
diazinon  (EXP)
diquat  (ISO)
dorsomorphin  (ISO)
doxorubicin  (ISO)
fulvestrant  (ISO)
indometacin  (ISO)
lipopolysaccharide  (ISO)
methimazole  (EXP)
methylmercury chloride  (ISO)
nickel atom  (ISO)
O-methyleugenol  (ISO)
okadaic acid  (ISO)
oxaliplatin  (EXP)
paracetamol  (ISO)
perfluorohexanesulfonic acid  (ISO)
perfluorooctane-1-sulfonic acid  (ISO)
phenylmercury acetate  (ISO)
phenytoin  (EXP)
progesterone  (ISO)
quercetin  (EXP)
SB 431542  (ISO)
sodium arsenate  (ISO)
Soman  (EXP)
tamoxifen  (ISO)
tetrachloromethane  (ISO)
Theaflavin 3,3'-digallate  (ISO)
titanium dioxide  (ISO)
topotecan  (EXP)
trichostatin A  (ISO)
triclosan  (ISO)
valproic acid  (ISO)
vitamin E  (ISO)
vorinostat  (ISO)
zoledronic acid  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component
cell leading edge  (IEA,ISO)
nucleolus  (IEA,ISO)
nucleoplasm  (IEA,ISO)
nucleus  (IBA,IEA,ISO)
transcription regulator complex  (IBA,IEA,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
GRCr81470,489,243 - 70,810,573 (+)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl1470,489,620 - 70,810,574 (+)EnsemblGRCr8
mRatBN7.21466,277,044 - 66,598,071 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1466,277,085 - 66,597,778 (+)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx1470,673,511 - 70,993,888 (+)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01471,957,095 - 72,277,709 (+)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01468,383,948 - 68,704,320 (+)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.01470,780,605 - 71,112,857 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1470,780,623 - 71,112,552 (+)Ensemblrn6Rnor6.0
Rnor_5.01470,920,028 - 71,144,813 (+)NCBIRnor_5.0Rnor_5.0rn5
Rnor_5.01470,817,435 - 70,817,796 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.41471,374,621 - 71,695,965 (+)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera1465,250,557 - 65,570,430 (+)NCBICelera
RGSC_v3.11471,377,028 - 71,698,910 (+)NCBI
Cytogenetic Map14q21NCBI
LDB2
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38416,501,541 - 16,898,645 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl416,501,534 - 16,898,924 (-)Ensemblhg38GRCh38
GRCh37416,503,164 - 16,900,268 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36416,112,262 - 16,509,425 (-)NCBIBuild 36Build 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 EnsemblGRCm39
GRCm38544,435,955 - 44,799,759 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl544,472,132 - 44,799,680 (-)Ensemblmm10GRCm38
MGSCv37544,863,372 - 45,190,946 (-)NCBIMGSCv37MGSCv37mm9NCBIm37
MGSCv36544,760,963 - 45,087,867 (-)NCBIMGSCv36mm8
Celera541,894,726 - 42,234,169 (-)NCBICelera
Cytogenetic Map5B3NCBI
cM Map524.24NCBI
Ldb2
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554807,199,933 - 7,568,629 (+)Ensembl
ChiLan1.0NW_0049554807,200,111 - 7,568,567 (+)NCBIChiLan1.0ChiLan1.0
LDB2
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2316,771,454 - 17,168,732 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1416,969,178 - 17,366,385 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0410,930,160 - 11,327,367 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1416,226,042 - 16,621,851 (-)NCBIPanPan1.1PanPan1.1panPan2
PanPan1.1 Ensembl416,227,146 - 16,622,167 (-)EnsemblpanPan2panpan1.1
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 (+)EnsemblcanFam3CanFam3.1
Dog10K_Boxer_Tasha366,026,288 - 66,401,935 (+)NCBIDog10K_Boxer_TashaDog10K_Boxer_Tasha
ROS_Cfam_1.0363,985,593 - 64,361,307 (+)NCBIROS_Cfam_1.0ROS_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_1.0UU_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
SpeTri2.0 EnsemblNW_00493647711,199,003 - 11,538,728 (+)EnsemblSpeTri2.0 Ensembl
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 (-)EnsemblsusScr11Sscrofa11.1
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_1.0 EnsemblhetGla2HetGla_female_1.0 Ensembl
HetGla 1.0NW_00462475514,962,538 - 15,358,771 (+)NCBIHetGla 1.0HetGla 1.0hetGla2
Ldb2
(Rattus rattus - black rat)
Black Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rrattus_CSIRO_v11161,003,534 - 61,328,529 (+)NCBIRrattus_CSIRO_v1

Variants

.
Variants in Ldb2
2156 total Variants
miRNA Target Status (No longer updated)

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.


QTLs in Region (GRCr8)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
2313089Bss81Bone structure and strength QTL 813.40.0001body length (VT:0001256)body length, nose to rump (CMO:0000079)143802371083023710Rat
9590294Uminl4Urine mineral level QTL 45.660.001urine mineral amount (VT:0015086)urine electrolyte level (CMO:0000593)1459848686104848686Rat
70214Niddm28Non-insulin dependent diabetes mellitus QTL 284.06blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)143900944484009444Rat
1300154Bp189Blood pressure QTL 1893.04arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)143123808072970315Rat
70187Pancm5Pancreatic morphology QTL 516.7pancreas mass (VT:0010144)pancreas weight to body weight ratio (CMO:0000630)143067446985041098Rat
631523Pia13Pristane induced arthritis QTL 133.3joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1433424686102238540Rat
2313100Bss82Bone structure and strength QTL 8230.0001tibia size trait (VT:0100001)tibia midshaft cross-sectional area (CMO:0001717)143802371083023710Rat
634328Hc5Hypercalciuria QTL 52.3urine calcium amount (VT:0002985)urine calcium excretion rate (CMO:0000763)1462398852107398852Rat
2317879Alcrsp27Alcohol response QTL 273.30.63response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)1460854936105854936Rat
631839Niddm37Non-insulin dependent diabetes mellitus QTL 373.37blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)1411334716100078267Rat
9589034Epfw11Epididymal fat weight QTL 1160.001epididymal fat pad mass (VT:0010421)epididymal fat pad weight to body weight ratio (CMO:0000658)1459848686104848686Rat
2313048Bss84Bone structure and strength QTL 843.10.0001tibia strength trait (VT:1000284)tibia total energy absorbed before break (CMO:0001736)143802371083023710Rat
1300136Rf22Renal function QTL 223.9renal blood flow trait (VT:2000006)absolute change in renal vascular resistance (CMO:0001900)144261625899224555Rat
1549834Scl45Serum cholesterol level QTL 455.8blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)146592028399224555Rat
738037Hcas6Hepatocarcinoma susceptibility QTL 62.93liver integrity trait (VT:0010547)liver nonremodeling tumorous lesion volume to total liver volume ratio (CMO:0001464)143941117087582095Rat
2313084Bss83Bone structure and strength QTL 832.90.0001tibia size trait (VT:0100001)tibia midshaft endosteal cross-sectional area (CMO:0001716)143802371083023710Rat

Markers in Region
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
Celera1465,471,246 - 65,471,453UniSTS
RGSC_v3.11471,599,174 - 71,599,382RGD
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


Expression

RNA-SEQ Expression

alimentary part of gastrointestinal system
appendage
circulatory system
ectoderm
endocrine system
endoderm
exocrine system
hemolymphoid system
hepatobiliary system
integumental system
mesenchyme
mesoderm
musculoskeletal system
nervous system
renal system
reproductive system
respiratory system
sensory system
visual system
15 12 67 156 91 90 59 48 59 6 311 148 11 135 81 92 31 17 17

Sequence

Nucleotide Sequences
RefSeq Transcripts NM_001106009 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008770199 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008770200 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008770201 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008770202 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008770203 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017599108 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017599109 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017599111 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017599112 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017599113 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_063272932 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_063272933 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_063272934 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide BC168881 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CH473963 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JAXUCZ010000014 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Ensembl Acc Id: ENSRNOT00000058803   ⟹   ENSRNOP00000055594
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl1470,489,620 - 70,810,574 (+)Ensembl
mRatBN7.2 Ensembl1466,277,085 - 66,597,778 (+)Ensembl
Rnor_6.0 Ensembl1470,780,720 - 71,112,131 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000083871   ⟹   ENSRNOP00000072146
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl1470,489,697 - 70,809,904 (+)Ensembl
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
GRCr81470,489,595 - 70,810,016 (+)NCBI
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
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81470,489,243 - 70,810,573 (+)NCBI
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
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81470,489,243 - 70,810,573 (+)NCBI
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
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81470,489,243 - 70,810,573 (+)NCBI
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
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81470,489,243 - 70,809,374 (+)NCBI
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
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81470,489,243 - 70,810,573 (+)NCBI
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
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81470,489,243 - 70,809,374 (+)NCBI
mRatBN7.21466,277,309 - 66,596,832 (+)NCBI
Rnor_6.01470,780,609 - 71,110,849 (+)NCBI
Sequence:
RefSeq Acc Id: XM_017599111   ⟹   XP_017454600
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81470,489,243 - 70,809,374 (+)NCBI
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
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81470,489,243 - 70,810,573 (+)NCBI
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
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81470,489,243 - 70,810,573 (+)NCBI
mRatBN7.21466,277,056 - 66,596,832 (+)NCBI
Rnor_6.01470,780,609 - 71,110,849 (+)NCBI
Sequence:
RefSeq Acc Id: XM_063272932   ⟹   XP_063129002
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81470,489,243 - 70,809,374 (+)NCBI
RefSeq Acc Id: XM_063272933   ⟹   XP_063129003
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81470,489,243 - 70,810,573 (+)NCBI
RefSeq Acc Id: XM_063272934   ⟹   XP_063129004
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81470,489,243 - 70,810,573 (+)NCBI
RefSeq Acc Id: NP_001099479   ⟸   NM_001106009
- UniProtKB: A6IJM3 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_008768422   ⟸   XM_008770200
- Peptide Label: isoform X2
- UniProtKB: A0A8J8XZV4 (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 X10
- Sequence:
RefSeq Acc Id: XP_017454598   ⟸   XM_017599109
- Peptide Label: isoform X4
- UniProtKB: A0A0G2K287 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_017454601   ⟸   XM_017599112
- Peptide Label: isoform X8
- UniProtKB: B5DF10 (UniProtKB/TrEMBL),   E9PTQ0 (UniProtKB/TrEMBL)
- 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 X11
- Sequence:
Ensembl Acc Id: ENSRNOP00000055594   ⟸   ENSRNOT00000058803
Ensembl Acc Id: ENSRNOP00000072146   ⟸   ENSRNOT00000083871
RefSeq Acc Id: XP_063129003   ⟸   XM_063272933
- Peptide Label: isoform X7
RefSeq Acc Id: XP_063129004   ⟸   XM_063272934
- Peptide Label: isoform X9
RefSeq Acc Id: XP_063129002   ⟸   XM_063272932
- Peptide Label: isoform X4
- UniProtKB: A0A0G2K287 (UniProtKB/TrEMBL)
Protein Domains
LIM interaction

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

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 Transcript ENSRNOT00000058803 ENTREZGENE
  ENSRNOT00000058803.5 UniProtKB/TrEMBL
  ENSRNOT00000083871 ENTREZGENE
  ENSRNOT00000083871.3 UniProtKB/TrEMBL
Gene3D-CATH Cysteine Rich Protein UniProtKB/TrEMBL
InterPro LID UniProtKB/TrEMBL
  LIM-dom_bd/SEUSS UniProtKB/TrEMBL
KEGG Report rno:289664 UniProtKB/TrEMBL
NCBI Gene 289664 ENTREZGENE
PANTHER LIM_bd UniProtKB/TrEMBL
Pfam LID UniProtKB/TrEMBL
  LIM_bind UniProtKB/TrEMBL
PhenoGen Ldb2 PhenoGen
PROSITE LID UniProtKB/TrEMBL
RatGTEx ENSRNOG00000003205 RatGTEx
UniProt A0A0G2K287 ENTREZGENE, UniProtKB/TrEMBL
  A0A8J8XZV4 ENTREZGENE, UniProtKB/TrEMBL
  A6IJM3 ENTREZGENE, 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