Ldb1 (LIM domain binding 1) - Rat Genome Database

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Gene: Ldb1 (LIM domain binding 1) Rattus norvegicus
Analyze
Symbol: Ldb1
Name: LIM domain binding 1
RGD ID: 1310359
Description: Predicted to enable several functions, including LIM domain binding activity; protein homodimerization activity; and transcription coactivator activity. Predicted to contribute to DNA binding activity. Predicted to be involved in several processes, including negative regulation of erythrocyte differentiation; positive regulation of hemoglobin biosynthetic process; and regulation of transcription by RNA polymerase II. Predicted to act upstream of or within several processes, including cerebellar Purkinje cell differentiation; epithelial structure maintenance; and hair follicle development. Predicted to be located in cell leading edge. Predicted to be part of beta-catenin-TCF complex and chromatin. Predicted to be active in nucleus. Orthologous to human LDB1 (LIM domain binding 1); INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; 6-propyl-2-thiouracil; amitrole.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: LIM domain-binding protein 1; LOC309447
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
mRatBN7.21244,864,168 - 244,890,007 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1244,877,173 - 244,890,013 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1253,021,407 - 253,028,952 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01259,716,387 - 259,723,937 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01252,368,592 - 252,376,144 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01265,772,729 - 265,798,442 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1265,785,409 - 265,798,167 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01273,215,566 - 273,228,637 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41251,253,305 - 251,260,850 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11251,513,919 - 251,527,836 (-)NCBI
Celera1240,683,703 - 240,691,248 (-)NCBICelera
Cytogenetic Map1q54NCBI
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

Cellular Component

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. Functional analysis of the nuclear LIM domain interactor NLI. Jurata LW and Gill GN, Mol Cell Biol. 1997 Oct;17(10):5688-98.
3. Rat ISS GO annotations from MGI mouse gene data--August 2006 MGD data from the GO Consortium
4. GOA pipeline RGD automated data pipeline
5. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:8876198   PMID:8918878   PMID:9192866   PMID:9391090   PMID:9468533   PMID:10767331   PMID:11882901   PMID:12477932   PMID:12490556   PMID:12792813   PMID:15857913   PMID:16314316  
PMID:17005264   PMID:17664423   PMID:17991461   PMID:18184866   PMID:18550854   PMID:19011221   PMID:19323994   PMID:19675209   PMID:20570862   PMID:20855495   PMID:23382074   PMID:26494787  
PMID:28296634  


Genomics

Comparative Map Data
Ldb1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21244,864,168 - 244,890,007 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1244,877,173 - 244,890,013 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1253,021,407 - 253,028,952 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01259,716,387 - 259,723,937 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01252,368,592 - 252,376,144 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01265,772,729 - 265,798,442 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1265,785,409 - 265,798,167 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01273,215,566 - 273,228,637 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41251,253,305 - 251,260,850 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11251,513,919 - 251,527,836 (-)NCBI
Celera1240,683,703 - 240,691,248 (-)NCBICelera
Cytogenetic Map1q54NCBI
LDB1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh3810102,102,088 - 102,121,442 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl10102,106,489 - 102,120,368 (-)EnsemblGRCh38hg38GRCh38
GRCh3710103,866,246 - 103,880,125 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 3610103,857,307 - 103,864,692 (-)NCBINCBI36Build 36hg18NCBI36
Build 3410103,857,316 - 103,864,692NCBI
Celera1097,608,243 - 97,621,137 (-)NCBICelera
Cytogenetic Map10q24.32NCBI
HuRef1097,499,399 - 97,512,291 (-)NCBIHuRef
CHM1_110104,150,870 - 104,163,764 (-)NCBICHM1_1
T2T-CHM13v2.010102,987,097 - 103,006,358 (-)NCBIT2T-CHM13v2.0
Ldb1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391946,019,963 - 46,036,584 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1946,020,009 - 46,033,653 (-)EnsemblGRCm39 Ensembl
GRCm381946,031,525 - 46,048,145 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1946,031,570 - 46,045,214 (-)EnsemblGRCm38mm10GRCm38
MGSCv371946,107,084 - 46,119,701 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361946,085,905 - 46,092,932 (-)NCBIMGSCv36mm8
Celera1946,795,488 - 46,808,103 (-)NCBICelera
Cytogenetic Map19C3NCBI
cM Map1938.75NCBI
Ldb1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554858,229,517 - 8,241,142 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049554858,229,517 - 8,242,003 (+)NCBIChiLan1.0ChiLan1.0
LDB1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan110113,998,222 - 114,012,133 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01098,707,470 - 98,722,771 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.110102,176,744 - 102,191,745 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl10102,179,757 - 102,184,047 (-)Ensemblpanpan1.1panPan2
LDB1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12814,646,409 - 14,658,324 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl2814,646,056 - 14,658,548 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha2814,818,513 - 14,830,424 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.02815,119,475 - 15,131,392 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl2815,118,375 - 15,131,637 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.12814,664,778 - 14,676,690 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.02814,704,089 - 14,716,005 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.02814,836,486 - 14,848,625 (-)NCBIUU_Cfam_GSD_1.0
Ldb1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440721332,111,411 - 32,125,588 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049366003,714,095 - 3,728,815 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049366003,714,630 - 3,728,813 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
LDB1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl14113,113,179 - 113,126,816 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.114113,114,302 - 113,126,455 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.214122,967,114 - 122,979,261 (-)NCBISscrofa10.2Sscrofa10.2susScr3
LDB1
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1995,102,312 - 95,153,029 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl995,138,424 - 95,153,179 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366604856,236,189 - 56,248,919 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Ldb1
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046248311,571,942 - 1,584,775 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046248311,573,058 - 1,584,861 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Ldb1
86 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:56
Count of miRNA genes:53
Interacting mature miRNAs:55
Transcripts:ENSRNOT00000040904
Prediction methods:Miranda, Rnahybrid
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 (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
2302378Insul11Insulin level QTL 113.25blood insulin amount (VT:0001560)serum insulin level (CMO:0000358)1144267353251128347Rat
724531Uae5Urinary albumin excretion QTL 54urine albumin amount (VT:0002871)urine albumin level (CMO:0000130)1150700142252085212Rat
1578759Uae30Urinary albumin excretion QTL 303.30.003urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)1150700247252085048Rat
1578778Pur4Proteinuria QTL 43.30.003urine total protein amount (VT:0000032)urine total protein excretion rate (CMO:0000756)1150700247252085048Rat
1354610Bw34Body weight QTL 344.1body mass (VT:0001259)body weight (CMO:0000012)1151162512256448636Rat
1354646Kidm18Kidney mass QTL 185.7kidney mass (VT:0002707)calculated kidney weight (CMO:0000160)1151162512256448636Rat
1354661Bw33Body weight QTL 335.2body mass (VT:0001259)body weight (CMO:0000012)1151162512256448636Rat
1549837Hcar15Hepatocarcinoma resistance QTL 150.05liver integrity trait (VT:0010547)liver tumorous lesion number (CMO:0001068)1153136852260522016Rat
1354580Scort1Serum corticosterone level QTL 13.4blood corticosterone amount (VT:0005345)blood corticosterone level (CMO:0001172)1156677124256448636Rat
738032Hcas5Hepatocarcinoma susceptibility QTL 53.12liver integrity trait (VT:0010547)liver tumorous lesion number (CMO:0001068)1176426412257976495Rat
1354624Cm35Cardiac mass QTL355.7heart left ventricle mass (VT:0007031)calculated heart weight (CMO:0000073)1177227632256448636Rat
1354652Kidm20Kidney mass QTL 204.3kidney mass (VT:0002707)calculated kidney weight (CMO:0000160)1177227632256448636Rat
1578763Kidm29Kidney mass QTL 293.30.0001kidney mass (VT:0002707)both kidneys wet weight (CMO:0000085)1179567751260522016Rat
1358898Bp255Blood pressure QTL 2553.6arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)1191019702246062233Rat
1600388Niddm67Non-insulin dependent diabetes mellitus QTL 675.840.000004blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)1195804352257091168Rat
1600395Niddm69Non-insulin dependent diabetes mellitus QTL 694.140.0002blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)1195804352257091168Rat
1600396Niddm68Non-insulin dependent diabetes mellitus QTL 684.970.0003blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)1195804352257091168Rat
634313Niddm43Non-insulin dependent diabetes mellitus QTL 43blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)1199050459259647894Rat
2293694Bss38Bone structure and strength QTL 387.050.0001femur strength trait (VT:0010010)femur stiffness (CMO:0001674)1201554356246554356Rat
7394701Uae46Urinary albumin excretion QTL 463.60.0056urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)1201554356246554356Rat
2300175Bmd40Bone mineral density QTL 4015.40.0001femur mineral mass (VT:0010011)bone mineral density (CMO:0001226)1201554356246554356Rat
2293655Bss36Bone structure and strength QTL 3610.660.0001femur strength trait (VT:0010010)femur ultimate force (CMO:0001675)1201554356246554356Rat
2293674Bss39Bone structure and strength QTL 397.10.0001femur strength trait (VT:0010010)femur total energy absorbed before break (CMO:0001677)1201554356246554356Rat
10059587Bw173Body weight QTL 1733.230.025body mass (VT:0001259)body weight (CMO:0000012)1202069611247069611Rat
1600397Edcs4Endometrial carcinoma susceptibility QTL 42.2uterus morphology trait (VT:0001120)percentage of study population developing endometrioid carcinoma during a period of time (CMO:0001759)1206081677251081677Rat
1357399Bw45Body weight QTL 453.05body mass (VT:0001259)body mass index (BMI) (CMO:0000105)1206329708251329708Rat
1357404Bw42Body weight QTL 424.490.0001body mass (VT:0001259)body weight (CMO:0000012)1206329708251329708Rat
1358890Bp259Blood pressure QTL 2593.06arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)1210702053260522016Rat
724538Kidm1Kidney mass QTL 13.2kidney mass (VT:0002707)calculated kidney weight (CMO:0000160)1213707201252085212Rat
734768Niddm59Non-insulin dependent diabetes mellitus QTL 59body mass (VT:0001259)body weight (CMO:0000012)1213843987258843987Rat
70211Niddm24Non-insulin dependent diabetes mellitus QTL 243.79blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)1214647894259647894Rat
1549910Bw54Body weight QTL 540.05body mass (VT:0001259)body weight (CMO:0000012)1214647894259647894Rat
61327Eae7Experimental allergic encephalomyelitis QTL 75.6body mass (VT:0001259)change in body weight (CMO:0002045)1216255568260522016Rat
2302040Pia35Pristane induced arthritis QTL 353.80.001blood immunoglobulin amount (VT:0002460)serum immunoglobulin G1 level (CMO:0002115)1216255568260522016Rat
1598821Rf55Renal function QTL 556.3renal blood flow trait (VT:2000006)ratio of change in renal blood flow to change in renal perfusion pressure (CMO:0001239)1218748008257976495Rat
61400Niddm1Non-insulin dependent diabetes mellitus QTL 111blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)1218753689245907899Rat
724533Rf51Renal function QTL 515.30.0002kidney plasma flow trait (VT:0005524)renal plasma flow (CMO:0001914)1218753816256448513Rat
731175Uae20Urinary albumin excretion QTL 203.50.0018urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)1221264111259647894Rat
10053715Scort24Serum corticosterone level QTL 242.130.0088blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)1221414816260522016Rat
724552Glom2Glomerulus QTL 23.30.0001kidney glomerulus morphology trait (VT:0005325)count of superficial glomeruli directly contacting the kidney surface (CMO:0001001)1222363780260522016Rat
1600392Bw123Body weight QTL 1230.001body mass (VT:0001259)body weight (CMO:0000012)1223201027260522016Rat
734767Niddm57Non-insulin dependent diabetes mellitus QTL 57body mass (VT:0001259)body weight (CMO:0000012)1224054293260122809Rat
631843Bw116Body weight QTL 1164.10.016abdominal adipose amount (VT:1000220)abdominal fat pad weight (CMO:0000088)1224054293260122809Rat
734769Niddm58Non-insulin dependent diabetes mellitus QTL 58body mass (VT:0001259)body weight (CMO:0000012)1224569538260122809Rat
631215Stl8Serum triglyceride level QTL 89.270.0001blood triglyceride amount (VT:0002644)serum triglyceride level (CMO:0000360)1225126575260522016Rat
1300108Rf8Renal function QTL 83.75renal blood flow trait (VT:2000006)absolute change in renal vascular resistance (CMO:0001900)1228581588259647894Rat
2316896Gluco57Glucose level QTL 577.2blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)1228985440245907899Rat
1581544Rf52Renal function QTL 520.05urine total protein amount (VT:0000032)urine protein excretion rate to body weight ratio (CMO:0001099)1232156370259647894Rat
631669Iddm9Insulin dependent diabetes mellitus QTL 92.80.039blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)1233190394258625266Rat
631536Lnnr2Liver neoplastic nodule remodeling QTL 22.90.0005liver integrity trait (VT:0010547)liver remodeling tumorous lesion number to liver total tumorous lesion number ratio (CMO:0001705)1233948574260522016Rat
631690Scl5Serum cholesterol level QTL 52.1blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)1236125214260522016Rat
631836Stl31Serum triglyceride level QTL 314.640.00000487blood triglyceride amount (VT:0002644)plasma triglyceride level (CMO:0000548)1237147813260522016Rat
631837Niddm35Non-insulin dependent diabetes mellitus QTL 350.01blood insulin amount (VT:0001560)serum insulin level (CMO:0000358)1238699859259647894Rat

Markers in Region
RH134335  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21244,877,400 - 244,877,600 (+)MAPPERmRatBN7.2
Rnor_6.01265,785,637 - 265,785,836NCBIRnor6.0
Rnor_5.01273,215,832 - 273,216,031UniSTSRnor5.0
RGSC_v3.41251,253,555 - 251,253,754UniSTSRGSC3.4
Celera1240,683,953 - 240,684,152UniSTS
RH 3.4 Map11622.3UniSTS
Cytogenetic Map1q54UniSTS


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 3 40 56 40 19 40 2 5 74 35 38 11 2
Low 3 1 1 1 6 6 3 6
Below cutoff

Sequence


RefSeq Acc Id: ENSRNOT00000040904   ⟹   ENSRNOP00000042807
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1244,877,173 - 244,884,696 (-)Ensembl
Rnor_6.0 Ensembl1265,785,409 - 265,792,932 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000079483   ⟹   ENSRNOP00000069575
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1244,877,173 - 244,890,013 (-)Ensembl
Rnor_6.0 Ensembl1265,785,425 - 265,798,167 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000102680   ⟹   ENSRNOP00000080017
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1244,877,173 - 244,881,351 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000120124   ⟹   ENSRNOP00000083694
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1244,877,524 - 244,884,696 (-)Ensembl
RefSeq Acc Id: NM_001107601   ⟹   NP_001101071
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21244,877,151 - 244,884,696 (-)NCBI
Rnor_6.01265,785,387 - 265,792,932 (-)NCBI
Rnor_5.01273,215,566 - 273,228,637 (-)NCBI
RGSC_v3.41251,253,305 - 251,260,850 (-)RGD
Celera1240,683,703 - 240,691,248 (-)RGD
Sequence:
RefSeq Acc Id: XM_006231493   ⟹   XP_006231555
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21244,877,151 - 244,889,945 (-)NCBI
Rnor_6.01265,785,371 - 265,798,442 (-)NCBI
Rnor_5.01273,215,566 - 273,228,637 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006231494   ⟹   XP_006231556
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21244,877,151 - 244,890,007 (-)NCBI
Rnor_6.01265,785,371 - 265,798,442 (-)NCBI
Rnor_5.01273,215,566 - 273,228,637 (-)NCBI
Sequence:
RefSeq Acc Id: XM_017589289   ⟹   XP_017444778
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21244,864,168 - 244,889,945 (-)NCBI
Rnor_6.01265,772,729 - 265,798,442 (-)NCBI
Sequence:
RefSeq Acc Id: XM_017589290   ⟹   XP_017444779
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21244,864,168 - 244,889,945 (-)NCBI
Rnor_6.01265,772,729 - 265,798,442 (-)NCBI
Sequence:
RefSeq Acc Id: NP_001101071   ⟸   NM_001107601
- UniProtKB: D3ZT89 (UniProtKB/TrEMBL),   A6JHK6 (UniProtKB/TrEMBL),   A0A8I6G409 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006231556   ⟸   XM_006231494
- Peptide Label: isoform X2
- UniProtKB: A0A8I6G409 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006231555   ⟸   XM_006231493
- Peptide Label: isoform X1
- UniProtKB: A0A0G2JVQ2 (UniProtKB/TrEMBL),   A0A8I6G409 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_017444779   ⟸   XM_017589290
- Peptide Label: isoform X4
- UniProtKB: A0A8I5ZVT6 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_017444778   ⟸   XM_017589289
- Peptide Label: isoform X3
- UniProtKB: A0A8I5ZVT6 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000069575   ⟸   ENSRNOT00000079483
RefSeq Acc Id: ENSRNOP00000042807   ⟸   ENSRNOT00000040904
RefSeq Acc Id: ENSRNOP00000083694   ⟸   ENSRNOT00000120124
RefSeq Acc Id: ENSRNOP00000080017   ⟸   ENSRNOT00000102680
Protein Domains
LIM interaction

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-A0A0G2JVQ2-F1-model_v2 AlphaFold A0A0G2JVQ2 1-411 view protein structure

Transcriptome

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

Promoters
RGD ID:13690966
Promoter ID:EPDNEW_R1480
Type:initiation region
Name:Ldb1_1
Description:LIM domain binding 1
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_6.01265,798,260 - 265,798,320EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1310359 AgrOrtholog
BioCyc Gene G2FUF-55531 BioCyc
Ensembl Genes ENSRNOG00000018468 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000040904 ENTREZGENE
  ENSRNOT00000040904.6 UniProtKB/TrEMBL
  ENSRNOT00000079483 ENTREZGENE
  ENSRNOT00000079483.2 UniProtKB/TrEMBL
  ENSRNOT00000102680.1 UniProtKB/TrEMBL
  ENSRNOT00000120124 ENTREZGENE
  ENSRNOT00000120124.1 UniProtKB/TrEMBL
Gene3D-CATH Cysteine Rich Protein UniProtKB/TrEMBL
IMAGE_CLONE IMAGE:7930401 IMAGE-MGC_LOAD
InterPro LID UniProtKB/TrEMBL
  LIM-dom_bd/SEUSS UniProtKB/TrEMBL
KEGG Report rno:309447 UniProtKB/TrEMBL
MGC_CLONE MGC:188507 IMAGE-MGC_LOAD
NCBI Gene 309447 ENTREZGENE
PANTHER LIM_bd UniProtKB/TrEMBL
  PTHR10378:SF7 UniProtKB/TrEMBL
Pfam LID UniProtKB/TrEMBL
  LIM_bind UniProtKB/TrEMBL
PhenoGen Ldb1 PhenoGen
PROSITE LID UniProtKB/TrEMBL
RatGTEx ENSRNOG00000018468 RatGTEx
UniProt A0A0G2JVQ2 ENTREZGENE, UniProtKB/TrEMBL
  A0A8I5ZVT6 ENTREZGENE, UniProtKB/TrEMBL
  A0A8I6G409 ENTREZGENE, UniProtKB/TrEMBL
  A6JHK6 ENTREZGENE, UniProtKB/TrEMBL
  B2RYF3_RAT UniProtKB/TrEMBL
  D3ZT89 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2008-04-30 Ldb1  LIM domain binding 1   Ldb1_predicted  LIM domain binding 1 (predicted)  'predicted' is removed 2292626 APPROVED
2005-01-12 Ldb1_predicted  LIM domain binding 1 (predicted)      Symbol and Name status set to approved 70820 APPROVED