AutismKB 2.0

Annotation Detail for LDB3


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Basic Information Top
Gene Symbol:LDB3 ( CMD1C,CYPHER,FLJ35865,KIAA01613,KIAA0613,LDB3Z1,LDB3Z4,LVNC3,ORACLE,PDLIM6,ZASP )
Gene Full Name: LIM domain binding 3
Band: 10q23.2
Quick LinksEntrez ID:11155; OMIM: 605906; Uniprot ID:LDB3_HUMAN; ENSEMBL ID: ENSG00000122367; HGNC ID: 15710
Relate to Another Database: SFARIGene; denovo-db
Unigene EST Top
Pool Name Gene EST/Total EST in pool Transcripts per million(TPM) Bar based on TPM
embryoid body0 / 707610 
blastocyst0 / 623190 
fetus39 / 56401269
neonate0 / 310970 
infant0 / 236200 
juvenile1 / 5555617
adult89 / 193912145
Pool Name Gene EST/Total EST in pool Transcripts per million(TPM) Bar based on TPM
adrenal tumor0 / 127940 
bladder carcinoma0 / 174750 
breast (mammary gland) tumor1 / 9417810
cervical tumor0 / 343660 
chondrosarcoma0 / 828230 
colorectal tumor0 / 1142460 
esophageal tumor0 / 172900 
gastrointestinal tumor0 / 1193690 
germ cell tumor0 / 2638450 
glioma0 / 1068830 
head and neck tumor2 / 13630214
kidney tumor0 / 689590 
leukemia0 / 958420 
liver tumor0 / 963590 
lung tumor0 / 1031270 
lymphoma0 / 717550 
non-neoplasia2 / 9725020
normal588 / 3360307174
ovarian tumor0 / 766820 
pancreatic tumor0 / 1046160 
primitive neuroectodermal tumor of the CNS0 / 1256800 
prostate cancer0 / 1026800 
retinoblastoma0 / 463560 
skin tumor3 / 12494924
soft tissue/muscle tissue tumor1 / 1251917
uterine tumor0 / 902570 
Pool Name Gene EST/Total EST in pool Transcripts per million(TPM) Bar based on TPM
adipose tissue0 / 131060 
adrenal gland1 / 3319730
ascites0 / 400150 
bladder0 / 297570 
blood0 / 1234780 
bone0 / 716550 
bone marrow1 / 4880120
brain46 / 110098941
cervix0 / 481710 
connective tissue1 / 1492556
ear0 / 162120 
embryonic tissue1 / 2157224
esophagus0 / 202090 
eye1 / 2110544
heart280 / 896263124
intestine4 / 23447217
kidney1 / 2117774
larynx11 / 24145455
liver3 / 20774314
lung7 / 33697420
lymph0 / 442700 
lymph node0 / 916100 
mammary gland1 / 1532716
mouth6 / 6705289
muscle232 / 1077152153
nerve1 / 1576863
ovary0 / 1020510 
pancreas0 / 2148120 
parathyroid1 / 2053948
pharynx0 / 413280 
pituitary gland0 / 165850 
placenta3 / 28082510
prostate10 / 18934552
salivary gland0 / 201550 
skin3 / 21057414
spleen0 / 539520 
stomach1 / 9661910
testis3 / 3304429
thymus0 / 811310 
thyroid0 / 474730 
tonsil0 / 169990 
trachea4 / 5241376
umbilical cord0 / 136800 
uterus9 / 23287838
vascular1 / 5178019
Microarray in BioGPS Top
Select probe  
  • Microarray Platform: GeneAtlas U133A, gcrma
  • Affymatrix Probe ID: 213717_at
Cell line Expression level Expression bar
721_B_lymphoblasts50.25
Adipocyte41
AdrenalCortex49
Adrenalgland37
Amygdala43.95
Appendix46.4
AtrioventricularNode35.8
BDCA4+_DentriticCells32.25
Bonemarrow43.2
BronchialEpithelialCells41.05
CD105+_Endothelial37.2
CD14+_Monocytes44.15
CD19+_BCells(neg._sel.)43.25
CD33+_Myeloid46.1
CD34+50.25
CD4+_Tcells44.45
CD56+_NKCells42.2
CD71+_EarlyErythroid40.6
CD8+_Tcells39.7
CardiacMyocytes56.95
Caudatenucleus42.65
Cerebellum38.15
CerebellumPeduncles68.5
CiliaryGanglion41.95
CingulateCortex62.1
Colorectaladenocarcinoma42.1
DorsalRootGanglion35.5
FetalThyroid41.85
Fetalbrain42.95
Fetalliver36.95
Fetallung34.45
GlobusPallidus39.2
Heart636.7
Hypothalamus46.55
Kidney40.65
Leukemia_chronicMyelogenousK-56238.75
Leukemia_promyelocytic-HL-6038.35
Leukemialymphoblastic(MOLT-4)34
Liver56.85
Lung45.55
Lymphnode38.4
Lymphoma_burkitts(Daudi)55.25
Lymphoma_burkitts(Raji)59.65
MedullaOblongata44.35
OccipitalLobe50.3
OlfactoryBulb40.45
Ovary29.05
Pancreas35.3
PancreaticIslet45.5
ParietalLobe69.05
Pituitary57.95
Placenta43.3
Pons67.8
PrefrontalCortex52.55
Prostate50.5
Salivarygland45.35
SkeletalMuscle1412.8
Skin37.95
SmoothMuscle47.15
Spinalcord71.65
SubthalamicNucleus45.5
SuperiorCervicalGanglion68.65
TemporalLobe46.7
Testis39.05
TestisGermCell34.5
TestisIntersitial36.9
TestisLeydigCell47.1
TestisSeminiferousTubule44
Thalamus69.35
Thymus32.05
Thyroid59.2
Tongue114
Tonsil42.35
Trachea39.15
TrigeminalGanglion46.05
Uterus34.3
UterusCorpus42.8
WholeBlood39.55
Wholebrain33.55
colon42.4
pineal_day54.34
pineal_night51.08
retina56.55
small_intestine40.9
Allen Brain Atlas Top
Human Whole Brain Microarrayview in Allen Brain Atlas
  • Probe id     Donor id      
  • Probe name: A_24_P201367
  • Donor H0351.2001
  • Sex: Male     Age: 24 years     Race/Ethnicity: African American     Handedness: Left
  • Tissue Receipt Date: 7/29/2009     Serology: Pass      Tissue pH :6.72     Additional Medical Information :History of asthma
  • Postmortem Interval: 23 hours (estimated time of death to time that tissue is frozen)
  • Toxicology: Positive for atropine and caffeine, at levels usually not toxicologically significant
Tissue Expression(mean ± stddev) Expression Bar
Amygdala3.48 ± 1.11
Basal Forebrain4.49 ± 0.79
Basal Part of Pons4.25 ± 1.01
Cerebellar Cortex3.04 ± 0.58
Cerebellar Nuclei5.37 ± 0.92
Claustrum3.83 ± 0.84
Epithalamus3.11 ± 1.32
Frontal Lobe3.67 ± 1.16
Globus Pallidus6.27 ± 0.34
Hypothalamus3.31 ± 0.82
Insula3.05 ± 0.69
Limbic Lobe3.48 ± 1.11
Mesencephalon4.13 ± 1.24
Myelencephalon3.86 ± 1.09
Occipital Lobe3.99 ± 1.04
Parietal Lobe3.81 ± 1.1
Pontine Tegmentum3.95 ± 1.01
Striatum4.79 ± 0.79
Subthalamus4.46 ± 0.86
Temporal Lobe3.37 ± 1.04
Thalamus4.19 ± 0.83
White Matter7.13 ± 0.67
Mouse Brain ISH
Gene Symbol Brain Structure ID Brain Structure Name Express Desity/Level (Meatured by ISH) Express Bar
Ldb3CBCerebellum0.31
0.47
Ldb3CTXCerebral cortex0.12
0.14
Ldb3HIPHippocampal region0.08
0.09
Ldb3HPFHippocampal formation0.09
0.11
Ldb3HYHypothalamus0.05
0.03
Ldb3LSXLateral septal complex0.05
0.03
Ldb3MBMidbrain0.11
0.18
Ldb3MYMedulla0.17
0.2
Ldb3OLFOlfactory bulb0.49
0.58
Ldb3PPons0.23
0.28
Ldb3PALPallidum0.03
0.08
Ldb3RHPRetrohippocampal region0.08
0.15
Ldb3sAMYStriatum-like amygdalar nuclei0
0
Ldb3STRStriatum0.06
0.06
Ldb3STRdStriatum dorsal region0.08
0.08
Ldb3STRvStriatum ventral region0.05
0.03
Ldb3THThalamus0.09
0.1
Peptide Top
Peptide Name Peptide Lengh Peptide Start Peptide End Peptide Sequence Source
LDB3_HUMAN_1 16 1 16 MSYSVTLTGPGPWGFR PRIDE
LDB3_HUMAN_108 20 108 127 DPALDTNGSLVAPSPSPEAR PRIDE
LDB3_HUMAN_128 38 128 165 ASPGTPGTPELRPTFSPAFSRPSAFSSLAEASDPGPPR PRIDE
LDB3_HUMAN_17 15 17 31 LQGGKDFNMPLTISR PRIDE
LDB3_HUMAN_185 9 185 193 ALPGSSQPR PRIDE
LDB3_HUMAN_2 15 2 16 SYSVTLTGPGPWGFR PRIDE
LDB3_HUMAN_22 10 22 31 DFNMPLTISR PRIDE
LDB3_HUMAN_222 14 222 235 ASGVGLPGGSLPIK PRIDE
LDB3_HUMAN_222 30 222 251 ASGVGLPGGSLPIKDLAVDSASPVYQAVIK PRIDE
LDB3_HUMAN_236 16 236 251 DLAVDSASPVYQAVIK PRIDE
LDB3_HUMAN_252 14 252 265 SQNKPEDEADEWAR PRIDE
LDB3_HUMAN_277 20 277 296 ILAQMTGTEFMQDPDEEALR PRIDE
LDB3_HUMAN_38 31 38 68 AAQSQLSQGDLVVAIDGVNTDTMTHLEAQNK PRIDE
LDB3_HUMAN_517 17 517 533 GGPAYTPAGPQVPPLAR PRIDE
LDB3_HUMAN_548 12 548 559 TPLCGHCNNVIR PRIDE
LDB3_HUMAN_560 9 560 568 GPFLVAMGR PRIDE
LDB3_HUMAN_569 13 569 581 SWHPEEFTCAYCK PRIDE
LDB3_HUMAN_582 19 582 600 TSLADVCFVEEQNNVYCER PRIDE
LDB3_HUMAN_601 12 601 612 CYEQFFAPLCAK PRIDE
LDB3_HUMAN_617 10 617 626 IMGEVMHALR PRIDE
LDB3_HUMAN_627 14 627 640 QTWHTTCFVCAACK PRIDE
LDB3_HUMAN_660 9 660 668 DYINLFSTK PRIDE
LDB3_HUMAN_669 13 669 681 CHGCDFPVEAGDK PRIDE
LDB3_HUMAN_71 12 71 82 SASYNLSLTLQK PRIDE
LDB3_HUMAN_721 7 721 727 HAHTINL PRIDE
LDB3_HUMAN_83 25 83 107 SKRPIPISTTAPPVQTPLPVIPHQK PRIDE
LDB3_HUMAN_85 23 85 107 RPIPISTTAPPVQTPLPVIPHQK PRIDE
PAp00442965 12 71 82 SASYNLSLTLQK Peptide Atlas

Simple Query:


  (e.g. CHD8)

Syndromic Genes

Non-syndromic Genes

AutismKB Statistics

  • Studies: 1,036
  • Genes: 1,379
  • CNVs/SVs: 5,420
  • SNVs/Indels: 11,669
  • de novo Mutations: 5,669
  • Mosaics: 789
  • Linkage Regions: 172
  • Paper Collected: 6/30/2018
  • Last Update: 8/26/2018


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