AutismKB 2.0

Annotation Detail for LSM3


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Basic Information Top
Gene Symbol:LSM3 ( SMX4,USS2,YLR438C )
Gene Full Name: LSM3 homolog, U6 small nuclear RNA associated (S. cerevisiae)
Band: 3p25.1
Quick LinksEntrez ID:27258; OMIM: 607283; Uniprot ID:LSM3_HUMAN; ENSEMBL ID: ENSG00000170860; HGNC ID: 17874
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 body3 / 7076142
blastocyst0 / 623190 
fetus25 / 56401244
neonate3 / 3109796
infant0 / 236200 
juvenile3 / 5555653
adult116 / 193912159
Pool Name Gene EST/Total EST in pool Transcripts per million(TPM) Bar based on TPM
adrenal tumor1 / 1279478
bladder carcinoma3 / 17475171
breast (mammary gland) tumor5 / 9417853
cervical tumor1 / 3436629
chondrosarcoma5 / 8282360
colorectal tumor5 / 11424643
esophageal tumor1 / 1729057
gastrointestinal tumor8 / 11936967
germ cell tumor9 / 26384534
glioma7 / 10688365
head and neck tumor6 / 13630244
kidney tumor4 / 6895958
leukemia3 / 9584231
liver tumor11 / 96359114
lung tumor3 / 10312729
lymphoma3 / 7175541
non-neoplasia4 / 9725041
normal165 / 336030749
ovarian tumor6 / 7668278
pancreatic tumor10 / 10461695
primitive neuroectodermal tumor of the CNS3 / 12568023
prostate cancer10 / 10268097
retinoblastoma3 / 4635664
skin tumor2 / 12494916
soft tissue/muscle tissue tumor13 / 125191103
uterine tumor7 / 9025777
Pool Name Gene EST/Total EST in pool Transcripts per million(TPM) Bar based on TPM
adipose tissue0 / 131060 
adrenal gland2 / 3319760
ascites2 / 4001549
bladder3 / 29757100
blood8 / 12347864
bone2 / 7165527
bone marrow6 / 48801122
brain28 / 110098925
cervix1 / 4817120
connective tissue13 / 14925587
ear5 / 16212308
embryonic tissue7 / 21572232
esophagus1 / 2020949
eye13 / 21105461
heart12 / 89626133
intestine17 / 23447272
kidney13 / 21177761
larynx0 / 241450 
liver14 / 20774367
lung12 / 33697435
lymph1 / 4427022
lymph node3 / 9161032
mammary gland9 / 15327158
mouth7 / 67052104
muscle3 / 10771527
nerve1 / 1576863
ovary7 / 10205168
pancreas16 / 21481274
parathyroid5 / 20539243
pharynx2 / 4132848
pituitary gland2 / 16585120
placenta6 / 28082521
prostate16 / 18934584
salivary gland2 / 2015599
skin7 / 21057433
spleen0 / 539520 
stomach9 / 9661993
testis18 / 33044254
thymus0 / 811310 
thyroid1 / 4747321
tonsil0 / 169990 
trachea0 / 524130 
umbilical cord3 / 13680219
uterus12 / 23287851
vascular1 / 5178019
Microarray in BioGPS Top
Select probe  
  • Microarray Platform: GeneAtlas U133A, gcrma
  • Affymatrix Probe ID: 202209_at
Cell line Expression level Expression bar
721_B_lymphoblasts1046.95
Adipocyte266.8
AdrenalCortex140.45
Adrenalgland168.55
Amygdala163.1
Appendix140.2
AtrioventricularNode95.95
BDCA4+_DentriticCells563.05
Bonemarrow247.35
BronchialEpithelialCells672.3
CD105+_Endothelial1161.65
CD14+_Monocytes498.15
CD19+_BCells(neg._sel.)602
CD33+_Myeloid383.3
CD34+836.45
CD4+_Tcells302.8
CD56+_NKCells538.15
CD71+_EarlyErythroid565.05
CD8+_Tcells248.35
CardiacMyocytes381.55
Caudatenucleus152.15
Cerebellum148.5
CerebellumPeduncles277.25
CiliaryGanglion94.1
CingulateCortex169.65
Colorectaladenocarcinoma159.15
DorsalRootGanglion126.3
FetalThyroid273.6
Fetalbrain225.5
Fetalliver200.55
Fetallung184.2
GlobusPallidus132.25
Heart207.35
Hypothalamus243.4
Kidney233.5
Leukemia_chronicMyelogenousK-562478.4
Leukemia_promyelocytic-HL-60526
Leukemialymphoblastic(MOLT-4)543.15
Liver134.4
Lung109.95
Lymphnode180.45
Lymphoma_burkitts(Daudi)656
Lymphoma_burkitts(Raji)186.9
MedullaOblongata158.2
OccipitalLobe177.15
OlfactoryBulb183.55
Ovary169.1
Pancreas131.7
PancreaticIslet308.6
ParietalLobe205.3
Pituitary249.85
Placenta287.8
Pons196.55
PrefrontalCortex162.3
Prostate152.45
Salivarygland161.7
SkeletalMuscle306.85
Skin121.65
SmoothMuscle332.3
Spinalcord255.7
SubthalamicNucleus127.85
SuperiorCervicalGanglion150.95
TemporalLobe179.9
Testis290.1
TestisGermCell318
TestisIntersitial408
TestisLeydigCell311.8
TestisSeminiferousTubule227.45
Thalamus171.55
Thymus187.3
Thyroid204.05
Tongue157.45
Tonsil264.4
Trachea170.85
TrigeminalGanglion119.55
Uterus127.25
UterusCorpus194.95
WholeBlood356
Wholebrain226.9
colon225.55
pineal_day195.58
pineal_night230.02
retina224.2
small_intestine251.75
Allen Brain Atlas Top
Human Whole Brain Microarrayview in Allen Brain Atlas
  • Probe id     Donor id      
  • Probe name: A_24_P29001
  • 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
Amygdala9.71 ± 0.27
Basal Forebrain9.55 ± 0.21
Basal Part of Pons9.74 ± 0.27
Cerebellar Cortex9.67 ± 0.33
Cerebellar Nuclei9.72 ± 0.3
Claustrum9.69 ± 0.42
Epithalamus9.79 ± 0.28
Frontal Lobe9.78 ± 0.3
Globus Pallidus9.79 ± 0.23
Hypothalamus9.81 ± 0.2
Insula9.96 ± 0.36
Limbic Lobe9.59 ± 0.51
Mesencephalon9.57 ± 0.37
Myelencephalon9.63 ± 0.35
Occipital Lobe9.17 ± 0.42
Parietal Lobe9.6 ± 0.32
Pontine Tegmentum9.71 ± 0.29
Striatum9.46 ± 0.36
Subthalamus9.88 ± 0.24
Temporal Lobe9.84 ± 0.31
Thalamus9.45 ± 0.31
White Matter9.96 ± 0.24
Mouse Brain ISH
Gene Symbol Brain Structure ID Brain Structure Name Express Desity/Level (Meatured by ISH) Express Bar
Lsm3CBCerebellum5.58
6.03
Lsm3CTXCerebral cortex7.62
4.98
Lsm3HIPHippocampal region4.92
4.2
Lsm3HPFHippocampal formation4.31
3.45
Lsm3HYHypothalamus6.01
4.27
Lsm3LSXLateral septal complex1.59
1.04
Lsm3MBMidbrain2.97
2.64
Lsm3MYMedulla12
12.6
Lsm3OLFOlfactory bulb17.02
12.73
Lsm3PPons7.64
7.49
Lsm3PALPallidum5.82
4.04
Lsm3RHPRetrohippocampal region3.44
2.48
Lsm3sAMYStriatum-like amygdalar nuclei2.33
1.77
Lsm3STRStriatum2.11
1.52
Lsm3STRdStriatum dorsal region1.35
1.15
Lsm3STRvStriatum ventral region4.72
2.63
Lsm3THThalamus3.87
2.72
Peptide Top
Peptide Name Peptide Lengh Peptide Start Peptide End Peptide Sequence Source
LSM3_HUMAN_1 21 1 21 ADDVDQQQTTNTVEEPLDLIR PRIDE
LSM3_HUMAN_2 21 2 22 ADDVDQQQTTNTVEEPLDLIR PRIDE
LSM3_HUMAN_80 8 80 87 NIPMLFVR PRIDE
LSM3_HUMAN_88 12 88 99 GDGVVLVAPPLR PRIDE
LSM3_HUMAN_88 14 88 101 GDGVVLVAPPLRVG PRIDE
PAp00068011 12 89 100 GDGVVLVAPPLR 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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