AutismKB 2.0

Annotation Detail for LSM1


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Basic Information Top
Gene Symbol:LSM1 ( CASM,YJL124C )
Gene Full Name: LSM1 homolog, U6 small nuclear RNA associated (S. cerevisiae)
Band: 8p11.23
Quick LinksEntrez ID:27257; OMIM: 607281; Uniprot ID:LSM1_HUMAN; ENSEMBL ID: ENSG00000175324; HGNC ID: 20472
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 body4 / 7076156
blastocyst2 / 6231932
fetus18 / 56401231
neonate0 / 310970 
infant0 / 236200 
juvenile0 / 555560 
adult60 / 193912130
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) tumor0 / 941780 
cervical tumor0 / 343660 
chondrosarcoma5 / 8282360
colorectal tumor0 / 1142460 
esophageal tumor0 / 172900 
gastrointestinal tumor9 / 11936975
germ cell tumor2 / 2638457
glioma3 / 10688328
head and neck tumor2 / 13630214
kidney tumor1 / 6895914
leukemia0 / 958420 
liver tumor7 / 9635972
lung tumor3 / 10312729
lymphoma1 / 7175513
non-neoplasia1 / 9725010
normal118 / 336030735
ovarian tumor2 / 7668226
pancreatic tumor12 / 104616114
primitive neuroectodermal tumor of the CNS4 / 12568031
prostate cancer1 / 1026809
retinoblastoma1 / 4635621
skin tumor3 / 12494924
soft tissue/muscle tissue tumor3 / 12519123
uterine tumor3 / 9025733
Pool Name Gene EST/Total EST in pool Transcripts per million(TPM) Bar based on TPM
adipose tissue0 / 131060 
adrenal gland0 / 331970 
ascites5 / 40015124
bladder1 / 2975733
blood2 / 12347816
bone3 / 7165541
bone marrow0 / 488010 
brain24 / 110098921
cervix0 / 481710 
connective tissue3 / 14925520
ear2 / 16212123
embryonic tissue7 / 21572232
esophagus0 / 202090 
eye7 / 21105433
heart1 / 8962611
intestine4 / 23447217
kidney11 / 21177751
larynx0 / 241450 
liver9 / 20774343
lung23 / 33697468
lymph1 / 4427022
lymph node6 / 9161065
mammary gland3 / 15327119
mouth1 / 6705214
muscle1 / 1077159
nerve0 / 157680 
ovary2 / 10205119
pancreas23 / 214812107
parathyroid1 / 2053948
pharynx2 / 4132848
pituitary gland1 / 1658560
placenta15 / 28082553
prostate7 / 18934536
salivary gland1 / 2015549
skin4 / 21057418
spleen2 / 5395237
stomach12 / 96619124
testis5 / 33044215
thymus0 / 811310 
thyroid1 / 4747321
tonsil0 / 169990 
trachea0 / 524130 
umbilical cord0 / 136800 
uterus7 / 23287830
vascular2 / 5178038
Microarray in BioGPS Top
Select probe  
  • Microarray Platform: GeneAtlas U133A, gcrma
  • Affymatrix Probe ID: 203534_at
Cell line Expression level Expression bar
721_B_lymphoblasts303.7
Adipocyte167.1
AdrenalCortex96.95
Adrenalgland181.35
Amygdala111.5
Appendix21.9
AtrioventricularNode18.55
BDCA4+_DentriticCells304.1
Bonemarrow93
BronchialEpithelialCells269.25
CD105+_Endothelial282.9
CD14+_Monocytes372.3
CD19+_BCells(neg._sel.)260.2
CD33+_Myeloid221
CD34+176.9
CD4+_Tcells115.25
CD56+_NKCells327.35
CD71+_EarlyErythroid227.85
CD8+_Tcells140.25
CardiacMyocytes201.35
Caudatenucleus113.35
Cerebellum71.7
CerebellumPeduncles122.5
CiliaryGanglion21.55
CingulateCortex124.4
Colorectaladenocarcinoma103.8
DorsalRootGanglion22.3
FetalThyroid108.4
Fetalbrain100.45
Fetalliver99.95
Fetallung121
GlobusPallidus54.5
Heart53.25
Hypothalamus166.25
Kidney108.3
Leukemia_chronicMyelogenousK-562385.8
Leukemia_promyelocytic-HL-60143.55
Leukemialymphoblastic(MOLT-4)264
Liver45.4
Lung108.3
Lymphnode117.95
Lymphoma_burkitts(Daudi)162.4
Lymphoma_burkitts(Raji)39.25
MedullaOblongata96.85
OccipitalLobe102.3
OlfactoryBulb104.65
Ovary36.45
Pancreas57.75
PancreaticIslet120.65
ParietalLobe93.5
Pituitary146.5
Placenta206.95
Pons74.5
PrefrontalCortex167.3
Prostate194.2
Salivarygland63.15
SkeletalMuscle79.9
Skin26.5
SmoothMuscle353.75
Spinalcord153.95
SubthalamicNucleus91.3
SuperiorCervicalGanglion23.45
TemporalLobe94.1
Testis145.8
TestisGermCell133.25
TestisIntersitial82.4
TestisLeydigCell100.2
TestisSeminiferousTubule90
Thalamus137.15
Thymus130
Thyroid189.9
Tongue86.6
Tonsil119.9
Trachea101.4
TrigeminalGanglion15.35
Uterus146.9
UterusCorpus95.15
WholeBlood237.65
Wholebrain179.15
colon125.75
pineal_day191.8
pineal_night234.92
retina142.1
small_intestine159.8
Allen Brain Atlas Top
Human Whole Brain Microarrayview in Allen Brain Atlas
  • Probe id     Donor id      
  • Probe name: CUST_9324_PI416261804
  • 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
Amygdala7.56 ± 0.34
Basal Forebrain7.32 ± 0.27
Basal Part of Pons7.43 ± 0.33
Cerebellar Cortex7.63 ± 0.23
Cerebellar Nuclei7.86 ± 0.28
Claustrum7.32 ± 0.33
Epithalamus7.49 ± 0.38
Frontal Lobe7.62 ± 0.34
Globus Pallidus7.63 ± 0.21
Hypothalamus7.55 ± 0.5
Insula7.57 ± 0.3
Limbic Lobe7.35 ± 0.38
Mesencephalon7.57 ± 0.31
Myelencephalon7.44 ± 0.43
Occipital Lobe7.15 ± 0.36
Parietal Lobe7.52 ± 0.3
Pontine Tegmentum7.49 ± 0.32
Striatum6.92 ± 0.25
Subthalamus7.86 ± 0.16
Temporal Lobe7.56 ± 0.32
Thalamus7.41 ± 0.24
White Matter7.11 ± 0.1
Mouse Brain ISH
Gene Symbol Brain Structure ID Brain Structure Name Express Desity/Level (Meatured by ISH) Express Bar
Lsm1CBCerebellum0.57
1.08
Lsm1CTXCerebral cortex1.33
1.31
Lsm1HIPHippocampal region1.03
1.46
Lsm1HPFHippocampal formation0.82
1.05
Lsm1HYHypothalamus0.82
2.06
Lsm1LSXLateral septal complex0
0
Lsm1MBMidbrain0.45
0.79
Lsm1MYMedulla1.36
1.65
Lsm1OLFOlfactory bulb2.15
1.86
Lsm1PPons0.29
0.45
Lsm1PALPallidum0.22
0.26
Lsm1RHPRetrohippocampal region0.47
0.53
Lsm1sAMYStriatum-like amygdalar nuclei0.18
0.58
Lsm1STRStriatum0.43
0.47
Lsm1STRdStriatum dorsal region0.47
0.5
Lsm1STRvStriatum ventral region0.6
0.4
Lsm1THThalamus0.32
0.37
Peptide Top
Peptide Name Peptide Lengh Peptide Start Peptide End Peptide Sequence Source
LSM1_HUMAN_1 23 1 23 MNYMPGTASLIEDIDKKHLVLLR PRIDE
LSM1_HUMAN_33 16 33 48 SIDQFANLVLHQTVER PRIDE
PAp00077512 16 34 49 SIDQFANLVLHQTVER 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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