AutismKB 2.0

Annotation Detail for CHRNA3


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Basic Information Top
Gene Symbol:CHRNA3 ( LNCR2,MGC104879,NACHRA3,PAOD2 )
Gene Full Name: cholinergic receptor, nicotinic, alpha 3
Band: 15q25.1
Quick LinksEntrez ID:1136; OMIM: 118503; Uniprot ID:ACHA3_HUMAN; ENSEMBL ID: ENSG00000080644; HGNC ID: 1957
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 
fetus9 / 56401215
neonate0 / 310970 
infant3 / 23620127
juvenile9 / 55556161
adult17 / 19391218
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 
chondrosarcoma0 / 828230 
colorectal tumor0 / 1142460 
esophageal tumor0 / 172900 
gastrointestinal tumor1 / 1193698
germ cell tumor1 / 2638453
glioma0 / 1068830 
head and neck tumor1 / 1363027
kidney tumor0 / 689590 
leukemia1 / 9584210
liver tumor0 / 963590 
lung tumor3 / 10312729
lymphoma0 / 717550 
non-neoplasia1 / 9725010
normal40 / 336030711
ovarian tumor1 / 7668213
pancreatic tumor0 / 1046160 
primitive neuroectodermal tumor of the CNS30 / 125680238
prostate cancer0 / 1026800 
retinoblastoma0 / 463560 
skin tumor0 / 1249490 
soft tissue/muscle tissue tumor0 / 1251910 
uterine tumor0 / 902570 
Pool Name Gene EST/Total EST in pool Transcripts per million(TPM) Bar based on TPM
adipose tissue0 / 131060 
adrenal gland0 / 331970 
ascites0 / 400150 
bladder0 / 297570 
blood1 / 1234788
bone0 / 716550 
bone marrow0 / 488010 
brain26 / 110098923
cervix0 / 481710 
connective tissue1 / 1492556
ear0 / 162120 
embryonic tissue0 / 2157220 
esophagus0 / 202090 
eye19 / 21105490
heart0 / 896260 
intestine2 / 2344728
kidney0 / 2117770 
larynx0 / 241450 
liver0 / 2077430 
lung8 / 33697423
lymph0 / 442700 
lymph node0 / 916100 
mammary gland0 / 1532710 
mouth1 / 6705214
muscle0 / 1077150 
nerve6 / 15768380
ovary1 / 1020519
pancreas0 / 2148120 
parathyroid0 / 205390 
pharynx0 / 413280 
pituitary gland0 / 165850 
placenta0 / 2808250 
prostate1 / 1893455
salivary gland0 / 201550 
skin0 / 2105740 
spleen0 / 539520 
stomach2 / 9661920
testis1 / 3304423
thymus8 / 8113198
thyroid0 / 474730 
tonsil0 / 169990 
trachea0 / 524130 
umbilical cord0 / 136800 
uterus0 / 2328780 
vascular0 / 517800 
Microarray in BioGPS Top
Select probe  
  • Microarray Platform: GeneAtlas U133A, gcrma
  • Affymatrix Probe ID: 211772_x_at
Cell line Expression level Expression bar
721_B_lymphoblasts5.1
Adipocyte4.1
AdrenalCortex4.5
Adrenalgland3.7
Amygdala4.35
Appendix4.2
AtrioventricularNode3.2
BDCA4+_DentriticCells4.45
Bonemarrow4.3
BronchialEpithelialCells4.05
CD105+_Endothelial4.15
CD14+_Monocytes4.4
CD19+_BCells(neg._sel.)4.35
CD33+_Myeloid5.25
CD34+5.15
CD4+_Tcells4.45
CD56+_NKCells4.95
CD71+_EarlyErythroid3.95
CD8+_Tcells4
CardiacMyocytes5.6
Caudatenucleus3.75
Cerebellum3.4
CerebellumPeduncles4.8
CiliaryGanglion3.05
CingulateCortex4.3
Colorectaladenocarcinoma4.25
DorsalRootGanglion3.15
FetalThyroid4.05
Fetalbrain4.1
Fetalliver3.65
Fetallung3.4
GlobusPallidus3.15
Heart5.35
Hypothalamus4.5
Kidney3.35
Leukemia_chronicMyelogenousK-5623.75
Leukemia_promyelocytic-HL-603.7
Leukemialymphoblastic(MOLT-4)3.6
Liver5.75
Lung4.55
Lymphnode3.5
Lymphoma_burkitts(Daudi)5.45
Lymphoma_burkitts(Raji)6
MedullaOblongata3.75
OccipitalLobe3.75
OlfactoryBulb3.3
Ovary2.75
Pancreas3.4
PancreaticIslet4.5
ParietalLobe4.5
Pituitary4.85
Placenta4.3
Pons4
PrefrontalCortex5.1
Prostate4.85
Salivarygland3.35
SkeletalMuscle5
Skin3.25
SmoothMuscle4.7
Spinalcord4.45
SubthalamicNucleus3.85
SuperiorCervicalGanglion4.8
TemporalLobe3.85
Testis3.6
TestisGermCell3.45
TestisIntersitial3.5
TestisLeydigCell4.15
TestisSeminiferousTubule3.55
Thalamus4.35
Thymus66.05
Thyroid5.25
Tongue4.2
Tonsil4.05
Trachea3.5
TrigeminalGanglion4.25
Uterus3.4
UterusCorpus3.9
WholeBlood4.55
Wholebrain3.5
colon4.15
pineal_day92.48
pineal_night60.9
retina24.875
small_intestine4
Allen Brain Atlas Top
Human Whole Brain Microarrayview in Allen Brain Atlas
  • Probe id     Donor id      
  • Probe name: CUST_165_PI416408490
  • 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
Amygdala2.29 ± 1.01
Basal Forebrain1.76 ± 0.35
Basal Part of Pons1.59 ± 0.29
Cerebellar Cortex3.13 ± 0.63
Cerebellar Nuclei2.13 ± 0.68
Claustrum3.08 ± 1.09
Epithalamus2.28 ± 1.68
Frontal Lobe2.06 ± 1.16
Globus Pallidus1.82 ± 0.73
Hypothalamus2.1 ± 0.7
Insula2.04 ± 0.79
Limbic Lobe2.08 ± 1.01
Mesencephalon2.09 ± 0.79
Myelencephalon2.34 ± 1.04
Occipital Lobe2.16 ± 0.72
Parietal Lobe1.87 ± 0.74
Pontine Tegmentum2.53 ± 1.09
Striatum2.87 ± 1.18
Subthalamus1.96 ± 0.68
Temporal Lobe2.05 ± 0.84
Thalamus3.41 ± 0.99
White Matter2 ± 0.24
Mouse Brain ISH
Gene Symbol Brain Structure ID Brain Structure Name Express Desity/Level (Meatured by ISH) Express Bar
Chrna3CBCerebellum2.84
3.27
Chrna3CTXCerebral cortex1
1.05
Chrna3HIPHippocampal region1
1.14
Chrna3HPFHippocampal formation0.89
0.87
Chrna3HYHypothalamus0.98
1.01
Chrna3LSXLateral septal complex0.57
0.65
Chrna3MBMidbrain4.89
4.64
Chrna3MYMedulla2.99
4.09
Chrna3OLFOlfactory bulb6.91
7.93
Chrna3PPons1.6
2.89
Chrna3PALPallidum0.88
1.05
Chrna3RHPRetrohippocampal region0.61
0.41
Chrna3sAMYStriatum-like amygdalar nuclei0.35
0.34
Chrna3STRStriatum0.57
0.46
Chrna3STRdStriatum dorsal region0.41
0.37
Chrna3STRvStriatum ventral region1.16
0.75
Chrna3THThalamus2.59
4.2
Peptide Top

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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