AutismKB 2.0

Annotation Detail for SEMA3D


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Basic Information Top
Gene Symbol:SEMA3D ( MGC39708,Sema-Z2,coll-2 )
Gene Full Name: sema domain, immunoglobulin domain (Ig), short basic domain, secreted, (semaphorin) 3D
Band: 7q21.11
Quick LinksEntrez ID:223117; OMIM: 609907; Uniprot ID:SEM3D_HUMAN; ENSEMBL ID: ENSG00000153993; HGNC ID: 10726
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 body8 / 70761113
blastocyst0 / 623190 
fetus9 / 56401215
neonate0 / 310970 
infant0 / 236200 
juvenile0 / 555560 
adult15 / 19391217
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 
chondrosarcoma1 / 8282312
colorectal tumor0 / 1142460 
esophageal tumor0 / 172900 
gastrointestinal tumor1 / 1193698
germ cell tumor0 / 2638450 
glioma0 / 1068830 
head and neck tumor0 / 1363020 
kidney tumor0 / 689590 
leukemia0 / 958420 
liver tumor1 / 9635910
lung tumor0 / 1031270 
lymphoma0 / 717550 
non-neoplasia0 / 972500 
normal37 / 336030711
ovarian tumor8 / 76682104
pancreatic tumor0 / 1046160 
primitive neuroectodermal tumor of the CNS0 / 1256800 
prostate cancer0 / 1026800 
retinoblastoma0 / 463560 
skin tumor0 / 1249490 
soft tissue/muscle tissue tumor0 / 1251910 
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 
ascites1 / 4001524
bladder0 / 297570 
blood0 / 1234780 
bone1 / 7165513
bone marrow0 / 488010 
brain7 / 11009896
cervix0 / 481710 
connective tissue0 / 1492550 
ear4 / 16212246
embryonic tissue10 / 21572246
esophagus0 / 202090 
eye3 / 21105414
heart1 / 8962611
intestine0 / 2344720 
kidney0 / 2117770 
larynx0 / 241450 
liver1 / 2077434
lung0 / 3369740 
lymph0 / 442700 
lymph node0 / 916100 
mammary gland1 / 1532716
mouth0 / 670520 
muscle0 / 1077150 
nerve0 / 157680 
ovary8 / 10205178
pancreas1 / 2148124
parathyroid0 / 205390 
pharynx0 / 413280 
pituitary gland0 / 165850 
placenta0 / 2808250 
prostate0 / 1893450 
salivary gland0 / 201550 
skin0 / 2105740 
spleen1 / 5395218
stomach0 / 966190 
testis4 / 33044212
thymus0 / 811310 
thyroid1 / 4747321
tonsil0 / 169990 
trachea0 / 524130 
umbilical cord0 / 136800 
uterus3 / 23287812
vascular3 / 5178057
Microarray in BioGPS Top
Select probe  
  • Microarray Platform: GeneAtlas U133A, gcrma
  • Affymatrix Probe ID: 215324_at
Cell line Expression level Expression bar
721_B_lymphoblasts7.25
Adipocyte6.3
AdrenalCortex7.85
Adrenalgland5.95
Amygdala6.45
Appendix8.1
AtrioventricularNode6.15
BDCA4+_DentriticCells6.45
Bonemarrow7
BronchialEpithelialCells6.3
CD105+_Endothelial6.35
CD14+_Monocytes6.85
CD19+_BCells(neg._sel.)6.65
CD33+_Myeloid7.9
CD34+7.65
CD4+_Tcells6.55
CD56+_NKCells7.2
CD71+_EarlyErythroid6.2
CD8+_Tcells5.8
CardiacMyocytes10
Caudatenucleus5.85
Cerebellum5.25
CerebellumPeduncles8.65
CiliaryGanglion5.45
CingulateCortex7.05
Colorectaladenocarcinoma6.45
DorsalRootGanglion6.8
FetalThyroid6.65
Fetalbrain6.2
Fetalliver5.75
Fetallung4.95
GlobusPallidus5.25
Heart9.75
Hypothalamus6.7
Kidney5.8
Leukemia_chronicMyelogenousK-5625.85
Leukemia_promyelocytic-HL-605.65
Leukemialymphoblastic(MOLT-4)5
Liver10.9
Lung7.05
Lymphnode5.3
Lymphoma_burkitts(Daudi)8.55
Lymphoma_burkitts(Raji)9.85
MedullaOblongata5.8
OccipitalLobe5.75
OlfactoryBulb5.1
Ovary5.35
Pancreas5.4
PancreaticIslet7
ParietalLobe7.25
Pituitary7.5
Placenta6.35
Pons6.6
PrefrontalCortex7.8
Prostate7.4
Salivarygland5.45
SkeletalMuscle11
Skin5.75
SmoothMuscle7.25
Spinalcord6.85
SubthalamicNucleus6.3
SuperiorCervicalGanglion9
TemporalLobe6.15
Testis5.55
TestisGermCell5.4
TestisIntersitial6.15
TestisLeydigCell6.85
TestisSeminiferousTubule5.6
Thalamus6.7
Thymus4.8
Thyroid7.7
Tongue7.1
Tonsil6.4
Trachea5.4
TrigeminalGanglion11.05
Uterus5.1
UterusCorpus8.4
WholeBlood6.85
Wholebrain5.15
colon6.45
pineal_day7.88
pineal_night7.8
retina7.725
small_intestine6.05
Allen Brain Atlas Top
Human Whole Brain Microarrayview in Allen Brain Atlas
  • Probe id     Donor id      
  • Probe name: A_23_P405287
  • 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
Amygdala6.64 ± 0.95
Basal Forebrain5.57 ± 0.44
Basal Part of Pons6.98 ± 0.3
Cerebellar Cortex5.4 ± 0.79
Cerebellar Nuclei6.11 ± 0.36
Claustrum5.52 ± 1.32
Epithalamus6.79 ± 0.45
Frontal Lobe5.81 ± 0.73
Globus Pallidus6.38 ± 0.33
Hypothalamus6.43 ± 0.47
Insula5.81 ± 0.71
Limbic Lobe6.19 ± 1.14
Mesencephalon6.27 ± 0.86
Myelencephalon6.05 ± 0.73
Occipital Lobe5.69 ± 0.85
Parietal Lobe5.87 ± 0.75
Pontine Tegmentum5.8 ± 0.62
Striatum6.22 ± 0.92
Subthalamus6.3 ± 0.31
Temporal Lobe6.28 ± 0.79
Thalamus6.01 ± 0.62
White Matter4.99 ± 0.43
Mouse Brain ISH
Gene Symbol Brain Structure ID Brain Structure Name Express Desity/Level (Meatured by ISH) Express Bar
Sema3dCBCerebellum1.52
2.57
Sema3dCTXCerebral cortex0.75
1.03
Sema3dHIPHippocampal region0.71
0.8
Sema3dHPFHippocampal formation0.73
0.72
Sema3dHYHypothalamus1.62
1.92
Sema3dLSXLateral septal complex0.56
0.8
Sema3dMBMidbrain0.74
1.25
Sema3dMYMedulla1.81
3.34
Sema3dOLFOlfactory bulb3.57
5.1
Sema3dPPons0.76
1.64
Sema3dPALPallidum1.35
1.53
Sema3dRHPRetrohippocampal region0.77
0.64
Sema3dsAMYStriatum-like amygdalar nuclei1.58
2.22
Sema3dSTRStriatum0.49
0.54
Sema3dSTRdStriatum dorsal region0.32
0.31
Sema3dSTRvStriatum ventral region0.35
0.3
Sema3dTHThalamus1.1
1.64
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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