AutismKB 2.0

Annotation Detail for SEMA3F


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Basic Information Top
Gene Symbol:SEMA3F ( SEMA-IV,SEMA4,SEMAK )
Gene Full Name: sema domain, immunoglobulin domain (Ig), short basic domain, secreted, (semaphorin) 3F
Band: 3p21.31
Quick LinksEntrez ID:6405; OMIM: 601124; Uniprot ID:SEM3F_HUMAN; ENSEMBL ID: ENSG00000001617; HGNC ID: 10728
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
blastocyst3 / 6231948
fetus12 / 56401221
neonate0 / 310970 
infant1 / 2362042
juvenile0 / 555560 
adult63 / 193912132
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) tumor3 / 9417831
cervical tumor3 / 3436687
chondrosarcoma2 / 8282324
colorectal tumor1 / 1142468
esophageal tumor0 / 172900 
gastrointestinal tumor0 / 1193690 
germ cell tumor2 / 2638457
glioma2 / 10688318
head and neck tumor13 / 13630295
kidney tumor26 / 68959377
leukemia0 / 958420 
liver tumor0 / 963590 
lung tumor1 / 1031279
lymphoma0 / 717550 
non-neoplasia2 / 9725020
normal54 / 336030716
ovarian tumor4 / 7668252
pancreatic tumor4 / 10461638
primitive neuroectodermal tumor of the CNS0 / 1256800 
prostate cancer1 / 1026809
retinoblastoma0 / 463560 
skin tumor0 / 1249490 
soft tissue/muscle tissue tumor1 / 1251917
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 
ascites0 / 400150 
bladder0 / 297570 
blood0 / 1234780 
bone1 / 7165513
bone marrow0 / 488010 
brain3 / 11009892
cervix4 / 4817183
connective tissue2 / 14925513
ear0 / 162120 
embryonic tissue10 / 21572246
esophagus0 / 202090 
eye12 / 21105456
heart3 / 8962633
intestine4 / 23447217
kidney29 / 211777136
larynx0 / 241450 
liver0 / 2077430 
lung7 / 33697420
lymph0 / 442700 
lymph node0 / 916100 
mammary gland4 / 15327126
mouth8 / 67052119
muscle0 / 1077150 
nerve0 / 157680 
ovary7 / 10205168
pancreas4 / 21481218
parathyroid0 / 205390 
pharynx0 / 413280 
pituitary gland0 / 165850 
placenta3 / 28082510
prostate9 / 18934547
salivary gland0 / 201550 
skin1 / 2105744
spleen0 / 539520 
stomach0 / 966190 
testis0 / 3304420 
thymus0 / 811310 
thyroid7 / 47473147
tonsil0 / 169990 
trachea0 / 524130 
umbilical cord0 / 136800 
uterus5 / 23287821
vascular0 / 517800 
Microarray in BioGPS Top
Select probe  
  • Microarray Platform: GeneAtlas U133A, gcrma
  • Affymatrix Probe ID: 35666_at
Cell line Expression level Expression bar
721_B_lymphoblasts21.85
Adipocyte25.15
AdrenalCortex47.75
Adrenalgland27.05
Amygdala25.35
Appendix63.85
AtrioventricularNode101.15
BDCA4+_DentriticCells32.55
Bonemarrow23.05
BronchialEpithelialCells331
CD105+_Endothelial28.05
CD14+_Monocytes32.05
CD19+_BCells(neg._sel.)27
CD33+_Myeloid32.8
CD34+38.25
CD4+_Tcells23.65
CD56+_NKCells29.1
CD71+_EarlyErythroid24.35
CD8+_Tcells20.7
CardiacMyocytes43.8
Caudatenucleus24.2
Cerebellum24.4
CerebellumPeduncles55.55
CiliaryGanglion48.95
CingulateCortex32.35
Colorectaladenocarcinoma21.2
DorsalRootGanglion55.85
FetalThyroid92
Fetalbrain69.65
Fetalliver22.7
Fetallung77.5
GlobusPallidus25.45
Heart197.8
Hypothalamus52.85
Kidney40.55
Leukemia_chronicMyelogenousK-56229.2
Leukemia_promyelocytic-HL-6024.45
Leukemialymphoblastic(MOLT-4)29.45
Liver27.85
Lung111.75
Lymphnode24.3
Lymphoma_burkitts(Daudi)35
Lymphoma_burkitts(Raji)33.2
MedullaOblongata27.45
OccipitalLobe29.15
OlfactoryBulb22.8
Ovary27.65
Pancreas28.8
PancreaticIslet29.3
ParietalLobe34.75
Pituitary39.95
Placenta161.95
Pons43.45
PrefrontalCortex38.4
Prostate131.05
Salivarygland34.75
SkeletalMuscle43.25
Skin85.6
SmoothMuscle33.1
Spinalcord28.05
SubthalamicNucleus50.5
SuperiorCervicalGanglion55.2
TemporalLobe30.35
Testis31.05
TestisGermCell48.35
TestisIntersitial38.45
TestisLeydigCell49.85
TestisSeminiferousTubule47.25
Thalamus77.9
Thymus28.7
Thyroid38.85
Tongue183.9
Tonsil68.55
Trachea34.4
TrigeminalGanglion89.5
Uterus25.15
UterusCorpus41.3
WholeBlood17.6
Wholebrain22.15
colon26.1
pineal_day124.06
pineal_night218.98
retina99.975
small_intestine27.8
Allen Brain Atlas Top
Human Whole Brain Microarrayview in Allen Brain Atlas
  • Probe id     Donor id      
  • Probe name: CUST_564_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
Amygdala2.14 ± 1.02
Basal Forebrain1.82 ± 0.38
Basal Part of Pons1.4 ± 0.35
Cerebellar Cortex1.53 ± 0.64
Cerebellar Nuclei2.02 ± 0.73
Claustrum2.62 ± 0.87
Epithalamus1.42 ± 0.74
Frontal Lobe1.55 ± 0.56
Globus Pallidus2.29 ± 0.25
Hypothalamus1.78 ± 0.63
Insula1.6 ± 0.48
Limbic Lobe1.71 ± 0.57
Mesencephalon1.88 ± 0.66
Myelencephalon1.75 ± 0.64
Occipital Lobe1.82 ± 0.72
Parietal Lobe1.74 ± 0.81
Pontine Tegmentum1.76 ± 0.64
Striatum1.92 ± 0.55
Subthalamus1.95 ± 0.57
Temporal Lobe1.62 ± 0.6
Thalamus1.68 ± 0.57
White Matter2.18 ± 0.34
Mouse Brain ISH
Gene Symbol Brain Structure ID Brain Structure Name Express Desity/Level (Meatured by ISH) Express Bar
Sema3fCBCerebellum3.88
4.73
Sema3fCTXCerebral cortex8.66
5.79
Sema3fHIPHippocampal region1.63
1.82
Sema3fHPFHippocampal formation3.58
3.28
Sema3fHYHypothalamus8.53
6.68
Sema3fLSXLateral septal complex10.36
6.85
Sema3fMBMidbrain23.32
21.52
Sema3fMYMedulla6.43
6.48
Sema3fOLFOlfactory bulb15.76
14.53
Sema3fPPons6.26
5.97
Sema3fPALPallidum10.32
8.24
Sema3fRHPRetrohippocampal region6.67
5.16
Sema3fsAMYStriatum-like amygdalar nuclei15.06
11.21
Sema3fSTRStriatum13.98
9.49
Sema3fSTRdStriatum dorsal region13
8.8
Sema3fSTRvStriatum ventral region18.32
11.87
Sema3fTHThalamus5.18
4.27
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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