AutismKB 2.0

Annotation Detail for SEMA6C


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Basic Information Top
Gene Symbol:SEMA6C ( SEMAY,m-SemaY,m-SemaY2 )
Gene Full Name: sema domain, transmembrane domain (TM), and cytoplasmic domain, (semaphorin) 6C
Band: 1q21.3
Quick LinksEntrez ID:10500; OMIM: 609294; Uniprot ID:SEM6C_HUMAN; ENSEMBL ID: ENSG00000143434; HGNC ID: 10740
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 body1 / 7076114
blastocyst1 / 6231916
fetus22 / 56401239
neonate0 / 310970 
infant0 / 236200 
juvenile0 / 555560 
adult32 / 193912116
Pool Name Gene EST/Total EST in pool Transcripts per million(TPM) Bar based on TPM
adrenal tumor0 / 127940 
bladder carcinoma1 / 1747557
breast (mammary gland) tumor0 / 941780 
cervical tumor0 / 343660 
chondrosarcoma0 / 828230 
colorectal tumor0 / 1142460 
esophageal tumor0 / 172900 
gastrointestinal tumor0 / 1193690 
germ cell tumor7 / 26384526
glioma1 / 1068839
head and neck tumor3 / 13630222
kidney tumor1 / 6895914
leukemia0 / 958420 
liver tumor3 / 9635931
lung tumor0 / 1031270 
lymphoma0 / 717550 
non-neoplasia0 / 972500 
normal59 / 336030717
ovarian tumor2 / 7668226
pancreatic tumor1 / 1046169
primitive neuroectodermal tumor of the CNS2 / 12568015
prostate cancer0 / 1026800 
retinoblastoma4 / 4635686
skin tumor0 / 1249490 
soft tissue/muscle tissue tumor1 / 1251917
uterine tumor1 / 9025711
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 
bone0 / 716550 
bone marrow0 / 488010 
brain30 / 110098927
cervix0 / 481710 
connective tissue0 / 1492550 
ear1 / 1621261
embryonic tissue7 / 21572232
esophagus0 / 202090 
eye6 / 21105428
heart1 / 8962611
intestine2 / 2344728
kidney2 / 2117779
larynx5 / 24145207
liver3 / 20774314
lung1 / 3369742
lymph0 / 442700 
lymph node0 / 916100 
mammary gland2 / 15327113
mouth2 / 6705229
muscle4 / 10771537
nerve0 / 157680 
ovary1 / 1020519
pancreas2 / 2148129
parathyroid0 / 205390 
pharynx0 / 413280 
pituitary gland0 / 165850 
placenta0 / 2808250 
prostate2 / 18934510
salivary gland0 / 201550 
skin0 / 2105740 
spleen0 / 539520 
stomach0 / 966190 
testis11 / 33044233
thymus0 / 811310 
thyroid1 / 4747321
tonsil0 / 169990 
trachea0 / 524130 
umbilical cord0 / 136800 
uterus2 / 2328788
vascular1 / 5178019
Microarray in BioGPS Top
Select probe  
  • Microarray Platform: GeneAtlas U133A, gcrma
  • Affymatrix Probe ID: 208100_x_at
Cell line Expression level Expression bar
721_B_lymphoblasts42.1
Adipocyte32.95
AdrenalCortex33.9
Adrenalgland34.85
Amygdala35.3
Appendix33.05
AtrioventricularNode26.3
BDCA4+_DentriticCells27.9
Bonemarrow36.4
BronchialEpithelialCells33.1
CD105+_Endothelial30.35
CD14+_Monocytes35.7
CD19+_BCells(neg._sel.)35.9
CD33+_Myeloid43.3
CD34+42.65
CD4+_Tcells31.75
CD56+_NKCells40.2
CD71+_EarlyErythroid33.2
CD8+_Tcells32.5
CardiacMyocytes41.15
Caudatenucleus32.45
Cerebellum32.4
CerebellumPeduncles60.4
CiliaryGanglion23.25
CingulateCortex34.05
Colorectaladenocarcinoma29.4
DorsalRootGanglion25.3
FetalThyroid32.4
Fetalbrain39.35
Fetalliver29
Fetallung26.9
GlobusPallidus35.2
Heart41.55
Hypothalamus30
Kidney28.85
Leukemia_chronicMyelogenousK-56231
Leukemia_promyelocytic-HL-6029.45
Leukemialymphoblastic(MOLT-4)27.15
Liver43.6
Lung36.75
Lymphnode29.05
Lymphoma_burkitts(Daudi)42.5
Lymphoma_burkitts(Raji)46.35
MedullaOblongata30.55
OccipitalLobe33.8
OlfactoryBulb26.4
Ovary22
Pancreas26.7
PancreaticIslet34.75
ParietalLobe35
Pituitary39.2
Placenta31.4
Pons31.7
PrefrontalCortex35.2
Prostate37.2
Salivarygland35.45
SkeletalMuscle56.15
Skin25.2
SmoothMuscle35.85
Spinalcord35.8
SubthalamicNucleus34.2
SuperiorCervicalGanglion45.85
TemporalLobe30.35
Testis29.05
TestisGermCell24
TestisIntersitial27.85
TestisLeydigCell32.75
TestisSeminiferousTubule28.75
Thalamus34.35
Thymus23.6
Thyroid38.25
Tongue36.1
Tonsil36.4
Trachea28.05
TrigeminalGanglion32.25
Uterus22.35
UterusCorpus29.65
WholeBlood30.4
Wholebrain28.6
colon33.6
pineal_day37.78
pineal_night36.82
retina40.575
small_intestine32.35
Allen Brain Atlas Top
Human Whole Brain Microarrayview in Allen Brain Atlas
  • Probe id     Donor id      
  • Probe name: CUST_9974_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
Amygdala4.46 ± 0.7
Basal Forebrain4.21 ± 0.2
Basal Part of Pons4.01 ± 0.48
Cerebellar Cortex4.44 ± 0.44
Cerebellar Nuclei3.68 ± 0.49
Claustrum4.62 ± 0.8
Epithalamus3.67 ± 0.4
Frontal Lobe3.99 ± 0.53
Globus Pallidus3.73 ± 0.52
Hypothalamus4.04 ± 0.54
Insula4.04 ± 0.46
Limbic Lobe4.28 ± 0.65
Mesencephalon4.06 ± 0.65
Myelencephalon4.12 ± 0.63
Occipital Lobe4.31 ± 0.53
Parietal Lobe4.21 ± 0.62
Pontine Tegmentum4.03 ± 0.57
Striatum3.84 ± 0.51
Subthalamus3.73 ± 0.36
Temporal Lobe4.06 ± 0.6
Thalamus4.14 ± 0.57
White Matter3.61 ± 0.54
Mouse Brain ISH
Gene Symbol Brain Structure ID Brain Structure Name Express Desity/Level (Meatured by ISH) Express Bar
Sema6cCBCerebellum8.86
8.69
Sema6cCTXCerebral cortex5.35
3.51
Sema6cHIPHippocampal region15.19
20.92
Sema6cHPFHippocampal formation10.02
12.09
Sema6cHYHypothalamus1.13
0.73
Sema6cLSXLateral septal complex1.65
1.36
Sema6cMBMidbrain2.9
2.22
Sema6cMYMedulla5.55
4.36
Sema6cOLFOlfactory bulb15.95
16.56
Sema6cPPons2.26
1.7
Sema6cPALPallidum2.33
1.63
Sema6cRHPRetrohippocampal region3.19
2.29
Sema6csAMYStriatum-like amygdalar nuclei2.93
2.79
Sema6cSTRStriatum1.49
1.49
Sema6cSTRdStriatum dorsal region1.01
1.16
Sema6cSTRvStriatum ventral region2.16
1.44
Sema6cTHThalamus1.65
1.53
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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