AutismKB 2.0

Annotation Detail for SCG2


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Basic Information Top
Gene Symbol:SCG2 ( CHGC,SN,SgII )
Gene Full Name: secretogranin II
Band: 2q36.1
Quick LinksEntrez ID:7857; OMIM: 118930; Uniprot ID:SCG2_HUMAN; ENSEMBL ID: ENSG00000171951; HGNC ID: 10575
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 
fetus51 / 56401290
neonate0 / 310970 
infant3 / 23620127
juvenile12 / 55556215
adult118 / 193912160
Pool Name Gene EST/Total EST in pool Transcripts per million(TPM) Bar based on TPM
adrenal tumor4 / 12794312
bladder carcinoma0 / 174750 
breast (mammary gland) tumor0 / 941780 
cervical tumor0 / 343660 
chondrosarcoma1 / 8282312
colorectal tumor0 / 1142460 
esophageal tumor1 / 1729057
gastrointestinal tumor2 / 11936916
germ cell tumor72 / 263845272
glioma10 / 10688393
head and neck tumor2 / 13630214
kidney tumor30 / 68959435
leukemia0 / 958420 
liver tumor2 / 9635920
lung tumor0 / 1031270 
lymphoma0 / 717550 
non-neoplasia2 / 9725020
normal299 / 336030788
ovarian tumor0 / 766820 
pancreatic tumor8 / 10461676
primitive neuroectodermal tumor of the CNS22 / 125680175
prostate cancer0 / 1026800 
retinoblastoma0 / 463560 
skin tumor2 / 12494916
soft tissue/muscle tissue tumor8 / 12519163
uterine tumor0 / 902570 
Pool Name Gene EST/Total EST in pool Transcripts per million(TPM) Bar based on TPM
adipose tissue0 / 131060 
adrenal gland8 / 33197240
ascites0 / 400150 
bladder1 / 2975733
blood0 / 1234780 
bone0 / 716550 
bone marrow0 / 488010 
brain262 / 1100989237
cervix0 / 481710 
connective tissue10 / 14925566
ear0 / 162120 
embryonic tissue1 / 2157224
esophagus1 / 2020949
eye2 / 2110549
heart0 / 896260 
intestine3 / 23447212
kidney30 / 211777141
larynx0 / 241450 
liver4 / 20774319
lung13 / 33697438
lymph0 / 442700 
lymph node0 / 916100 
mammary gland0 / 1532710 
mouth0 / 670520 
muscle0 / 1077150 
nerve1 / 1576863
ovary1 / 1020519
pancreas58 / 214812270
parathyroid0 / 205390 
pharynx0 / 413280 
pituitary gland12 / 16585723
placenta2 / 2808257
prostate2 / 18934510
salivary gland0 / 201550 
skin2 / 2105749
spleen0 / 539520 
stomach2 / 9661920
testis5 / 33044215
thymus0 / 811310 
thyroid2 / 4747342
tonsil0 / 169990 
trachea0 / 524130 
umbilical cord0 / 136800 
uterus1 / 2328784
vascular1 / 5178019
Microarray in BioGPS Top
Select probe  
  • Microarray Platform: GeneAtlas U133A, gcrma
  • Affymatrix Probe ID: 204035_at
Cell line Expression level Expression bar
721_B_lymphoblasts7.45
Adipocyte8.7
AdrenalCortex189.35
Adrenalgland96.25
Amygdala517.85
Appendix9.45
AtrioventricularNode6.6
BDCA4+_DentriticCells6.85
Bonemarrow8.35
BronchialEpithelialCells7.85
CD105+_Endothelial7.6
CD14+_Monocytes9.8
CD19+_BCells(neg._sel.)7.85
CD33+_Myeloid9.6
CD34+8.7
CD4+_Tcells7.4
CD56+_NKCells8.25
CD71+_EarlyErythroid7.35
CD8+_Tcells6.5
CardiacMyocytes14.15
Caudatenucleus499.4
Cerebellum20.5
CerebellumPeduncles50.55
CiliaryGanglion25.35
CingulateCortex256.95
Colorectaladenocarcinoma8.05
DorsalRootGanglion13.3
FetalThyroid7.65
Fetalbrain288
Fetalliver6.8
Fetallung5.95
GlobusPallidus100.95
Heart13.5
Hypothalamus2092.8
Kidney6.85
Leukemia_chronicMyelogenousK-5626.85
Leukemia_promyelocytic-HL-606.8
Leukemialymphoblastic(MOLT-4)5.6
Liver11.2
Lung8.4
Lymphnode5.95
Lymphoma_burkitts(Daudi)10.3
Lymphoma_burkitts(Raji)12.05
MedullaOblongata274.3
OccipitalLobe238.6
OlfactoryBulb6.35
Ovary7.55
Pancreas17.5
PancreaticIslet875.9
ParietalLobe138.8
Pituitary1301.8
Placenta8.05
Pons206.55
PrefrontalCortex232.15
Prostate9.15
Salivarygland6.4
SkeletalMuscle13.05
Skin7.45
SmoothMuscle8.65
Spinalcord81.95
SubthalamicNucleus120.9
SuperiorCervicalGanglion12.15
TemporalLobe108.35
Testis6.6
TestisGermCell6
TestisIntersitial6.6
TestisLeydigCell7.95
TestisSeminiferousTubule6.65
Thalamus787.95
Thymus5.45
Thyroid10.45
Tongue9.05
Tonsil7.75
Trachea6.65
TrigeminalGanglion9.55
Uterus6.9
UterusCorpus7.95
WholeBlood8.25
Wholebrain259.55
colon8.3
pineal_day409.96
pineal_night612.22
retina14
small_intestine22.25
Allen Brain Atlas Top
Human Whole Brain Microarrayview in Allen Brain Atlas
  • Probe id     Donor id      
  • Probe name: CUST_13086_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
Amygdala9.98 ± 0.67
Basal Forebrain10.38 ± 0.24
Basal Part of Pons9.8 ± 0.54
Cerebellar Cortex9.12 ± 0.36
Cerebellar Nuclei9.45 ± 0.48
Claustrum10.78 ± 0.56
Epithalamus9.64 ± 0.82
Frontal Lobe9.87 ± 0.6
Globus Pallidus8.43 ± 1.61
Hypothalamus11.22 ± 0.8
Insula10.05 ± 0.47
Limbic Lobe9.41 ± 0.69
Mesencephalon10.17 ± 0.91
Myelencephalon9.93 ± 0.84
Occipital Lobe9.4 ± 0.6
Parietal Lobe9.83 ± 0.47
Pontine Tegmentum9.91 ± 0.91
Striatum11.04 ± 0.61
Subthalamus8.34 ± 0.14
Temporal Lobe9.88 ± 0.43
Thalamus10.28 ± 0.71
White Matter7.53 ± 0.63
Mouse Brain ISH
Gene Symbol Brain Structure ID Brain Structure Name Express Desity/Level (Meatured by ISH) Express Bar
Scg2CBCerebellum29.06
44.06
Scg2CTXCerebral cortex46.57
46.8
Scg2HIPHippocampal region52.79
64.46
Scg2HPFHippocampal formation44.34
50.15
Scg2HYHypothalamus100
100
Scg2LSXLateral septal complex49.67
52.13
Scg2MBMidbrain82.18
99.74
Scg2MYMedulla73.48
97.79
Scg2OLFOlfactory bulb100
100
Scg2PPons67.34
87.73
Scg2PALPallidum69.31
92.12
Scg2RHPRetrohippocampal region31.4
31.67
Scg2sAMYStriatum-like amygdalar nuclei100
100
Scg2STRStriatum59.14
66.02
Scg2STRdStriatum dorsal region36.29
39.62
Scg2STRvStriatum ventral region89.54
86.76
Scg2THThalamus46.26
45.78
Peptide Top
Peptide Name Peptide Lengh Peptide Start Peptide End Peptide Sequence Source
PAp00136369 12 593 604 VLEYLNQEKAEK 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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