AutismKB 2.0

Annotation Detail for CCDC90A


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Basic Information Top
Gene Symbol:CCDC90A ( C6orf79,FLJ20958 )
Gene Full Name: coiled-coil domain containing 90A
Band: 6p23
Quick LinksEntrez ID:63933; OMIM: NA; Uniprot ID:CC90A_HUMAN; ENSEMBL ID: ENSG00000050393; HGNC ID:
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
blastocyst1 / 6231916
fetus15 / 56401226
neonate0 / 310970 
infant2 / 2362084
juvenile0 / 555560 
adult55 / 193912128
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) tumor7 / 9417874
cervical tumor0 / 343660 
chondrosarcoma4 / 8282348
colorectal tumor2 / 11424617
esophageal tumor0 / 172900 
gastrointestinal tumor4 / 11936933
germ cell tumor4 / 26384515
glioma2 / 10688318
head and neck tumor5 / 13630236
kidney tumor2 / 6895929
leukemia3 / 9584231
liver tumor2 / 9635920
lung tumor6 / 10312758
lymphoma3 / 7175541
non-neoplasia1 / 9725010
normal88 / 336030726
ovarian tumor1 / 7668213
pancreatic tumor1 / 1046169
primitive neuroectodermal tumor of the CNS5 / 12568039
prostate cancer1 / 1026809
retinoblastoma3 / 4635664
skin tumor10 / 12494980
soft tissue/muscle tissue tumor11 / 12519187
uterine tumor0 / 902570 
Pool Name Gene EST/Total EST in pool Transcripts per million(TPM) Bar based on TPM
adipose tissue1 / 1310676
adrenal gland0 / 331970 
ascites0 / 400150 
bladder0 / 297570 
blood1 / 1234788
bone5 / 7165569
bone marrow3 / 4880161
brain24 / 110098921
cervix0 / 481710 
connective tissue7 / 14925546
ear0 / 162120 
embryonic tissue8 / 21572237
esophagus0 / 202090 
eye12 / 21105456
heart0 / 896260 
intestine2 / 2344728
kidney13 / 21177761
larynx1 / 2414541
liver6 / 20774328
lung11 / 33697432
lymph3 / 4427067
lymph node3 / 9161032
mammary gland7 / 15327145
mouth1 / 6705214
muscle4 / 10771537
nerve0 / 157680 
ovary1 / 1020519
pancreas8 / 21481237
parathyroid2 / 2053997
pharynx1 / 4132824
pituitary gland0 / 165850 
placenta7 / 28082524
prostate4 / 18934521
salivary gland3 / 20155148
skin12 / 21057456
spleen0 / 539520 
stomach3 / 9661931
testis4 / 33044212
thymus0 / 811310 
thyroid0 / 474730 
tonsil0 / 169990 
trachea0 / 524130 
umbilical cord0 / 136800 
uterus4 / 23287817
vascular0 / 517800 
Microarray in BioGPS Top
Select probe  
  • Microarray Platform: GeneAtlas U133A, gcrma
  • Affymatrix Probe ID: 220094_s_at
Cell line Expression level Expression bar
721_B_lymphoblasts597.6
Adipocyte40.9
AdrenalCortex9.1
Adrenalgland7.7
Amygdala110.15
Appendix9.4
AtrioventricularNode7.25
BDCA4+_DentriticCells298.2
Bonemarrow11.95
BronchialEpithelialCells220.05
CD105+_Endothelial424.15
CD14+_Monocytes64.05
CD19+_BCells(neg._sel.)157.3
CD33+_Myeloid46.75
CD34+245.35
CD4+_Tcells19.4
CD56+_NKCells104.1
CD71+_EarlyErythroid230.7
CD8+_Tcells29.3
CardiacMyocytes17.3
Caudatenucleus13.75
Cerebellum7.5
CerebellumPeduncles11.05
CiliaryGanglion6.75
CingulateCortex22.4
Colorectaladenocarcinoma149
DorsalRootGanglion11.8
FetalThyroid48.35
Fetalbrain25.45
Fetalliver44.15
Fetallung55.45
GlobusPallidus18.7
Heart70.45
Hypothalamus118.75
Kidney59.55
Leukemia_chronicMyelogenousK-562109.55
Leukemia_promyelocytic-HL-60151
Leukemialymphoblastic(MOLT-4)182.4
Liver61.75
Lung167.3
Lymphnode29.25
Lymphoma_burkitts(Daudi)187.4
Lymphoma_burkitts(Raji)107.1
MedullaOblongata12.6
OccipitalLobe34.65
OlfactoryBulb78.35
Ovary5.5
Pancreas99
PancreaticIslet81.65
ParietalLobe20.9
Pituitary22.3
Placenta127.7
Pons9.7
PrefrontalCortex39.85
Prostate130.8
Salivarygland21.3
SkeletalMuscle13.5
Skin24.25
SmoothMuscle61.35
Spinalcord61.85
SubthalamicNucleus28.5
SuperiorCervicalGanglion11.85
TemporalLobe16.85
Testis32.75
TestisGermCell15.45
TestisIntersitial8.9
TestisLeydigCell8.65
TestisSeminiferousTubule8.45
Thalamus51.6
Thymus38.75
Thyroid260.35
Tongue34.6
Tonsil43.9
Trachea20.65
TrigeminalGanglion10.4
Uterus49.7
UterusCorpus9.65
WholeBlood75.15
Wholebrain59.85
colon135.2
pineal_day284.82
pineal_night249.74
retina163.975
small_intestine159.45
Allen Brain Atlas Top
Human Whole Brain Microarrayview in Allen Brain Atlas
  • Probe id     Donor id      
  • Probe name: CUST_52_PI416573500
  • 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
Amygdala8.74 ± 0.22
Basal Forebrain8.94 ± 0.2
Basal Part of Pons8.83 ± 0.22
Cerebellar Cortex8.84 ± 0.24
Cerebellar Nuclei9.09 ± 0.18
Claustrum8.57 ± 0.38
Epithalamus9.18 ± 0.23
Frontal Lobe9.01 ± 0.27
Globus Pallidus9.54 ± 0.21
Hypothalamus9.03 ± 0.18
Insula8.93 ± 0.31
Limbic Lobe8.72 ± 0.45
Mesencephalon8.91 ± 0.35
Myelencephalon8.92 ± 0.27
Occipital Lobe8.52 ± 0.3
Parietal Lobe8.85 ± 0.32
Pontine Tegmentum8.98 ± 0.34
Striatum8.52 ± 0.31
Subthalamus9.09 ± 0.1
Temporal Lobe8.98 ± 0.31
Thalamus9.07 ± 0.27
White Matter9.28 ± 0.21
Mouse Brain ISH
Gene Symbol Brain Structure ID Brain Structure Name Express Desity/Level (Meatured by ISH) Express Bar
6230416A05RikCBCerebellum4.94
5.57
6230416A05RikCTXCerebral cortex7
5.07
6230416A05RikHIPHippocampal region10.28
10.06
6230416A05RikHPFHippocampal formation8.61
7.71
6230416A05RikHYHypothalamus1.78
1.39
6230416A05RikLSXLateral septal complex2.27
1.75
6230416A05RikMBMidbrain0.97
1.31
6230416A05RikMYMedulla2.32
2.25
6230416A05RikOLFOlfactory bulb7.19
5.19
6230416A05RikPPons1.48
1.5
6230416A05RikPALPallidum0.71
0.75
6230416A05RikRHPRetrohippocampal region5.67
4.09
6230416A05RiksAMYStriatum-like amygdalar nuclei0.5
0.57
6230416A05RikSTRStriatum2.29
1.88
6230416A05RikSTRdStriatum dorsal region2.87
2.46
6230416A05RikSTRvStriatum ventral region1.2
0.76
6230416A05RikTHThalamus3.05
2.62
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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