AutismKB 2.0

Annotation Detail for HMGN3


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Basic Information Top
Gene Symbol:HMGN3 ( DKFZp686E20226,PNAS-25,TRIP7 )
Gene Full Name: high mobility group nucleosomal binding domain 3
Band: 6q14.1
Quick LinksEntrez ID:9324; OMIM: 604502; Uniprot ID:HMGN3_HUMAN; ENSEMBL ID: ENSG00000118418; HGNC ID: 12312
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 body7 / 7076198
blastocyst3 / 6231948
fetus57 / 564012101
neonate0 / 310970 
infant1 / 2362042
juvenile0 / 555560 
adult139 / 193912171
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) tumor7 / 9417874
cervical tumor2 / 3436658
chondrosarcoma5 / 8282360
colorectal tumor2 / 11424617
esophageal tumor1 / 1729057
gastrointestinal tumor11 / 11936992
germ cell tumor10 / 26384537
glioma4 / 10688337
head and neck tumor8 / 13630258
kidney tumor4 / 6895958
leukemia2 / 9584220
liver tumor6 / 9635962
lung tumor3 / 10312729
lymphoma1 / 7175513
non-neoplasia7 / 9725071
normal316 / 336030794
ovarian tumor3 / 7668239
pancreatic tumor3 / 10461628
primitive neuroectodermal tumor of the CNS5 / 12568039
prostate cancer7 / 10268068
retinoblastoma1 / 4635621
skin tumor6 / 12494948
soft tissue/muscle tissue tumor13 / 125191103
uterine tumor3 / 9025733
Pool Name Gene EST/Total EST in pool Transcripts per million(TPM) Bar based on TPM
adipose tissue0 / 131060 
adrenal gland2 / 3319760
ascites2 / 4001549
bladder1 / 2975733
blood6 / 12347848
bone6 / 7165583
bone marrow7 / 48801143
brain108 / 110098998
cervix2 / 4817141
connective tissue10 / 14925566
ear1 / 1621261
embryonic tissue20 / 21572292
esophagus1 / 2020949
eye9 / 21105442
heart11 / 89626122
intestine5 / 23447221
kidney13 / 21177761
larynx1 / 2414541
liver21 / 207743101
lung43 / 336974127
lymph0 / 442700 
lymph node6 / 9161065
mammary gland8 / 15327152
mouth2 / 6705229
muscle12 / 107715111
nerve2 / 15768126
ovary4 / 10205139
pancreas28 / 214812130
parathyroid4 / 20539194
pharynx7 / 41328169
pituitary gland6 / 16585361
placenta12 / 28082542
prostate19 / 189345100
salivary gland0 / 201550 
skin20 / 21057494
spleen6 / 53952111
stomach8 / 9661982
testis29 / 33044287
thymus2 / 8113124
thyroid6 / 47473126
tonsil0 / 169990 
trachea0 / 524130 
umbilical cord0 / 136800 
uterus16 / 23287868
vascular1 / 5178019
Microarray in BioGPS Top
Select probe  
  • Microarray Platform: GeneAtlas U133A, gcrma
  • Affymatrix Probe ID: 209377_s_at
Cell line Expression level Expression bar
721_B_lymphoblasts1474.65
Adipocyte168.9
AdrenalCortex154.1
Adrenalgland212.7
Amygdala444.7
Appendix122.7
AtrioventricularNode38.1
BDCA4+_DentriticCells1086.3
Bonemarrow39.8
BronchialEpithelialCells165.5
CD105+_Endothelial636.45
CD14+_Monocytes565.15
CD19+_BCells(neg._sel.)671.05
CD33+_Myeloid1100.2
CD34+1553.9
CD4+_Tcells553.3
CD56+_NKCells1100.45
CD71+_EarlyErythroid30.1
CD8+_Tcells668.6
CardiacMyocytes184.45
Caudatenucleus185.85
Cerebellum148.3
CerebellumPeduncles107.75
CiliaryGanglion52.95
CingulateCortex198.95
Colorectaladenocarcinoma198
DorsalRootGanglion69.45
FetalThyroid444.1
Fetalbrain467.25
Fetalliver347.3
Fetallung646.15
GlobusPallidus79.55
Heart92.95
Hypothalamus595.95
Kidney124.65
Leukemia_chronicMyelogenousK-562236.7
Leukemia_promyelocytic-HL-603.7
Leukemialymphoblastic(MOLT-4)355.4
Liver65.75
Lung337.75
Lymphnode291.2
Lymphoma_burkitts(Daudi)16.75
Lymphoma_burkitts(Raji)6
MedullaOblongata226.05
OccipitalLobe266.15
OlfactoryBulb318.7
Ovary77.95
Pancreas69.8
PancreaticIslet305.95
ParietalLobe169.65
Pituitary1131.85
Placenta352.9
Pons115.9
PrefrontalCortex707.1
Prostate294.7
Salivarygland257.9
SkeletalMuscle37.85
Skin79.95
SmoothMuscle91.85
Spinalcord525.55
SubthalamicNucleus133.45
SuperiorCervicalGanglion107.2
TemporalLobe97.8
Testis414.55
TestisGermCell633.3
TestisIntersitial183.8
TestisLeydigCell171.9
TestisSeminiferousTubule217.4
Thalamus136.65
Thymus299.75
Thyroid888.05
Tongue204.2
Tonsil214.6
Trachea268.1
TrigeminalGanglion65.05
Uterus326.55
UterusCorpus34.9
WholeBlood208.7
Wholebrain364.05
colon253.65
pineal_day1996.4
pineal_night2004.32
retina559.325
small_intestine399
Allen Brain Atlas Top
Human Whole Brain Microarrayview in Allen Brain Atlas
  • Probe id     Donor id      
  • Probe name: CUST_8983_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
Amygdala8.67 ± 0.3
Basal Forebrain8.44 ± 0.43
Basal Part of Pons8.6 ± 0.14
Cerebellar Cortex8.51 ± 0.32
Cerebellar Nuclei8.52 ± 0.46
Claustrum8.78 ± 0.47
Epithalamus9.03 ± 0.39
Frontal Lobe8.3 ± 0.33
Globus Pallidus8.94 ± 0.32
Hypothalamus8.26 ± 0.39
Insula8.28 ± 0.31
Limbic Lobe8.5 ± 0.44
Mesencephalon8.46 ± 0.3
Myelencephalon8.46 ± 0.46
Occipital Lobe8.87 ± 0.5
Parietal Lobe8.45 ± 0.46
Pontine Tegmentum8.46 ± 0.45
Striatum8.66 ± 0.43
Subthalamus8.18 ± 0.26
Temporal Lobe8.37 ± 0.33
Thalamus8.45 ± 0.32
White Matter9.66 ± 0.35
Mouse Brain ISH
Gene Symbol Brain Structure ID Brain Structure Name Express Desity/Level (Meatured by ISH) Express Bar
Hmgn3STRdStriatum dorsal region21.65
14.68
Peptide Top
Peptide Name Peptide Lengh Peptide Start Peptide End Peptide Sequence Source
PAp00074045 13 30 42 LSAKPAPPKPEPK 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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