AutismKB 2.0

Annotation Detail for PRDM9


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Basic Information Top
Gene Symbol:PRDM9 ( MEISETZ,PFM6,PRMD9,ZNF899 )
Gene Full Name: PR domain containing 9
Band: 5p14.2
Quick LinksEntrez ID:56979; OMIM: 609760; Uniprot ID:PRDM9_HUMAN; ENSEMBL ID: ENSG00000164256; HGNC ID: 13994
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 
fetus0 / 5640120 
neonate0 / 310970 
infant0 / 236200 
juvenile0 / 555560 
adult2 / 19391211
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) tumor0 / 941780 
cervical tumor0 / 343660 
chondrosarcoma0 / 828230 
colorectal tumor0 / 1142460 
esophageal tumor0 / 172900 
gastrointestinal tumor0 / 1193690 
germ cell tumor0 / 2638450 
glioma0 / 1068830 
head and neck tumor0 / 1363020 
kidney tumor0 / 689590 
leukemia0 / 958420 
liver tumor0 / 963590 
lung tumor0 / 1031270 
lymphoma0 / 717550 
non-neoplasia0 / 972500 
normal12 / 33603073
ovarian tumor0 / 766820 
pancreatic tumor0 / 1046160 
primitive neuroectodermal tumor of the CNS0 / 1256800 
prostate cancer0 / 1026800 
retinoblastoma0 / 463560 
skin tumor0 / 1249490 
soft tissue/muscle tissue tumor0 / 1251910 
uterine tumor0 / 902570 
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 
brain0 / 11009890 
cervix0 / 481710 
connective tissue0 / 1492550 
ear0 / 162120 
embryonic tissue0 / 2157220 
esophagus0 / 202090 
eye0 / 2110540 
heart0 / 896260 
intestine0 / 2344720 
kidney0 / 2117770 
larynx0 / 241450 
liver0 / 2077430 
lung0 / 3369740 
lymph0 / 442700 
lymph node0 / 916100 
mammary gland0 / 1532710 
mouth0 / 670520 
muscle2 / 10771518
nerve0 / 157680 
ovary0 / 1020510 
pancreas0 / 2148120 
parathyroid0 / 205390 
pharynx0 / 413280 
pituitary gland0 / 165850 
placenta0 / 2808250 
prostate0 / 1893450 
salivary gland0 / 201550 
skin0 / 2105740 
spleen0 / 539520 
stomach0 / 966190 
testis9 / 33044227
thymus0 / 811310 
thyroid0 / 474730 
tonsil0 / 169990 
trachea0 / 524130 
umbilical cord0 / 136800 
uterus0 / 2328780 
vascular0 / 517800 
Microarray in BioGPS Top
Select probe  
  • Microarray Platform: GeneAtlas U133A, gcrma
  • Affymatrix Probe ID: 221151_at
Cell line Expression level Expression bar
721_B_lymphoblasts10
Adipocyte13.25
AdrenalCortex19.1
Adrenalgland11.85
Amygdala12.2
Appendix15
AtrioventricularNode27.35
BDCA4+_DentriticCells11.6
Bonemarrow14.9
BronchialEpithelialCells13.2
CD105+_Endothelial12.3
CD14+_Monocytes13.85
CD19+_BCells(neg._sel.)12.85
CD33+_Myeloid21.75
CD34+13.8
CD4+_Tcells14.5
CD56+_NKCells13.85
CD71+_EarlyErythroid12.65
CD8+_Tcells12.85
CardiacMyocytes31.05
Caudatenucleus12.1
Cerebellum10.9
CerebellumPeduncles21.4
CiliaryGanglion14.9
CingulateCortex13.85
Colorectaladenocarcinoma13.15
DorsalRootGanglion21
FetalThyroid17.2
Fetalbrain11.5
Fetalliver12.35
Fetallung9.75
GlobusPallidus12.2
Heart20.05
Hypothalamus11.7
Kidney15.15
Leukemia_chronicMyelogenousK-56216.55
Leukemia_promyelocytic-HL-6011.85
Leukemialymphoblastic(MOLT-4)10.05
Liver22.5
Lung12.65
Lymphnode11.1
Lymphoma_burkitts(Daudi)17.35
Lymphoma_burkitts(Raji)20.55
MedullaOblongata11.5
OccipitalLobe11.55
OlfactoryBulb18.25
Ovary14.7
Pancreas11.9
PancreaticIslet14.4
ParietalLobe14.4
Pituitary14.95
Placenta13.7
Pons13.45
PrefrontalCortex14.35
Prostate13.2
Salivarygland12.05
SkeletalMuscle36.7
Skin15.25
SmoothMuscle20.5
Spinalcord16.05
SubthalamicNucleus12
SuperiorCervicalGanglion27.05
TemporalLobe12.95
Testis11.35
TestisGermCell9.75
TestisIntersitial11.4
TestisLeydigCell16.3
TestisSeminiferousTubule15.15
Thalamus14.4
Thymus9.6
Thyroid15.25
Tongue13.7
Tonsil13.15
Trachea10.3
TrigeminalGanglion17.55
Uterus9.3
UterusCorpus13.95
WholeBlood12.35
Wholebrain10.2
colon10.4
pineal_day14.68
pineal_night14.06
retina14.05
small_intestine10
Allen Brain Atlas Top
Human Whole Brain Microarrayview in Allen Brain Atlas
  • Probe id     Donor id      
  • Probe name: A_23_P7612
  • 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
Amygdala2.99 ± 1.29
Basal Forebrain2.63 ± 0.7
Basal Part of Pons2.34 ± 0.81
Cerebellar Cortex2.41 ± 0.94
Cerebellar Nuclei2.98 ± 0.7
Claustrum3.63 ± 1.22
Epithalamus2.32 ± 0.86
Frontal Lobe2.46 ± 0.96
Globus Pallidus3.09 ± 0.71
Hypothalamus2.49 ± 0.71
Insula2.06 ± 0.64
Limbic Lobe2.59 ± 0.99
Mesencephalon2.66 ± 0.87
Myelencephalon2.57 ± 0.94
Occipital Lobe2.58 ± 0.99
Parietal Lobe2.66 ± 1.08
Pontine Tegmentum2.7 ± 0.97
Striatum2.59 ± 0.93
Subthalamus2.52 ± 0.97
Temporal Lobe2.5 ± 0.94
Thalamus2.46 ± 0.81
White Matter2.88 ± 0.58
Mouse Brain ISH
Gene Symbol Brain Structure ID Brain Structure Name Express Desity/Level (Meatured by ISH) Express Bar
Prdm9CBCerebellum0.1
0.34
Prdm9CTXCerebral cortex0.17
0.28
Prdm9HIPHippocampal region0.12
0.15
Prdm9HPFHippocampal formation0.17
0.22
Prdm9HYHypothalamus0.07
0.11
Prdm9LSXLateral septal complex0.03
0
Prdm9MBMidbrain0.23
1
Prdm9MYMedulla0.24
0.52
Prdm9OLFOlfactory bulb0.37
0.73
Prdm9PPons0.23
0.68
Prdm9PALPallidum0.03
0.02
Prdm9RHPRetrohippocampal region0.24
0.25
Prdm9sAMYStriatum-like amygdalar nuclei0.1
0.07
Prdm9STRStriatum0.07
0.09
Prdm9STRdStriatum dorsal region0.09
0.12
Prdm9STRvStriatum ventral region0.04
0.04
Prdm9THThalamus0.33
0.59
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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