AutismKB 2.0

Annotation Detail for RBM39


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Basic Information Top
Gene Symbol:RBM39 ( CAPER,CAPERalpha,CC1.3,DKFZp781C0423,FLJ44170,HCC1,RNPC2,fSAP59 )
Gene Full Name: RNA binding motif protein 39
Band: 20q11.22
Quick LinksEntrez ID:9584; OMIM: 604739; Uniprot ID:RBM39_HUMAN; ENSEMBL ID: ENSG00000131051; HGNC ID: 15923
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 body18 / 70761254
blastocyst27 / 62319433
fetus131 / 564012232
neonate13 / 31097418
infant7 / 23620296
juvenile21 / 55556377
adult419 / 1939121216
Pool Name Gene EST/Total EST in pool Transcripts per million(TPM) Bar based on TPM
adrenal tumor1 / 1279478
bladder carcinoma1 / 1747557
breast (mammary gland) tumor27 / 94178286
cervical tumor6 / 34366174
chondrosarcoma15 / 82823181
colorectal tumor35 / 114246306
esophageal tumor14 / 17290809
gastrointestinal tumor22 / 119369184
germ cell tumor51 / 263845193
glioma12 / 106883112
head and neck tumor25 / 136302183
kidney tumor15 / 68959217
leukemia54 / 95842563
liver tumor33 / 96359342
lung tumor7 / 10312767
lymphoma16 / 71755222
non-neoplasia14 / 97250143
normal810 / 3360307241
ovarian tumor12 / 76682156
pancreatic tumor8 / 10461676
primitive neuroectodermal tumor of the CNS29 / 125680230
prostate cancer3 / 10268029
retinoblastoma5 / 46356107
skin tumor9 / 12494972
soft tissue/muscle tissue tumor11 / 12519187
uterine tumor20 / 90257221
Pool Name Gene EST/Total EST in pool Transcripts per million(TPM) Bar based on TPM
adipose tissue6 / 13106457
adrenal gland5 / 33197150
ascites8 / 40015199
bladder12 / 29757403
blood30 / 123478242
bone12 / 71655167
bone marrow49 / 488011004
brain278 / 1100989252
cervix8 / 48171166
connective tissue18 / 149255120
ear2 / 16212123
embryonic tissue64 / 215722296
esophagus14 / 20209692
eye29 / 211054137
heart16 / 89626178
intestine53 / 234472226
kidney44 / 211777207
larynx5 / 24145207
liver81 / 207743389
lung54 / 336974160
lymph11 / 44270248
lymph node13 / 91610141
mammary gland43 / 153271280
mouth13 / 67052193
muscle48 / 107715445
nerve1 / 1576863
ovary13 / 102051127
pancreas27 / 214812125
parathyroid3 / 20539146
pharynx3 / 4132872
pituitary gland7 / 16585422
placenta55 / 280825195
prostate14 / 18934573
salivary gland4 / 20155198
skin30 / 210574142
spleen27 / 53952500
stomach15 / 96619155
testis80 / 330442242
thymus47 / 81131579
thyroid9 / 47473189
tonsil1 / 1699958
trachea14 / 52413267
umbilical cord2 / 13680146
uterus75 / 232878322
vascular20 / 51780386
Microarray in BioGPS Top
Select probe  
  • Microarray Platform: GeneAtlas U133A, gcrma
  • Affymatrix Probe ID: 207941_s_at
Cell line Expression level Expression bar
721_B_lymphoblasts450
Adipocyte61
AdrenalCortex60.25
Adrenalgland15.95
Amygdala326.3
Appendix104.2
AtrioventricularNode20.6
BDCA4+_DentriticCells461.7
Bonemarrow19.65
BronchialEpithelialCells54.6
CD105+_Endothelial576.5
CD14+_Monocytes394.05
CD19+_BCells(neg._sel.)742.7
CD33+_Myeloid986.95
CD34+1011.1
CD4+_Tcells736.6
CD56+_NKCells851
CD71+_EarlyErythroid294.3
CD8+_Tcells917.4
CardiacMyocytes55.15
Caudatenucleus136.85
Cerebellum28.05
CerebellumPeduncles45.6
CiliaryGanglion27.4
CingulateCortex82.2
Colorectaladenocarcinoma398.4
DorsalRootGanglion31.3
FetalThyroid218.65
Fetalbrain341.65
Fetalliver119.55
Fetallung285.2
GlobusPallidus32.15
Heart18.2
Hypothalamus295
Kidney23.3
Leukemia_chronicMyelogenousK-562256.65
Leukemia_promyelocytic-HL-60272.65
Leukemialymphoblastic(MOLT-4)326.95
Liver22.1
Lung20.4
Lymphnode314.3
Lymphoma_burkitts(Daudi)242.35
Lymphoma_burkitts(Raji)852.3
MedullaOblongata116.5
OccipitalLobe119.8
OlfactoryBulb135.95
Ovary113.65
Pancreas148.65
PancreaticIslet246.5
ParietalLobe56.25
Pituitary325.35
Placenta53.65
Pons32.35
PrefrontalCortex514.65
Prostate146
Salivarygland174.4
SkeletalMuscle27.95
Skin31.2
SmoothMuscle25.25
Spinalcord190.85
SubthalamicNucleus39.95
SuperiorCervicalGanglion25.65
TemporalLobe34.9
Testis23.35
TestisGermCell131.7
TestisIntersitial47.25
TestisLeydigCell40.55
TestisSeminiferousTubule38.05
Thalamus91.25
Thymus98.75
Thyroid753.35
Tongue89.5
Tonsil125.5
Trachea106.75
TrigeminalGanglion30.55
Uterus594.8
UterusCorpus58.95
WholeBlood263.55
Wholebrain70
colon327.35
pineal_day522.22
pineal_night730.62
retina248.375
small_intestine239.15
Allen Brain Atlas Top
Human Whole Brain Microarrayview in Allen Brain Atlas
  • Probe id     Donor id      
  • Probe name: A_23_P109254
  • 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
Amygdala8.41 ± 0.19
Basal Forebrain8.5 ± 0.11
Basal Part of Pons8.66 ± 0.27
Cerebellar Cortex8.72 ± 0.12
Cerebellar Nuclei8.52 ± 0.22
Claustrum8.21 ± 0.21
Epithalamus8.81 ± 0.19
Frontal Lobe8.45 ± 0.22
Globus Pallidus8.76 ± 0.28
Hypothalamus8.5 ± 0.16
Insula8.52 ± 0.21
Limbic Lobe8.51 ± 0.27
Mesencephalon8.47 ± 0.28
Myelencephalon8.48 ± 0.24
Occipital Lobe8.75 ± 0.26
Parietal Lobe8.43 ± 0.25
Pontine Tegmentum8.47 ± 0.2
Striatum8.62 ± 0.27
Subthalamus8.44 ± 0.23
Temporal Lobe8.48 ± 0.17
Thalamus8.47 ± 0.2
White Matter9.36 ± 0.19
Mouse Brain ISH
Gene Symbol Brain Structure ID Brain Structure Name Express Desity/Level (Meatured by ISH) Express Bar
Rbm39CBCerebellum5.36
7.26
Rbm39CTXCerebral cortex1.49
1.08
Rbm39HIPHippocampal region2.2
2.07
Rbm39HPFHippocampal formation2.74
2.39
Rbm39HYHypothalamus0.16
0.18
Rbm39LSXLateral septal complex0.35
0.5
Rbm39MBMidbrain0.16
0.24
Rbm39MYMedulla1.44
1.7
Rbm39OLFOlfactory bulb1.46
0.89
Rbm39PPons0.16
0.2
Rbm39PALPallidum0.21
0.17
Rbm39RHPRetrohippocampal region3.73
2.88
Rbm39sAMYStriatum-like amygdalar nuclei0.88
0.62
Rbm39STRStriatum0.4
0.3
Rbm39STRdStriatum dorsal region0.26
0.2
Rbm39STRvStriatum ventral region0.58
0.32
Rbm39THThalamus0.59
0.69
Peptide Top
Peptide Name Peptide Lengh Peptide Start Peptide End Peptide Sequence Source
PAp00001280 17 478 494 CPSIAAAIAAVNALHGR Peptide Atlas
RBM39_HUMAN_2 15 2 16 ADDIDIEAMLEAPYK PRIDE
RBM39_HUMAN_2 30 2 31 ADDIDIEAMLEAPYKKDENKLSSANGHEER PRIDE
RBM39_HUMAN_252 16 252 267 LYVGSLHFNITEDMLR PRIDE
RBM39_HUMAN_320 10 320 329 PMKVGHVTER PRIDE
RBM39_HUMAN_330 17 330 346 TDASSASSFLDSDELER PRIDE

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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