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Center for Computational Systems Medicine
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Gene summary

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Gene structures and expression levels

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Exon skipping events with PSIs in RPSMAP, MSBB, and Mayo

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Open reading frame (ORF) annotation in the exon skipping event

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Exon skipping events in the canonical protein sequence

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3'-UTR located exon skipping events lost miRNA binding sites

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SNVs in the skipped exons with depth of coverage

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AD stage-associated exon skipping events

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Splicing Quantitative Trait Loci (sQTLs) in the skipped exons

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Correlation with RNA binding proteins (RBPs)

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Related drugs with this gene

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Related diseases with this gene

Gene summary for TMPO

check button Gene summary
Gene informationGene symbol

TMPO

Gene ID

7112

Gene namethymopoietin
SynonymsCMD1T|LAP2|LEMD4|PRO0868|TP
Cytomap

12q23.1

Type of geneprotein-coding
DescriptionthymopoietinLEM domain containing 4lamina-associated polypeptide 2
Modification date20200313
UniProtAcc

A0A024RBE7,

A0A024RBH7,

G5E972,

H0YJH7,

P42166,

P42167,

Context

check button Gene ontology of each this gene with evidence of Inferred from Direct Assay (IDA) from Entrez
GeneGO IDGO termPubMed ID

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Gene structures and expression levels for TMPO

check buttonSkipped exons in the ROSMAP, MSBB, and Mayo based on Ensembl gene isoform structure.
* Click on the image to open the UCSC genome browser with custom track showing this image in a new window.
all structure

ENSG00000120802
check button Differentially expressed gene analysis across multiple brain tissues between AD and control.
Tissue typeDEG directionBase mean exp.log2FC(AD/control)P-valueAdj. p-value

check button Differentially expressed isoform analysis across multiple brain tissues between AD and control.
gencode gene structure
Tissue typeDEG directionENSTTranscript info.Base mean exp.log2FC(AD/control)P-valueAdjc. p-value
CBUPENST00000547214.1TMPO-206:lncRNA:TMPO6.150815e+009.918561e-016.318758e-071.015537e-05
CBUPENST00000261210.9TMPO-201:protein_coding:TMPO1.086065e+018.227989e-011.183257e-061.729133e-05
CBUPENST00000393053.6TMPO-204:protein_coding:TMPO3.380955e+028.116798e-013.120044e-052.756224e-04
TCUPENST00000556678.1TMPO-213:protein_coding:TMPO6.091347e+001.349929e+004.635421e-131.880914e-10

check button Landscape of isoform expressions across multiple brain tissues between AD and control.
gencode gene structure

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Exon skipping events with PSIs in ROSMAP, MSBB, and Mayo for TMPO

check button Landscape of individual exon skipping event across AD tissues and controls (PSI heatmap).
boxplot

check button All exon skipping events in AD cohorts.
Exon skip IDchrExons involved in exon skippingSkipped exon
exon_skip_121559chr1298527886:98528012:98531680:98531838:98537475:9853757298531680:98531838
exon_skip_135879chr1298515971:98516146:98527886:98528012:98531680:9853177998527886:98528012
exon_skip_153124chr1298544951:98545061:98546359:98546447:98547573:9854770198546359:98546447
exon_skip_161749chr1298537531:98537572:98544230:98544349:98544442:9854453798544230:98544349
exon_skip_188008chr1298531680:98531838:98537475:98537572:98546359:9854644798537475:98537572
exon_skip_203529chr1298537531:98537572:98544951:98545061:98546359:9854644798544951:98545061
exon_skip_253485chr1298537475:98537572:98544951:98545061:98546359:9854644798544951:98545061
exon_skip_256621chr1298544442:98544537:98544951:98545061:98546359:9854644798544951:98545061
exon_skip_30225chr1298537475:98537572:98544230:98544349:98544442:9854453798544230:98544349
exon_skip_36450chr1298537475:98537572:98544442:98544537:98544951:9854506198544442:98544537
exon_skip_43911chr1298537475:98537572:98546359:98546447:98547573:9854770198546359:98546447
exon_skip_47738chr1298537531:98537572:98544442:98544537:98544951:9854506198544442:98544537

check button Differentially expressed PSI values of individual exon skipping events in multiple brain tissues between AD and control.
Exon skipping informationTissue typeAvg(PSIs) in ADAvg(PSIs) in controlDifference (PSI)Adj. p-value


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Open reading frame (ORF) annotation in the exon skipping event for TMPO

check button Open reading frame (ORF) of individual exon skipping events in ROSMAP based on the Ensembl gene structure combined from isoforms.
ENSTStart of skipped exonEnd of skipped exonORF
ENST000005560299854423098544349In-frame
ENST000005560299854495198545061In-frame

check button Open reading frame (ORF) of individual exon skipping events in MSBB based on the Ensembl gene structure combined from isoforms.
ENSTStart of skipped exonEnd of skipped exonORF
ENST000005560299854423098544349In-frame

check button Open reading frame (ORF) of individual exon skipping events in Mayo based on the Ensembl gene structure combined from isoforms.
ENSTStart of skipped exonEnd of skipped exonORF
ENST000002667329852788698528012Frame-shift
ENST000005560299854635998546447Frame-shift
ENST000005560299853168098531838In-frame
ENST000005560299854423098544349In-frame

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Infer the effects of exon skipping event on protein functional features for TMPO

p-ENSG00000120802_img4.png
boxplot

check button Loci of skipped exons in ROSMAP across genomic, transcript, and protein sequence levels of In-frame cases.
ENSTLength of mRNALength of AA seq.Genomic startGenomic endmRNA startmRNA endAA startAA end
ENST000005560294259454985442309854434910211139221261
ENST000005560294259454985449519854506112371346293330

check button Loci of skipped exons in MSBB across genomic, transcript, and protein sequence levels of In-frame cases.
ENSTLength of mRNALength of AA seq.Genomic startGenomic endmRNA startmRNA endAA startAA end
ENST000005560294259454985442309854434910211139221261

check button Loci of skipped exons in Mayo across genomic, transcript, and protein sequence levels of In-frame cases.
ENSTLength of mRNALength of AA seq.Genomic startGenomic endmRNA startmRNA endAA startAA end
ENST0000055602942594549853168098531838764921136188
ENST000005560294259454985442309854434910211139221261

check button Lost protein functional features of individual exon skipping events in ROSMAP.
UniProt acc.Start of exon skipping (AA)End of exon skipping (AA)Protein feature start (AA)Protein feature end (AA)Category of protein featureDescription of feature
P42167221261222330Alternative sequenceID=VSP_004456;Note=In isoform Gamma. Missing;Ontology_term=ECO:0000303,ECO:0000303;evidence=ECO:0000303|PubMed:7517549,ECO:0000303|Ref.3;Dbxref=PMID:7517549
P42167221261222248Alternative sequenceID=VSP_056162;Note=In isoform Zeta. SYSQAGITETEWTSGSSKGGPLQALTR->VSLVLLPPCTGINNLLTTLIHVLAFNG;Ontology_term=ECO:0000303;evidence=ECO:0000303|PubMed:18403046;Dbxref=PMID:18403046
P42167221261249454Alternative sequenceID=VSP_056163;Note=In isoform Zeta. Missing;Ontology_term=ECO:0000303;evidence=ECO:0000303|PubMed:18403046;Dbxref=PMID:18403046
P421672212611454ChainID=PRO_0000045841;Note=Lamina-associated polypeptide 2%2C isoforms beta/gamma
P42167221261222222Modified residueNote=Phosphoserine;Ontology_term=ECO:0000244;evidence=ECO:0000244|PubMed:23186163;Dbxref=PMID:23186163
P42167221261224224Modified residueNote=Phosphoserine;Ontology_term=ECO:0000244;evidence=ECO:0000244|PubMed:23186163;Dbxref=PMID:23186163
P42167221261250250Modified residueNote=Phosphoserine;Ontology_term=ECO:0000244;evidence=ECO:0000244|PubMed:23186163;Dbxref=PMID:23186163
P42167221261254254Modified residueNote=Phosphoserine;Ontology_term=ECO:0000244;evidence=ECO:0000244|PubMed:23186163;Dbxref=PMID:23186163
P421672212611410RegionNote=Nucleoplasmic;Ontology_term=ECO:0000255;evidence=ECO:0000255
P42167221261138243RegionNote=NAKAP95-binding N
P42167293330222330Alternative sequenceID=VSP_004456;Note=In isoform Gamma. Missing;Ontology_term=ECO:0000303,ECO:0000303;evidence=ECO:0000303|PubMed:7517549,ECO:0000303|Ref.3;Dbxref=PMID:7517549
P42167293330249454Alternative sequenceID=VSP_056163;Note=In isoform Zeta. Missing;Ontology_term=ECO:0000303;evidence=ECO:0000303|PubMed:18403046;Dbxref=PMID:18403046
P421672933301454ChainID=PRO_0000045841;Note=Lamina-associated polypeptide 2%2C isoforms beta/gamma
P42167293330306306Modified residueNote=Phosphoserine;Ontology_term=ECO:0000244,ECO:0000244,ECO:0000244,ECO:0000244,ECO:0000244,ECO:0000244,ECO:0000244,ECO:0000244,ECO:0000244,ECO:0000244;evidence=ECO:0000244|PubMed:17081983,ECO:0000244|PubMed:17693683,ECO:0000244|PubMed:17924679,ECO:00002
P42167293330312312Modified residueNote=Phosphothreonine;Ontology_term=ECO:0000244;evidence=ECO:0000244|PubMed:20068231;Dbxref=PMID:20068231
P42167293330315315Modified residueNote=Phosphoserine;Ontology_term=ECO:0000244,ECO:0000244,ECO:0000244,ECO:0000244;evidence=ECO:0000244|PubMed:18220336,ECO:0000244|PubMed:18669648,ECO:0000244|PubMed:20068231,ECO:0000244|PubMed:23186163;Dbxref=PMID:18220336,PMID:18669648,PMID:20068231,PMID
P42167293330320320Modified residueNote=Citrulline;Ontology_term=ECO:0000250;evidence=ECO:0000250
P421672933301410RegionNote=Nucleoplasmic;Ontology_term=ECO:0000255;evidence=ECO:0000255
P42167293330299371RegionNote=Binds lamins B
P42167293330300374RegionNote=NAKAP95-binding C

check button Lost protein functional features of individual exon skipping events in MSBB.
UniProt acc.Start of exon skipping (AA)End of exon skipping (AA)Protein feature start (AA)Protein feature end (AA)Category of protein featureDescription of feature
P42167221261222330Alternative sequenceID=VSP_004456;Note=In isoform Gamma. Missing;Ontology_term=ECO:0000303,ECO:0000303;evidence=ECO:0000303|PubMed:7517549,ECO:0000303|Ref.3;Dbxref=PMID:7517549
P42167221261222248Alternative sequenceID=VSP_056162;Note=In isoform Zeta. SYSQAGITETEWTSGSSKGGPLQALTR->VSLVLLPPCTGINNLLTTLIHVLAFNG;Ontology_term=ECO:0000303;evidence=ECO:0000303|PubMed:18403046;Dbxref=PMID:18403046
P42167221261249454Alternative sequenceID=VSP_056163;Note=In isoform Zeta. Missing;Ontology_term=ECO:0000303;evidence=ECO:0000303|PubMed:18403046;Dbxref=PMID:18403046
P421672212611454ChainID=PRO_0000045841;Note=Lamina-associated polypeptide 2%2C isoforms beta/gamma
P42167221261222222Modified residueNote=Phosphoserine;Ontology_term=ECO:0000244;evidence=ECO:0000244|PubMed:23186163;Dbxref=PMID:23186163
P42167221261224224Modified residueNote=Phosphoserine;Ontology_term=ECO:0000244;evidence=ECO:0000244|PubMed:23186163;Dbxref=PMID:23186163
P42167221261250250Modified residueNote=Phosphoserine;Ontology_term=ECO:0000244;evidence=ECO:0000244|PubMed:23186163;Dbxref=PMID:23186163
P42167221261254254Modified residueNote=Phosphoserine;Ontology_term=ECO:0000244;evidence=ECO:0000244|PubMed:23186163;Dbxref=PMID:23186163
P421672212611410RegionNote=Nucleoplasmic;Ontology_term=ECO:0000255;evidence=ECO:0000255
P42167221261138243RegionNote=NAKAP95-binding N

check button Lost protein functional features of individual exon skipping events in Mayo.
UniProt acc.Start of exon skipping (AA)End of exon skipping (AA)Protein feature start (AA)Protein feature end (AA)Category of protein featureDescription of feature
P421671361881454ChainID=PRO_0000045841;Note=Lamina-associated polypeptide 2%2C isoforms beta/gamma
P42167136188109153DomainNote=LEM;Ontology_term=ECO:0000255;evidence=ECO:0000255|PROSITE-ProRule:PRU00313
P42167136188154154Modified residueNote=Phosphothreonine;Ontology_term=ECO:0000244;evidence=ECO:0000244|PubMed:19690332;Dbxref=PMID:19690332
P42167136188156156Modified residueNote=Phosphoserine;Ontology_term=ECO:0000244,ECO:0000244;evidence=ECO:0000244|PubMed:20068231,ECO:0000244|PubMed:23186163;Dbxref=PMID:20068231,PMID:23186163
P42167136188159159Modified residueNote=Phosphoserine;Ontology_term=ECO:0000250;evidence=ECO:0000250|UniProtKB:Q61029
P42167136188160160Modified residueNote=Phosphothreonine;Ontology_term=ECO:0000244,ECO:0000244,ECO:0000244,ECO:0000244,ECO:0000244;evidence=ECO:0000244|PubMed:18669648,ECO:0000244|PubMed:19690332,ECO:0000244|PubMed:20068231,ECO:0000244|PubMed:23186163,ECO:0000244|PubMed:24275569;Dbxref=PMI
P42167136188164164Modified residueNote=Phosphothreonine;Ontology_term=ECO:0000244,ECO:0000244;evidence=ECO:0000244|PubMed:18669648,ECO:0000244|PubMed:23186163;Dbxref=PMID:18669648,PMID:23186163
P42167136188166166Modified residueNote=Phosphoserine;Ontology_term=ECO:0000250;evidence=ECO:0000250|UniProtKB:Q61029
P42167136188168168Modified residueNote=Phosphoserine;Ontology_term=ECO:0000244;evidence=ECO:0000244|PubMed:23186163;Dbxref=PMID:23186163
P42167136188177177Modified residueNote=Phosphoserine;Ontology_term=ECO:0000244;evidence=ECO:0000244|PubMed:18669648;Dbxref=PMID:18669648
P42167136188180180Modified residueNote=Phosphoserine;Ontology_term=ECO:0000244,ECO:0000244;evidence=ECO:0000244|PubMed:18669648,ECO:0000244|PubMed:23186163;Dbxref=PMID:18669648,PMID:23186163
P42167136188184184Modified residueNote=Phosphoserine;Ontology_term=ECO:0000244;evidence=ECO:0000244|PubMed:23186163;Dbxref=PMID:23186163
P421671361881410RegionNote=Nucleoplasmic;Ontology_term=ECO:0000255;evidence=ECO:0000255
P42167136188138243RegionNote=NAKAP95-binding N
P42167221261222330Alternative sequenceID=VSP_004456;Note=In isoform Gamma. Missing;Ontology_term=ECO:0000303,ECO:0000303;evidence=ECO:0000303|PubMed:7517549,ECO:0000303|Ref.3;Dbxref=PMID:7517549
P42167221261222248Alternative sequenceID=VSP_056162;Note=In isoform Zeta. SYSQAGITETEWTSGSSKGGPLQALTR->VSLVLLPPCTGINNLLTTLIHVLAFNG;Ontology_term=ECO:0000303;evidence=ECO:0000303|PubMed:18403046;Dbxref=PMID:18403046
P42167221261249454Alternative sequenceID=VSP_056163;Note=In isoform Zeta. Missing;Ontology_term=ECO:0000303;evidence=ECO:0000303|PubMed:18403046;Dbxref=PMID:18403046
P421672212611454ChainID=PRO_0000045841;Note=Lamina-associated polypeptide 2%2C isoforms beta/gamma
P42167221261222222Modified residueNote=Phosphoserine;Ontology_term=ECO:0000244;evidence=ECO:0000244|PubMed:23186163;Dbxref=PMID:23186163
P42167221261224224Modified residueNote=Phosphoserine;Ontology_term=ECO:0000244;evidence=ECO:0000244|PubMed:23186163;Dbxref=PMID:23186163
P42167221261250250Modified residueNote=Phosphoserine;Ontology_term=ECO:0000244;evidence=ECO:0000244|PubMed:23186163;Dbxref=PMID:23186163
P42167221261254254Modified residueNote=Phosphoserine;Ontology_term=ECO:0000244;evidence=ECO:0000244|PubMed:23186163;Dbxref=PMID:23186163
P421672212611410RegionNote=Nucleoplasmic;Ontology_term=ECO:0000255;evidence=ECO:0000255
P42167221261138243RegionNote=NAKAP95-binding N


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3'-UTR located exon skipping events that lost miRNA binding sites in TMPO

check button 3'-UTR exon skipping evnets lost miRNA binding.
Tissue typeENSTExon skip startExon skip endmicroRNABinding site by TargetScanBinding type by TargetScanBdinding site by miRandaScore of miRandaEnergy by miRanda

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SNVs in the skipped exons for TMPO

check button - Differential PSIs between mutated versus non-mutated samples.

check button - Depth of Coverage in the skipped exon of the mutated samples.

check button - Sashimi plot in the skipped exon of the mutated samples.

check button - Non-synonymous mutations located in the skipped exons.
Cancer typeSampleESIDSkipped exon startSkipped exon endMutation startMutation endMutation typeReference seqMutation seqAAchange

check button - Non-synonymous mutations located in the skipped exons in CCLE.
SampleSkipped exon startSkipped exon endMutation startMutation endMutation typeReference seqMutation seqAAchange

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AD stage-associated exon skippint events for TMPO

check button Associated exon skipping events with Braak staging or Clinical Dementia Rating (CDR).
AD stage infoCohortTissueSE idCoefficient P-valueChromosomeStrandE1 startE1 endSkipped startSkipped endE2 startE2 end

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Splicing Quantitative Trait Loci (sQTL) in the exon skipping event for TMPO

check button sQTL information located at the skipped exons.
Tissue typeExon skip IDSNP idLocationP-valueFDR

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Correlation with RNA binding proteins (RBPs) for TMPO

check button Correlated RBP and related information.
Tissue typeRBP nameExon skip IDCorrelation coeifficientP-value
CBZNF638exon_skip_279690-5.957807e-018.821728e-16
CBU2AF2exon_skip_279690-4.141885e-011.372419e-07
CBRBM3exon_skip_2796904.746278e-018.459316e-10
CBTRA2Aexon_skip_279690-5.028946e-015.449098e-11
CBFUBP1exon_skip_279690-4.071916e-012.325698e-07
IFGRBFOX2exon_skip_253485-5.248274e-014.944139e-03
IFGHNRNPA0exon_skip_253485-4.528778e-011.768573e-02
IFGNUP42exon_skip_253485-4.188017e-012.968624e-02
PCCHNRNPFexon_skip_2534854.420055e-015.069195e-11

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RelatedDrugs for TMPO

check button Approved drugs targeting this gene.
(DrugBank Version 5.1.0 2018-04-02)
UniProtAccDrugBank IDDrug nameDrug activityDrug typeDrug status

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RelatedDiseases for TMPO

check button Diseases associated with this gene.
(DisGeNet 4.0)
GeneDisease IDDisease name# pubmedsSource