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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 KIF21A

check button Gene summary
Gene informationGene symbol

KIF21A

Gene ID

55605

Gene namekinesin family member 21A
SynonymsCFEOM1|FEOM1|FEOM3A
Cytomap

12q12

Type of geneprotein-coding
Descriptionkinesin-like protein KIF21Akinesin-like protein KIF2renal carcinoma antigen NY-REN-62
Modification date20200313
UniProtAcc

A0A024R0V9,

A0A1B0GV47,

H0YHG9,

H0YHT2,

H0YI78,

H0YIM6,

H0YIM7,

Q7Z4S6,

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 KIF21A

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

ENSG00000139116
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.
Tissue typeDEG directionENSTTranscript info.Base mean exp.log2FC(AD/control)P-valueAdjc. p-value

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 KIF21A

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_103156chr1239315932:39315970:39318073:39318201:39319906:3932001339318073:39318201
exon_skip_113695chr1239311417:39311553:39315229:39315243:39315932:3931597039315229:39315243
exon_skip_126944chr1239309752:39309766:39311415:39311553:39319906:3932001339311415:39311553
exon_skip_139882chr1239342034:39342124:39346466:39346504:39351777:3935198039346466:39346504
exon_skip_140268chr1239319990:39320013:39321348:39322882:39325839:3932589339321348:39322882
exon_skip_144154chr1239326264:39326324:39330242:39330262:39330746:3933091139330242:39330262
exon_skip_145427chr1239311417:39311553:39319906:39320013:39322668:3932288239319906:39320013
exon_skip_185499chr1239358178:39358373:39363098:39363213:39366350:3936651739363098:39363213
exon_skip_187849chr1239294424:39294517:39301480:39301679:39302965:3930313539301480:39301679
exon_skip_194950chr1239333037:39333107:39333212:39333280:39337096:3933720339333212:39333280
exon_skip_203537chr1239325839:39325893:39326264:39326324:39330242:3933026239326264:39326324
exon_skip_212729chr1239311417:39311553:39315229:39315240:39315932:3931597039315229:39315240
exon_skip_215149chr1239309752:39309766:39311417:39311553:39319906:3932001339311417:39311553
exon_skip_221280chr1239311417:39311553:39318073:39318201:39319906:3932001339318073:39318201
exon_skip_260527chr1239319990:39320013:39322668:39322882:39325839:3932589339322668:39322882
exon_skip_31135chr1239311417:39311553:39315932:39315970:39319906:3932001339315932:39315970
exon_skip_38189chr1239357251:39357437:39358178:39358373:39363098:3936321339358178:39358373
exon_skip_4872chr1239315940:39315970:39318073:39318201:39319906:3932001339318073:39318201
exon_skip_5475chr1239342034:39342124:39351777:39351980:39356832:3935689539351777:39351980
exon_skip_57003chr1239307565:39307729:39309586:39309766:39311417:3931155339309586:39309766
exon_skip_6789chr1239315932:39315970:39319906:39320013:39322668:3932288239319906:39320013
exon_skip_73272chr1239340165:39340364:39340906:39341094:39341505:3934162239340906:39341094
exon_skip_81194chr1239326264:39326324:39330242:39330262:39330746:3933090239330242:39330262

check button Differentially expressed PSI values of individual exon skipping events in multiple brain tissues between AD and control.
psi tcga
Exon skipping informationTissue typeAvg(PSIs) in ADAvg(PSIs) in controlDifference (PSI)Adj. p-value
exon_skip_139882Mayo_CB2.800000e-013.815584e-01-1.015584e-013.499563e-08


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Open reading frame (ORF) annotation in the exon skipping event for KIF21A

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
ENST000003614183930148039301679Frame-shift
ENST000003614183932266839322882Frame-shift
ENST000003614183935817839358373Frame-shift
ENST000003614183936309839363213Frame-shift
ENST000003614183931522939315240In-frame
ENST000003614183931807339318201In-frame
ENST000003614183933024239330262In-frame
ENST000003614183933321239333280In-frame
ENST000003614183934090639341094In-frame
ENST000003614183934646639346504In-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
ENST000003614183930148039301679Frame-shift
ENST000003614183930958639309766Frame-shift
ENST000003614183936309839363213Frame-shift
ENST000003614183931522939315240In-frame
ENST000003614183931807339318201In-frame
ENST000003614183933024239330262In-frame
ENST000003614183933321239333280In-frame
ENST000003614183934646639346504In-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
ENST000003614183930148039301679Frame-shift
ENST000003614183930958639309766Frame-shift
ENST000003614183932266839322882Frame-shift
ENST000003614183932626439326324Frame-shift
ENST000003614183935817839358373Frame-shift
ENST000003614183936309839363213Frame-shift
ENST000003614183931522939315240In-frame
ENST000003614183931807339318201In-frame
ENST000003614183933024239330262In-frame
ENST000003614183933321239333280In-frame
ENST000003614183934646639346504In-frame

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Infer the effects of exon skipping event on protein functional features for KIF21A

p-ENSG00000139116_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
ENST0000036141850611674393464663934650416901727558570
ENST0000036141850611674393409063934109419382125640703
ENST0000036141850611674393332123933328024352502806828
ENST000003614185061167439318073393182013796392312601302

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
ENST0000036141850611674393464663934650416901727558570
ENST0000036141850611674393332123933328024352502806828
ENST000003614185061167439318073393182013796392312601302

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
ENST0000036141850611674393464663934650416901727558570
ENST0000036141850611674393332123933328024352502806828
ENST000003614185061167439318073393182013796392312601302

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
Q7Z4S6558570558570Alternative sequenceID=VSP_010870;Note=In isoform 2%2C isoform 5 and isoform 6. Missing;Ontology_term=ECO:0000303,ECO:0000303,ECO:0000303,ECO:0000303,ECO:0000303,ECO:0000303,ECO:0000303;evidence=ECO:0000303|PubMed:10508479,ECO:0000303|PubMed:11214970,ECO:0000303|PubMed:14702
Q7Z4S655857011674ChainID=PRO_0000125462;Note=Kinesin-like protein KIF21A
Q7Z4S6558570365575Coiled coilOntology_term=ECO:0000255;evidence=ECO:0000255
Q7Z4S664070311674ChainID=PRO_0000125462;Note=Kinesin-like protein KIF21A
Q7Z4S6640703653653Sequence conflictNote=E->D;Ontology_term=ECO:0000305;evidence=ECO:0000305
Q7Z4S6806828807829Alternative sequenceID=VSP_046790;Note=In isoform 6. Missing;Ontology_term=ECO:0000303;evidence=ECO:0000303|Ref.2
Q7Z4S680682811674ChainID=PRO_0000125462;Note=Kinesin-like protein KIF21A
Q7Z4S6806828813813Sequence conflictNote=E->G;Ontology_term=ECO:0000305;evidence=ECO:0000305
Q7Z4S6806828826826Sequence conflictNote=K->Q;Ontology_term=ECO:0000305;evidence=ECO:0000305
Q7Z4S61260130212601319Alternative sequenceID=VSP_010871;Note=In isoform 3. HSDSGTSEASLSPPSSPPSRPRNELNVFNRLTVSQGNTSVQQDKSDESDSSLSEVHRSSR->QSDESDSSLSEVH;Ontology_term=ECO:0000303;evidence=ECO:0000303|PubMed:17974005;Dbxref=PMID:17974005
Q7Z4S61260130211674ChainID=PRO_0000125462;Note=Kinesin-like protein KIF21A

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
Q7Z4S6558570558570Alternative sequenceID=VSP_010870;Note=In isoform 2%2C isoform 5 and isoform 6. Missing;Ontology_term=ECO:0000303,ECO:0000303,ECO:0000303,ECO:0000303,ECO:0000303,ECO:0000303,ECO:0000303;evidence=ECO:0000303|PubMed:10508479,ECO:0000303|PubMed:11214970,ECO:0000303|PubMed:14702
Q7Z4S655857011674ChainID=PRO_0000125462;Note=Kinesin-like protein KIF21A
Q7Z4S6558570365575Coiled coilOntology_term=ECO:0000255;evidence=ECO:0000255
Q7Z4S6806828807829Alternative sequenceID=VSP_046790;Note=In isoform 6. Missing;Ontology_term=ECO:0000303;evidence=ECO:0000303|Ref.2
Q7Z4S680682811674ChainID=PRO_0000125462;Note=Kinesin-like protein KIF21A
Q7Z4S6806828813813Sequence conflictNote=E->G;Ontology_term=ECO:0000305;evidence=ECO:0000305
Q7Z4S6806828826826Sequence conflictNote=K->Q;Ontology_term=ECO:0000305;evidence=ECO:0000305
Q7Z4S61260130212601319Alternative sequenceID=VSP_010871;Note=In isoform 3. HSDSGTSEASLSPPSSPPSRPRNELNVFNRLTVSQGNTSVQQDKSDESDSSLSEVHRSSR->QSDESDSSLSEVH;Ontology_term=ECO:0000303;evidence=ECO:0000303|PubMed:17974005;Dbxref=PMID:17974005
Q7Z4S61260130211674ChainID=PRO_0000125462;Note=Kinesin-like protein KIF21A

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
Q7Z4S6558570558570Alternative sequenceID=VSP_010870;Note=In isoform 2%2C isoform 5 and isoform 6. Missing;Ontology_term=ECO:0000303,ECO:0000303,ECO:0000303,ECO:0000303,ECO:0000303,ECO:0000303,ECO:0000303;evidence=ECO:0000303|PubMed:10508479,ECO:0000303|PubMed:11214970,ECO:0000303|PubMed:14702
Q7Z4S655857011674ChainID=PRO_0000125462;Note=Kinesin-like protein KIF21A
Q7Z4S6558570365575Coiled coilOntology_term=ECO:0000255;evidence=ECO:0000255
Q7Z4S6806828807829Alternative sequenceID=VSP_046790;Note=In isoform 6. Missing;Ontology_term=ECO:0000303;evidence=ECO:0000303|Ref.2
Q7Z4S680682811674ChainID=PRO_0000125462;Note=Kinesin-like protein KIF21A
Q7Z4S6806828813813Sequence conflictNote=E->G;Ontology_term=ECO:0000305;evidence=ECO:0000305
Q7Z4S6806828826826Sequence conflictNote=K->Q;Ontology_term=ECO:0000305;evidence=ECO:0000305
Q7Z4S61260130212601319Alternative sequenceID=VSP_010871;Note=In isoform 3. HSDSGTSEASLSPPSSPPSRPRNELNVFNRLTVSQGNTSVQQDKSDESDSSLSEVHRSSR->QSDESDSSLSEVH;Ontology_term=ECO:0000303;evidence=ECO:0000303|PubMed:17974005;Dbxref=PMID:17974005
Q7Z4S61260130211674ChainID=PRO_0000125462;Note=Kinesin-like protein KIF21A


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3'-UTR located exon skipping events that lost miRNA binding sites in KIF21A

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 KIF21A

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 KIF21A

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
ADstageMSBBIFGexon_skip_144154-5.445931e-012.732713e-03chr12-393262643932632439330242393302623933074639330911
ADstageMSBBIFGexon_skip_103156-3.968781e-013.651986e-02chr12-393159323931597039318073393182013931990639320013
CDRMSBBIFGexon_skip_144154-5.980426e-017.761730e-04chr12-393262643932632439330242393302623933074639330911
CDRMSBBIFGexon_skip_103156-4.201371e-012.601713e-02chr12-393159323931597039318073393182013931990639320013

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Splicing Quantitative Trait Loci (sQTL) in the exon skipping event for KIF21A

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 KIF21A

check button Correlated RBP and related information.
Tissue typeRBP nameExon skip IDCorrelation coeifficientP-value
CBTIA1exon_skip_2212804.136695e-011.733597e-07
CBPCBP4exon_skip_2212804.430688e-011.708943e-08
CBTIA1exon_skip_48725.329000e-011.580784e-12
CBPCBP4exon_skip_48724.490524e-016.528121e-09
CBRALYLexon_skip_48724.936095e-011.036384e-10
CBSRSF9exon_skip_48724.614175e-012.193184e-09
CBPABPN1exon_skip_139882-4.322536e-011.273700e-08
CBCNOT4exon_skip_139882-4.481256e-013.157742e-09
DLPFCG3BP2exon_skip_1031566.570889e-014.364367e-38
DLPFCCPEB1exon_skip_1031565.893081e-013.676537e-29
DLPFCG3BP2exon_skip_2212805.957926e-016.964046e-31
DLPFCCPEB1exon_skip_2212804.962946e-011.704173e-20
FLG3BP2exon_skip_2212805.337054e-011.114617e-13
FLRALYLexon_skip_2212804.146061e-012.541391e-08
FLG3BP2exon_skip_1031564.951434e-012.148012e-13
FLKHDRBS3exon_skip_1031564.267776e-015.460290e-10
FLRALYLexon_skip_1031564.141731e-011.933873e-09
FLMSI1exon_skip_144154-4.154694e-011.544404e-09
HCCSFPQexon_skip_221280-4.386434e-013.592385e-14
HCCRBM6exon_skip_221280-4.766054e-018.949809e-17
HCCSFPQexon_skip_103156-4.406776e-013.689325e-14
HCCRBM6exon_skip_103156-5.353295e-012.828991e-21
HCCTIA1exon_skip_103156-4.485743e-011.132237e-14
HCCTRNAU1APexon_skip_103156-4.434806e-012.434250e-14
HCCPCBP4exon_skip_103156-4.937519e-017.080478e-18
HCCKHDRBS3exon_skip_103156-4.885016e-011.766631e-17
HCCDAZAP1exon_skip_144154-4.227756e-013.218413e-13
HCCMSI1exon_skip_144154-5.239969e-011.388599e-20
IFGG3BP2exon_skip_2212805.033004e-016.330599e-03
IFGKHDRBS3exon_skip_2212804.642891e-011.281257e-02
IFGRBM24exon_skip_2212804.041239e-013.293655e-02
IFGRALYLexon_skip_2212804.708826e-011.143623e-02
IFGPTBP3exon_skip_2212804.209398e-012.570412e-02
IFGIGF2BP2exon_skip_103156-5.506357e-012.394862e-03
IFGPCBP4exon_skip_103156-4.425858e-011.835141e-02
IFGG3BP2exon_skip_1031565.344589e-013.391362e-03
IFGKHDRBS3exon_skip_1031565.748940e-011.374287e-03
IFGRALYLexon_skip_1031564.568894e-011.451861e-02
IFGMSI1exon_skip_144154-5.201056e-014.553831e-03
IFGTRA2Aexon_skip_1398824.040088e-013.299115e-02
PCCRBM6exon_skip_221280-4.597492e-012.511281e-12
PCCG3BP2exon_skip_2212807.017288e-012.597597e-32
PCCRALYLexon_skip_2212804.487070e-019.509437e-12
PCCCPEB1exon_skip_2212804.971569e-011.902168e-14
PCCSFPQexon_skip_4872-4.034614e-011.994008e-09
PCCRBM6exon_skip_4872-5.485372e-011.678166e-17
PCCTRNAU1APexon_skip_4872-4.064499e-011.475935e-09
PCCPCBP4exon_skip_4872-4.773949e-014.575148e-13
PCCG3BP2exon_skip_48726.110068e-012.278352e-22
PCCCPEB1exon_skip_48724.662043e-011.858087e-12
PGG3BP2exon_skip_2212805.361801e-014.586659e-13
PGKHDRBS3exon_skip_2212804.023692e-011.751980e-07
PGRALYLexon_skip_2212804.611967e-011.211302e-09
PGPCBP1exon_skip_1031564.636694e-015.564538e-11
PGG3BP2exon_skip_1031565.570226e-014.647749e-16
PGKHDRBS3exon_skip_1031564.488205e-012.632282e-10
PGRALYLexon_skip_1031565.127024e-011.868462e-13
PGCPEB1exon_skip_1031564.493804e-012.485829e-10
STGG3BP2exon_skip_1031564.447191e-012.529992e-05
STGRALYLexon_skip_1031564.399068e-013.165621e-05
STGMSI1exon_skip_144154-5.043332e-015.447802e-07
TCRBM25exon_skip_2127294.747540e-013.345381e-10
TCCNOT4exon_skip_2127295.242222e-011.839088e-12
TCILF2exon_skip_2127296.080191e-013.041977e-17
TCSRSF9exon_skip_2127294.790934e-012.189578e-10
TCRBM25exon_skip_1136954.699463e-014.676118e-10
TCCNOT4exon_skip_1136955.217593e-012.068050e-12
TCILF2exon_skip_1136956.121099e-011.286582e-17
TCSRSF9exon_skip_1136954.895954e-016.655621e-11
TCNOVA1exon_skip_1136956.464424e-014.580635e-20
TCRBM6exon_skip_221280-4.985500e-015.447406e-11
TCHNRNPKexon_skip_2212804.729811e-016.672662e-10
TCG3BP2exon_skip_2212806.780570e-016.129307e-22
TCKHDRBS3exon_skip_2212806.042839e-011.339340e-16
TCRBM24exon_skip_2212805.943128e-015.564284e-16
TCRALYLexon_skip_2212806.872673e-011.022020e-22
TCPTBP3exon_skip_2212804.468618e-017.031058e-09
TCCELF1exon_skip_2212804.680181e-011.060007e-09
TCCPEB1exon_skip_2212805.535528e-011.161780e-13
TCNOVA1exon_skip_2212805.832684e-012.547137e-15
TCCNOT4exon_skip_48725.149868e-013.784293e-12
TCPCBP1exon_skip_48724.527840e-012.068397e-09
TCHNRNPKexon_skip_48725.275319e-019.030470e-13
TCG3BP2exon_skip_48728.324582e-014.203210e-42
TCKHDRBS3exon_skip_48728.116542e-011.719815e-38
TCRBM24exon_skip_48727.814636e-015.588194e-34
TCKHSRPexon_skip_48724.460889e-013.791817e-09
TCRALYLexon_skip_48728.703564e-013.628702e-50
TCPTBP3exon_skip_48726.095183e-011.513881e-17
TCHNRNPLexon_skip_48724.357124e-019.456142e-09
TCCELF1exon_skip_48726.882940e-011.191824e-23
TCRBM23exon_skip_48724.001660e-011.730918e-07
TCCPEB1exon_skip_48726.600237e-013.005805e-21
TCSRSF9exon_skip_48725.316150e-015.592447e-13
TCSRSF5exon_skip_48724.392300e-016.960937e-09
TCNOVA1exon_skip_48726.203015e-012.790325e-18
TCHNRNPA0exon_skip_1441544.771115e-011.788551e-10

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RelatedDrugs for KIF21A

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 KIF21A

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