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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 FAM153A

check button Gene summary
Gene informationGene symbol

FAM153A

Gene ID

285596

Gene namefamily with sequence similarity 153 member A
SynonymsNY-REN-7
Cytomap

5q35.3

Type of geneprotein-coding
Descriptionprotein FAM153ANY REN 7 antigenrenal carcinoma antigen NY-REN-7
Modification date20200313
UniProtAcc

A0A087WYN1,

A8MWQ6,

D6RCD4,

D6REE0,

D6REX6,

D6RF32,

D6RF64,

D6RIF1,

Q9UHL3,

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 FAM153A

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

ENSG00000170074
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
TCDOWNENST00000506354.1FAM153A-213:retained_intron:FAM153A9.815376e-01-9.864325e-017.157096e-034.375951e-02

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 FAM153A

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_101419chr5177724784:177724821:177729023:177729053:177732030:177732100177729023:177729053
exon_skip_105385chr5177713748:177713916:177714054:177714177:177716345:177716363177714054:177714177
exon_skip_108243chr5177739113:177739137:177739600:177739670:177740777:177740801177739600:177739670
exon_skip_111344chr5177748641:177748699:177750909:177751052:177753176:177753275177750909:177751052
exon_skip_113364chr5177763317:177763510:177767150:177767180:177780449:177780504177767150:177767180
exon_skip_113747chr5177748641:177748699:177763317:177763510:177780449:177780465177763317:177763510
exon_skip_113796chr5177722336:177722569:177724101:177724206:177724295:177724362177724101:177724206
exon_skip_174849chr5177734380:177734404:177734863:177734933:177736579:177736609177734863:177734933
exon_skip_17503chr5177713748:177713916:177714069:177714177:177716345:177716363177714069:177714177
exon_skip_188641chr5177722424:177722569:177724101:177724206:177724295:177724362177724101:177724206
exon_skip_195930chr5177713748:177713916:177716345:177716415:177717163:177717252177716345:177716415
exon_skip_20412chr5177748641:177748699:177763317:177763510:177780449:177780504177763317:177763510
exon_skip_212950chr5177717163:177717296:177718147:177718333:177718449:177718563177718147:177718333
exon_skip_236570chr5177748641:177748699:177750959:177751052:177753176:177753263177750959:177751052
exon_skip_243826chr5177713748:177713916:177714054:177714177:177716345:177716415177714054:177714177
exon_skip_261587chr5177748641:177748699:177780449:177780504:177782743:177782813177780449:177780504
exon_skip_262740chr5177731574:177731599:177732030:177732100:177734380:177734404177732030:177732100
exon_skip_292921chr5177724784:177724821:177731569:177731599:177732030:177732100177731569:177731599
exon_skip_38407chr5177724784:177724821:177729023:177729053:177729485:177729555177729023:177729053
exon_skip_41441chr5177713748:177713916:177714069:177714177:177716345:177716415177714069:177714177
exon_skip_49617chr5177748641:177748699:177763317:177763510:177767150:177767180177763317:177763510
exon_skip_74474chr5177717163:177717296:177718147:177718333:177718449:177718603177718147:177718333
exon_skip_79391chr5177763317:177763510:177767150:177767180:177780449:177780465177767150:177767180
exon_skip_8107chr5177716345:177716415:177717163:177717296:177718147:177718227177717163:177717296
exon_skip_83350chr5177763317:177763510:177780449:177780504:177783284:177783364177780449:177780504
exon_skip_85621chr5177717163:177717296:177718147:177718333:177718449:177718533177718147:177718333
exon_skip_88260chr5177737048:177737112:177739113:177739137:177739600:177739670177739113:177739137
exon_skip_95377chr5177724159:177724206:177724295:177724362:177724784:177724821177724295:177724362

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 FAM153A

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
ENST000005102761777633171777635103UTR-3UTR
ENST000005102761777804491777805043UTR-3UTR
ENST000005102761777241011777242065CDS-5UTR
ENST00000440605177724295177724362Frame-shift
ENST00000510276177724295177724362Frame-shift
ENST00000440605177732030177732100Frame-shift
ENST00000510276177732030177732100Frame-shift
ENST00000440605177734863177734933Frame-shift
ENST00000510276177734863177734933Frame-shift
ENST00000440605177739600177739670Frame-shift
ENST00000510276177739600177739670Frame-shift

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
ENST000005102761777633171777635103UTR-3UTR
ENST000005102761777241011777242065CDS-5UTR
ENST00000440605177724295177724362Frame-shift
ENST00000510276177724295177724362Frame-shift
ENST00000440605177729023177729053Frame-shift
ENST00000510276177729023177729053Frame-shift
ENST00000440605177732030177732100Frame-shift
ENST00000510276177732030177732100Frame-shift
ENST00000440605177739113177739137Frame-shift
ENST00000510276177739113177739137Frame-shift

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
ENST000005102761777633171777635103UTR-3UTR
ENST000005102761777241011777242065CDS-5UTR
ENST00000440605177724295177724362Frame-shift
ENST00000510276177724295177724362Frame-shift
ENST00000440605177732030177732100Frame-shift
ENST00000510276177732030177732100Frame-shift
ENST00000440605177734863177734933Frame-shift
ENST00000510276177734863177734933Frame-shift
ENST00000440605177739600177739670Frame-shift
ENST00000510276177739600177739670Frame-shift

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Infer the effects of exon skipping event on protein functional features for FAM153A

p-ENSG00000170074_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

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

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

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

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

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


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3'-UTR located exon skipping events that lost miRNA binding sites in FAM153A

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
MayoENST00000510276177763317177763510hsa-miR-215-3pchr5:177763424-1777634318mer-1achr5:177763403-177763437151.00-32.08
MayoENST00000510276177763317177763510hsa-miR-6072chr5:177763383-1777633908mer-1achr5:177763382-177763405147.00-24.27
MayoENST00000510276177763317177763510hsa-miR-3922-5pchr5:177763377-1777633848mer-1achr5:177763362-177763384150.00-23.18
MayoENST00000510276177763317177763510hsa-miR-27a-3pchr5:177763461-1777634688mer-1achr5:177763451-177763472176.00-24.42
MayoENST00000510276177763317177763510hsa-miR-3681-3pchr5:177763460-1777634678mer-1achr5:177763451-177763472176.00-24.42
MayoENST00000510276177763317177763510hsa-miR-216a-3pchr5:177763460-1777634678mer-1achr5:177763451-177763472176.00-24.42
MayoENST00000510276177763317177763510hsa-miR-128-3pchr5:177763460-1777634678mer-1achr5:177763451-177763472176.00-24.42
MayoENST00000510276177763317177763510hsa-miR-3195chr5:177763471-1777634788mer-1achr5:177763462-177763478140.00-17.86
MayoENST00000510276177763317177763510hsa-miR-7977chr5:177763495-1777635028mer-1achr5:177763492-177763510157.00-26.80
MayoENST00000510276177763317177763510hsa-miR-6891-3pchr5:177763383-1777633908mer-1achr5:177763382-177763405147.00-24.27
MayoENST00000510276177763317177763510hsa-miR-27b-3pchr5:177763461-1777634688mer-1achr5:177763451-177763472176.00-24.42
MayoENST00000510276177763317177763510hsa-miR-505-5pchr5:177763342-1777633498mer-1achr5:177763328-177763349146.00-18.29
MayoENST00000510276177763317177763510hsa-miR-9985chr5:177763461-1777634688mer-1achr5:177763451-177763472176.00-24.42
MSBBENST00000510276177763317177763510hsa-miR-215-3pchr5:177763424-1777634318mer-1achr5:177763403-177763437151.00-32.08
MSBBENST00000510276177763317177763510hsa-miR-6072chr5:177763383-1777633908mer-1achr5:177763382-177763405147.00-24.27
MSBBENST00000510276177763317177763510hsa-miR-3922-5pchr5:177763377-1777633848mer-1achr5:177763362-177763384150.00-23.18
MSBBENST00000510276177763317177763510hsa-miR-27a-3pchr5:177763461-1777634688mer-1achr5:177763451-177763472176.00-24.42
MSBBENST00000510276177763317177763510hsa-miR-3681-3pchr5:177763460-1777634678mer-1achr5:177763451-177763472176.00-24.42
MSBBENST00000510276177763317177763510hsa-miR-216a-3pchr5:177763460-1777634678mer-1achr5:177763451-177763472176.00-24.42
MSBBENST00000510276177763317177763510hsa-miR-128-3pchr5:177763460-1777634678mer-1achr5:177763451-177763472176.00-24.42
MSBBENST00000510276177763317177763510hsa-miR-3195chr5:177763471-1777634788mer-1achr5:177763462-177763478140.00-17.86
MSBBENST00000510276177763317177763510hsa-miR-7977chr5:177763495-1777635028mer-1achr5:177763492-177763510157.00-26.80
MSBBENST00000510276177763317177763510hsa-miR-6891-3pchr5:177763383-1777633908mer-1achr5:177763382-177763405147.00-24.27
MSBBENST00000510276177763317177763510hsa-miR-27b-3pchr5:177763461-1777634688mer-1achr5:177763451-177763472176.00-24.42
MSBBENST00000510276177763317177763510hsa-miR-505-5pchr5:177763342-1777633498mer-1achr5:177763328-177763349146.00-18.29
MSBBENST00000510276177763317177763510hsa-miR-9985chr5:177763461-1777634688mer-1achr5:177763451-177763472176.00-24.42
ROSMAPENST00000510276177763317177763510hsa-miR-215-3pchr5:177763424-1777634318mer-1achr5:177763403-177763437151.00-32.08
ROSMAPENST00000510276177763317177763510hsa-miR-6072chr5:177763383-1777633908mer-1achr5:177763382-177763405147.00-24.27
ROSMAPENST00000510276177763317177763510hsa-miR-3922-5pchr5:177763377-1777633848mer-1achr5:177763362-177763384150.00-23.18
ROSMAPENST00000510276177763317177763510hsa-miR-27a-3pchr5:177763461-1777634688mer-1achr5:177763451-177763472176.00-24.42
ROSMAPENST00000510276177763317177763510hsa-miR-3681-3pchr5:177763460-1777634678mer-1achr5:177763451-177763472176.00-24.42
ROSMAPENST00000510276177763317177763510hsa-miR-216a-3pchr5:177763460-1777634678mer-1achr5:177763451-177763472176.00-24.42
ROSMAPENST00000510276177763317177763510hsa-miR-128-3pchr5:177763460-1777634678mer-1achr5:177763451-177763472176.00-24.42
ROSMAPENST00000510276177763317177763510hsa-miR-3195chr5:177763471-1777634788mer-1achr5:177763462-177763478140.00-17.86
ROSMAPENST00000510276177763317177763510hsa-miR-7977chr5:177763495-1777635028mer-1achr5:177763492-177763510157.00-26.80
ROSMAPENST00000510276177763317177763510hsa-miR-6891-3pchr5:177763383-1777633908mer-1achr5:177763382-177763405147.00-24.27
ROSMAPENST00000510276177763317177763510hsa-miR-27b-3pchr5:177763461-1777634688mer-1achr5:177763451-177763472176.00-24.42
ROSMAPENST00000510276177763317177763510hsa-miR-505-5pchr5:177763342-1777633498mer-1achr5:177763328-177763349146.00-18.29
ROSMAPENST00000510276177763317177763510hsa-miR-9985chr5:177763461-1777634688mer-1achr5:177763451-177763472176.00-24.42

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SNVs in the skipped exons for FAM153A

check button - Differential PSIs between mutated versus non-mutated samples.
ENSG00000170074.exon_skip_105385.Mayo_CB.WGS.boxplot.svg
boxplot

check button - Depth of Coverage in the skipped exon of the mutated samples.
ENSG00000170074.exon_skip_105385.Mayo_CB.1045_CER.WGS.svg
boxplot
ENSG00000170074.exon_skip_105385.Mayo_CB.1046_CER.WGS.svg
boxplot
ENSG00000170074.exon_skip_105385.Mayo_CB.1058_CER.WGS.svg
boxplot
ENSG00000170074.exon_skip_105385.Mayo_CB.1078_CER.WGS.svg
boxplot
ENSG00000170074.exon_skip_105385.Mayo_CB.1098_CER.WGS.svg
boxplot
ENSG00000170074.exon_skip_105385.Mayo_CB.1104_CER.WGS.svg
boxplot
ENSG00000170074.exon_skip_105385.Mayo_CB.1146_CER.WGS.svg
boxplot
ENSG00000170074.exon_skip_105385.Mayo_CB.1200_CER.WGS.svg
boxplot
ENSG00000170074.exon_skip_105385.Mayo_CB.1214_CER.WGS.svg
boxplot
ENSG00000170074.exon_skip_105385.Mayo_CB.1282_CER.WGS.svg
boxplot
ENSG00000170074.exon_skip_105385.Mayo_CB.135_CER.WGS.svg
boxplot
ENSG00000170074.exon_skip_105385.Mayo_CB.716_CER.WGS.svg
boxplot
ENSG00000170074.exon_skip_105385.Mayo_CB.731_CER.WGS.svg
boxplot
ENSG00000170074.exon_skip_105385.Mayo_CB.777_CER.WGS.svg
boxplot
ENSG00000170074.exon_skip_105385.Mayo_CB.812_CER.WGS.svg
boxplot
ENSG00000170074.exon_skip_105385.Mayo_CB.816_CER.WGS.svg
boxplot
ENSG00000170074.exon_skip_105385.Mayo_CB.834_CER.WGS.svg
boxplot
ENSG00000170074.exon_skip_105385.Mayo_CB.851_CER.WGS.svg
boxplot
ENSG00000170074.exon_skip_105385.Mayo_CB.894_CER.WGS.svg
boxplot
ENSG00000170074.exon_skip_105385.Mayo_CB.931_CER.WGS.svg
boxplot
ENSG00000170074.exon_skip_105385.Mayo_CB.991_CER.WGS.svg
boxplot

check button - Sashimi plot in the skipped exon of the mutated samples.
ENSG00000170074.exon_skip_105385.Mayo_CB.1045_CER.WGS.png
boxplot
ENSG00000170074.exon_skip_105385.Mayo_CB.1046_CER.WGS.png
boxplot
ENSG00000170074.exon_skip_105385.Mayo_CB.1058_CER.WGS.png
boxplot
ENSG00000170074.exon_skip_105385.Mayo_CB.1078_CER.WGS.png
boxplot
ENSG00000170074.exon_skip_105385.Mayo_CB.1098_CER.WGS.png
boxplot
ENSG00000170074.exon_skip_105385.Mayo_CB.1104_CER.WGS.png
boxplot
ENSG00000170074.exon_skip_105385.Mayo_CB.1146_CER.WGS.png
boxplot
ENSG00000170074.exon_skip_105385.Mayo_CB.1200_CER.WGS.png
boxplot
ENSG00000170074.exon_skip_105385.Mayo_CB.1214_CER.WGS.png
boxplot
ENSG00000170074.exon_skip_105385.Mayo_CB.1282_CER.WGS.png
boxplot
ENSG00000170074.exon_skip_105385.Mayo_CB.135_CER.WGS.png
boxplot
ENSG00000170074.exon_skip_105385.Mayo_CB.716_CER.WGS.png
boxplot
ENSG00000170074.exon_skip_105385.Mayo_CB.731_CER.WGS.png
boxplot
ENSG00000170074.exon_skip_105385.Mayo_CB.777_CER.WGS.png
boxplot
ENSG00000170074.exon_skip_105385.Mayo_CB.812_CER.WGS.png
boxplot
ENSG00000170074.exon_skip_105385.Mayo_CB.816_CER.WGS.png
boxplot
ENSG00000170074.exon_skip_105385.Mayo_CB.834_CER.WGS.png
boxplot
ENSG00000170074.exon_skip_105385.Mayo_CB.851_CER.WGS.png
boxplot
ENSG00000170074.exon_skip_105385.Mayo_CB.894_CER.WGS.png
boxplot
ENSG00000170074.exon_skip_105385.Mayo_CB.931_CER.WGS.png
boxplot
ENSG00000170074.exon_skip_105385.Mayo_CB.991_CER.WGS.png
boxplot

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 FAM153A

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 FAM153A

check button sQTL information located at the skipped exons.
Tissue typeExon skip IDSNP idLocationP-valueFDR
CBexon_skip_105385rs13169820chr5:1776147712.443546e-091.851891e-06
TCexon_skip_105385rs13169820chr5:1776147712.233147e-054.826646e-03

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Correlation with RNA binding proteins (RBPs) for FAM153A

check button Correlated RBP and related information.
Tissue typeRBP nameExon skip IDCorrelation coeifficientP-value
CBSAMD4Aexon_skip_17503-4.445373e-019.304426e-08
CBRBM3exon_skip_175034.437675e-019.850090e-08
CBTRA2Aexon_skip_17503-4.273317e-013.217577e-07
CBRBM45exon_skip_175036.180501e-012.902891e-15
CBNUP42exon_skip_175034.367332e-011.647351e-07

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RelatedDrugs for FAM153A

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 FAM153A

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