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Open reading frame (ORF) annotation in the exon skipping event | |
3'-UTR located exon skipping events lost miRNA binding sites | |
Splicing Quantitative Trait Loci (sQTLs) in the skipped exons | |
Gene summary for NME6 |
Gene summary |
Gene information | Gene symbol | NME6 | Gene ID | 10201 |
Gene name | NME/NM23 nucleoside diphosphate kinase 6 | |
Synonyms | IPIA-ALPHA|NDK 6|NM23-H6 | |
Cytomap | 3p21.31 | |
Type of gene | protein-coding | |
Description | nucleoside diphosphate kinase 6NDP kinase 6inhibitor of p53-induced apoptosis-alphanon-metastatic cells 6, protein expressed in (nucleoside-diphosphate kinase) | |
Modification date | 20200313 | |
UniProtAcc | A0A0C4DG91, | |
Context |
Gene ontology of each this gene with evidence of Inferred from Direct Assay (IDA) from Entrez |
Gene | GO ID | GO term | PubMed ID |
NME6 | GO:0030308 | negative regulation of cell growth | 10618642 |
NME6 | GO:0045839 | negative regulation of mitotic nuclear division | 10618642 |
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Gene structures and expression levels for NME6 |
Skipped 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. |
Differentially expressed gene analysis across multiple brain tissues between AD and control. |
Tissue type | DEG direction | Base mean exp. | log2FC(AD/control) | P-value | Adj. p-value |
Differentially expressed isoform analysis across multiple brain tissues between AD and control. |
Tissue type | DEG direction | ENST | Transcript info. | Base mean exp. | log2FC(AD/control) | P-value | Adjc. p-value |
CB | UP | ENST00000452211.5 | NME6-214:protein_coding:NME6 | 8.679490e-01 | 1.904495e+00 | 7.806573e-03 | 2.838163e-02 |
CB | UP | ENST00000435684.5 | NME6-208:protein_coding:NME6 | 1.966943e+00 | 1.149703e+00 | 8.533575e-03 | 3.052302e-02 |
TC | DOWN | ENST00000426689.6 | NME6-207:protein_coding:NME6 | 1.602855e+00 | -3.819354e+00 | 4.084348e-03 | 2.876442e-02 |
Landscape of isoform expressions across multiple brain tissues between AD and control. |
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Exon skipping events with PSIs in ROSMAP, MSBB, and Mayo for NME6 |
Landscape of individual exon skipping event across AD tissues and controls (PSI heatmap). |
All exon skipping events in AD cohorts. |
Exon skip ID | chr | Exons involved in exon skipping | Skipped exon |
exon_skip_116176 | chr3 | 48298427:48298523:48300431:48300634:48301270:48301319 | 48300431:48300634 |
exon_skip_117227 | chr3 | 48294197:48294803:48295075:48295235:48296727:48296829 | 48295075:48295235 |
exon_skip_128554 | chr3 | 48295145:48295235:48296119:48296236:48296727:48296829 | 48296119:48296236 |
exon_skip_172142 | chr3 | 48294676:48294803:48295075:48295235:48296727:48296829 | 48295075:48295235 |
exon_skip_213966 | chr3 | 48294676:48294803:48295075:48295235:48301353:48301387 | 48295075:48295235 |
exon_skip_217525 | chr3 | 48298427:48298523:48300527:48300634:48301279:48301325 | 48300527:48300634 |
exon_skip_220835 | chr3 | 48295145:48295235:48296119:48296158:48296727:48296829 | 48296119:48296158 |
exon_skip_246389 | chr3 | 48296119:48296236:48296727:48296829:48298427:48298523 | 48296727:48296829 |
exon_skip_254603 | chr3 | 48298427:48298523:48300431:48300634:48301270:48301362 | 48300431:48300634 |
exon_skip_277058 | chr3 | 48298427:48298523:48300431:48300634:48301279:48301305 | 48300431:48300634 |
exon_skip_285842 | chr3 | 48298427:48298523:48300277:48300723:48301270:48301319 | 48300277:48300723 |
exon_skip_30800 | chr3 | 48298427:48298523:48300527:48300634:48301353:48301387 | 48300527:48300634 |
exon_skip_31848 | chr3 | 48298427:48298523:48300527:48300634:48301279:48301305 | 48300527:48300634 |
exon_skip_61588 | chr3 | 48295145:48295235:48296727:48296829:48298427:48298523 | 48296727:48296829 |
exon_skip_97422 | chr3 | 48296727:48296829:48298427:48298523:48301353:48301387 | 48298427:48298523 |
Differentially expressed PSI values of individual exon skipping events in multiple brain tissues between AD and control. |
Exon skipping information | Tissue type | Avg(PSIs) in AD | Avg(PSIs) in control | Difference (PSI) | Adj. p-value |
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Open reading frame (ORF) annotation in the exon skipping event for NME6 |
Open reading frame (ORF) of individual exon skipping events in ROSMAP based on the Ensembl gene structure combined from isoforms. |
ENST | Start of skipped exon | End of skipped exon | ORF |
ENST00000442597 | 48298427 | 48298523 | 3UTR-3CDS |
ENST00000452211 | 48300431 | 48300634 | 3UTR-3UTR |
ENST00000415053 | 48300527 | 48300634 | 3UTR-3UTR |
ENST00000415053 | 48296119 | 48296158 | Frame-shift |
ENST00000426689 | 48296119 | 48296158 | Frame-shift |
ENST00000442597 | 48296119 | 48296158 | Frame-shift |
ENST00000452211 | 48296119 | 48296158 | Frame-shift |
ENST00000643457 | 48296119 | 48296158 | Frame-shift |
Open reading frame (ORF) of individual exon skipping events in MSBB based on the Ensembl gene structure combined from isoforms. |
ENST | Start of skipped exon | End of skipped exon | ORF |
ENST00000415053 | 48296119 | 48296158 | Frame-shift |
ENST00000426689 | 48296119 | 48296158 | Frame-shift |
ENST00000442597 | 48296119 | 48296158 | Frame-shift |
ENST00000452211 | 48296119 | 48296158 | Frame-shift |
ENST00000643457 | 48296119 | 48296158 | Frame-shift |
Open reading frame (ORF) of individual exon skipping events in Mayo based on the Ensembl gene structure combined from isoforms. |
ENST | Start of skipped exon | End of skipped exon | ORF |
ENST00000452211 | 48300431 | 48300634 | 3UTR-3UTR |
ENST00000415053 | 48300527 | 48300634 | 3UTR-3UTR |
ENST00000415053 | 48296119 | 48296158 | Frame-shift |
ENST00000426689 | 48296119 | 48296158 | Frame-shift |
ENST00000442597 | 48296119 | 48296158 | Frame-shift |
ENST00000452211 | 48296119 | 48296158 | Frame-shift |
ENST00000643457 | 48296119 | 48296158 | Frame-shift |
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Infer the effects of exon skipping event on protein functional features for NME6 |
p-ENSG00000172113_img4.png |
Loci of skipped exons in ROSMAP across genomic, transcript, and protein sequence levels of In-frame cases. |
ENST | Length of mRNA | Length of AA seq. | Genomic start | Genomic end | mRNA start | mRNA end | AA start | AA end |
Loci of skipped exons in MSBB across genomic, transcript, and protein sequence levels of In-frame cases. |
ENST | Length of mRNA | Length of AA seq. | Genomic start | Genomic end | mRNA start | mRNA end | AA start | AA end |
Loci of skipped exons in Mayo across genomic, transcript, and protein sequence levels of In-frame cases. |
ENST | Length of mRNA | Length of AA seq. | Genomic start | Genomic end | mRNA start | mRNA end | AA start | AA end |
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 feature | Description of feature |
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 feature | Description of feature |
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 feature | Description of feature |
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3'-UTR located exon skipping events that lost miRNA binding sites in NME6 |
3'-UTR exon skipping evnets lost miRNA binding. |
Tissue type | ENST | Exon skip start | Exon skip end | microRNA | Binding site by TargetScan | Binding type by TargetScan | Bdinding site by miRanda | Score of miRanda | Energy by miRanda |
Mayo | ENST00000415053 | 48300527 | 48300634 | hsa-miR-1255b-5p | chr3:48300577-48300584 | 8mer-1a | chr3:48300564-48300587 | 160.00 | -20.48 |
Mayo | ENST00000452211 | 48300431 | 48300634 | hsa-miR-1255b-5p | chr3:48300577-48300584 | 8mer-1a | chr3:48300564-48300587 | 160.00 | -20.48 |
Mayo | ENST00000415053 | 48300527 | 48300634 | hsa-miR-3652 | chr3:48300581-48300588 | 8mer-1a | chr3:48300580-48300601 | 158.00 | -20.57 |
Mayo | ENST00000452211 | 48300431 | 48300634 | hsa-miR-3652 | chr3:48300581-48300588 | 8mer-1a | chr3:48300580-48300601 | 158.00 | -20.57 |
Mayo | ENST00000415053 | 48300527 | 48300634 | hsa-miR-12121 | chr3:48300616-48300623 | 8mer-1a | chr3:48300603-48300623 | 151.00 | -19.39 |
Mayo | ENST00000452211 | 48300431 | 48300634 | hsa-miR-12121 | chr3:48300616-48300623 | 8mer-1a | chr3:48300603-48300623 | 151.00 | -19.39 |
Mayo | ENST00000452211 | 48300431 | 48300634 | hsa-miR-7515 | chr3:48300484-48300491 | 8mer-1a | chr3:48300468-48300492 | 148.00 | -19.27 |
Mayo | ENST00000415053 | 48300527 | 48300634 | hsa-miR-4430 | chr3:48300581-48300588 | 8mer-1a | chr3:48300580-48300601 | 158.00 | -20.57 |
Mayo | ENST00000452211 | 48300431 | 48300634 | hsa-miR-4430 | chr3:48300581-48300588 | 8mer-1a | chr3:48300580-48300601 | 158.00 | -20.57 |
Mayo | ENST00000415053 | 48300527 | 48300634 | hsa-miR-1255a | chr3:48300577-48300584 | 8mer-1a | chr3:48300564-48300587 | 160.00 | -20.48 |
Mayo | ENST00000452211 | 48300431 | 48300634 | hsa-miR-1255a | chr3:48300577-48300584 | 8mer-1a | chr3:48300564-48300587 | 160.00 | -20.48 |
ROSMAP | ENST00000415053 | 48300527 | 48300634 | hsa-miR-1255b-5p | chr3:48300577-48300584 | 8mer-1a | chr3:48300564-48300587 | 160.00 | -20.48 |
ROSMAP | ENST00000452211 | 48300431 | 48300634 | hsa-miR-1255b-5p | chr3:48300577-48300584 | 8mer-1a | chr3:48300564-48300587 | 160.00 | -20.48 |
ROSMAP | ENST00000415053 | 48300527 | 48300634 | hsa-miR-3652 | chr3:48300581-48300588 | 8mer-1a | chr3:48300580-48300601 | 158.00 | -20.57 |
ROSMAP | ENST00000452211 | 48300431 | 48300634 | hsa-miR-3652 | chr3:48300581-48300588 | 8mer-1a | chr3:48300580-48300601 | 158.00 | -20.57 |
ROSMAP | ENST00000415053 | 48300527 | 48300634 | hsa-miR-12121 | chr3:48300616-48300623 | 8mer-1a | chr3:48300603-48300623 | 151.00 | -19.39 |
ROSMAP | ENST00000452211 | 48300431 | 48300634 | hsa-miR-12121 | chr3:48300616-48300623 | 8mer-1a | chr3:48300603-48300623 | 151.00 | -19.39 |
ROSMAP | ENST00000452211 | 48300431 | 48300634 | hsa-miR-7515 | chr3:48300484-48300491 | 8mer-1a | chr3:48300468-48300492 | 148.00 | -19.27 |
ROSMAP | ENST00000415053 | 48300527 | 48300634 | hsa-miR-4430 | chr3:48300581-48300588 | 8mer-1a | chr3:48300580-48300601 | 158.00 | -20.57 |
ROSMAP | ENST00000452211 | 48300431 | 48300634 | hsa-miR-4430 | chr3:48300581-48300588 | 8mer-1a | chr3:48300580-48300601 | 158.00 | -20.57 |
ROSMAP | ENST00000415053 | 48300527 | 48300634 | hsa-miR-1255a | chr3:48300577-48300584 | 8mer-1a | chr3:48300564-48300587 | 160.00 | -20.48 |
ROSMAP | ENST00000452211 | 48300431 | 48300634 | hsa-miR-1255a | chr3:48300577-48300584 | 8mer-1a | chr3:48300564-48300587 | 160.00 | -20.48 |
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SNVs in the skipped exons for NME6 |
- Differential PSIs between mutated versus non-mutated samples. |
- Depth of Coverage in the skipped exon of the mutated samples. |
- Sashimi plot in the skipped exon of the mutated samples. |
- Non-synonymous mutations located in the skipped exons. |
Cancer type | Sample | ESID | Skipped exon start | Skipped exon end | Mutation start | Mutation end | Mutation type | Reference seq | Mutation seq | AAchange |
- Non-synonymous mutations located in the skipped exons in CCLE. |
Sample | Skipped exon start | Skipped exon end | Mutation start | Mutation end | Mutation type | Reference seq | Mutation seq | AAchange |
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AD stage-associated exon skippint events for NME6 |
Associated exon skipping events with Braak staging or Clinical Dementia Rating (CDR). |
AD stage info | Cohort | Tissue | SE id | Coefficient | P-value | Chromosome | Strand | E1 start | E1 end | Skipped start | Skipped end | E2 start | E2 end |
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Splicing Quantitative Trait Loci (sQTL) in the exon skipping event for NME6 |
sQTL information located at the skipped exons. |
Tissue type | Exon skip ID | SNP id | Location | P-value | FDR |
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Correlation with RNA binding proteins (RBPs) for NME6 |
Correlated RBP and related information. |
Tissue type | RBP name | Exon skip ID | Correlation coeifficient | P-value |
CB | ELAVL1 | exon_skip_230203 | -4.247214e-01 | 1.332654e-06 |
CB | SAMD4A | exon_skip_230203 | -4.452942e-01 | 3.467097e-07 |
CB | U2AF2 | exon_skip_230203 | -5.366428e-01 | 2.652774e-10 |
CB | HNRNPC | exon_skip_230203 | -4.231985e-01 | 1.467207e-06 |
CB | PTBP1 | exon_skip_230203 | -4.080293e-01 | 3.729355e-06 |
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RelatedDrugs for NME6 |
Approved drugs targeting this gene. (DrugBank Version 5.1.0 2018-04-02) |
UniProtAcc | DrugBank ID | Drug name | Drug activity | Drug type | Drug status |
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RelatedDiseases for NME6 |
Diseases associated with this gene. (DisGeNet 4.0) |
Gene | Disease ID | Disease name | # pubmeds | Source |