MmuINT0117395 @ mm10
Intron Retention
Gene
ENSMUSG00000019577 | Pdk4
Description
pyruvate dehydrogenase kinase, isoenzyme 4 [Source:MGI Symbol;Acc:MGI:1351481]
Coordinates
chr6:5492706-5495031:-
Coord C1 exon
chr6:5494890-5495031
Coord A exon
chr6:5492778-5494889
Coord C2 exon
chr6:5492706-5492777
Length
2112 bp
Sequences
Splice sites
5' ss Seq
CTGGTGAGG
5' ss Score
8.3
3' ss Seq
CAAAACGTCTGTCTTCACAGGTA
3' ss Score
8.71
Exon sequences
Seq C1 exon
GTTCAGAAAATGCCTGTGAAAGAACGTCCTTTGCTTTTCTGCGGCAAGAGCTGCCCGTCCGCCTGGCCAATATCCTGAAGGAGATTGACATCCTGCCTGACCGCTTAGTGAACACTCCTTCGGTGCAGCTGGTGAAGAGCTG
Seq A exon
GTGAGGACACACGGTTTTGAAGTCTCTGGCTTTAAAAGTTACCTGAGCACCACTTCTTAGACCATATTAACAGCGTGCTTGGATAACAGGCGGTCTTAAGAGAAAATAGTTTTGAAAGTTGTAAGTAAGTTTGTATTAACTTAGGGCAGGTTATCATTAGGATTGTTATAAATCTACAAATAGATGTTTGTTAATATCCTAAAAAAGAAAAAAATCGTTCCCCTTCACTTTGGAGGTGTGTGGCTTCTGTTTTTGCTTTTCTTTTCCTTTTCCTTTTCCTTTTCCTTTGTTCCTTGTTGTTATTTGGCTCTTAAGACCGGCTCTGGTGAATCACAGGCTTCCTGGAACTCCTAGGATGACCTTGACATCCTTTCTACTTATCTTCACCTCTTAGTTCCTGGGATTATAACCATGTACTACCATACCCAACTTCCATTACAATATAATTTGGATGTATGGGATAAGTTTGAAGAATAATTGGCATAATGGATTTTTTTTAATTTTTGTCCTTTACATAACAAAGGATGGAATCTGAAATTGTACAAACAATCCTTTGCCTAGAAATTGATGTAGATGTCTGCTGTTCGGAGAGGGTCTACGTTTTGTTCCTTATCAGCAACTAGCAAAGTGATCCTTGGGTTCAAATTCTGCCTTGGCATCTCCCTTAGCATCTTAGCAAGTGCCTGAACCCCTCCCTGCCCGCCTATTGTTACAAGAGATGCTGCGTATAATTAAAGGGAGTAATTTATTTCTTAGACAGACAAAGCAAGCACGTGGCCAACATTCAACCTCGGTTACTTTGACTGTTTTCTTTAAACTAAGAGATGCCTAGCAAGCAGATGTTTGGAGGGCAGATCCATGCTATAAACTGTAGTAGAAAAAGAGTCCTACTCTAGTCCATTGACTGACTGACTGTGCAGCATACCAGTGATTGGAAGAAATATGGTATGCCAAAAGAATTATTCCAATCTGAAATATTACGTGCAGGCTGTGGTACCCATTGCAACTGTCAAGACTTTAGCTCTCCTGCAAGACGTACAGTCAGGAAAAAGAAAACAGAATGATTTAGGTTTTTCTTCTCTTTTTTATTTATTCTTTAATCTTTTTTTTTTTTTTACAGTCCAGACTTTATCCTCCTCCCAGTCCACCCTCTGACTGTTCCACATCCCACACGTCCTCCCCCAATCTCCAAAAGGATGTCCGTACCCACCCCACCCCACCCCACCAGATCTCCCCACTCCCTGGGGCCCCAAGTGTCTTGAGAGTTAGGTGCATCTTCTCTGACTGAGTCCAGACCAGACAGTCCTCTGCTCTATATGAGTTGGGTGCCTCATATCAGCTCAGTGTGTGCTGCCTCGTTAGTGGTTCGGTGTCTGAGAGATCCCAGGGGTCCAGGTTAGTTGAGACTGTTGGTCTTCCTATAGGGTCGCCCTCCTCCTCAGCTTCTTCCAGCTTCTCCCTAATTCAACCACAGGGGTCAGCAGCTTCTATCCATCGGTTGGGTGCAAATATCTGCATCTGACTTTCAACTGCTTGTTGGGTCTTGAGGGCAGTCATGATAGTCCCCTGTCTGTAAGTACACCATAGCATCATAATGGTGTCAGGCCTTGGGTCCTCCCCCTCAGCTGAATCCCAATTTGGGCCTGTTGCTGGACCTCCTTTTCCTCAGGATCTTCTTCAGTTTTGTTCCTGAGGTTCTTTCAGACAGCAACAATTCTGGGTCAGAGTTTTTGACTGTAGGATGGCAAGCCCATCCCTCCACTTGATGCCTTGTCTTTCTGCTGGAGGTGGACTCTACAAGTTCCCTCTCCCCACTGTAGGACATTTCATCTAAGGTCCCTCCCTTTGAGTCCTAAGAGTCTCTCAAGCTTTCTTAAATGTTGATTCTGAGTGATTTTAGTAAAAGAAATGAAAACATCTGCCAACCAAAGTGGTCAGGAAAATAGAGGGGTGGGAAAATTGCAGCTTTAAAAATATGTTAAGCTATTATTTTCCAAACATTTTGAAGAAAAGTTTCAATTTGAAACATAGTGGTCCCCTTCCCCTTTCTGGTCATTCCTAAAGGTATTTTCATTGCATCTGACATTGATTGCAAAACGTCTGTCTTCACAG
Seq C2 exon
GTATATCCAGAGCCTGATGGATTTGGTGGAGTTCCATGAGAAGAGCCCAGAAGACCAGAAAGCCCTGTCAGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000019577:ENSMUST00000019721:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.068
Domain overlap (PFAM):
C1:
PF104364=BCDHK_Adom3=FE(28.7=100)
A:
NA
C2:
PF104364=BCDHK_Adom3=PU(18.0=94.7)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- Ribosome-engaged transcriptomes of neuronal types
- Neural differentiation time course
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types