MmuINT0117376 @ mm9
Intron Retention
Gene
ENSMUSG00000038967 | Pdk2
Description
pyruvate dehydrogenase kinase, isoenzyme 2 [Source:MGI Symbol;Acc:MGI:1343087]
Coordinates
chr11:94891231-94893334:-
Coord C1 exon
chr11:94893150-94893334
Coord A exon
chr11:94891321-94893149
Coord C2 exon
chr11:94891231-94891320
Length
1829 bp
Sequences
Splice sites
5' ss Seq
ACAGTGAGT
5' ss Score
8.34
3' ss Seq
GCCCTTCCCTCTGCCCACAGCCC
3' ss Score
11.99
Exon sequences
Seq C1 exon
GTTCACAGATGCCCTGGTCACCATCCGGAACCGGCACAATGACGTGGTGCCCACCATGGCACAGGGAGTGCTGGAGTACAAGGACACCTATGGAGATGACCCCGTCTCCAACCAGAACATCCAGTACTTCCTGGACCGCTTCTACCTCAGCCGCATCTCCATCCGAATGCTAATCAATCAACACA
Seq A exon
GTGAGTCCTGCCTGGCTGCTTCGGAGAGGGCAAGGGGCCCGGCAGGGCACGCCAAGAAGGGCACCGCCCCCACAAGAAAGCAGGCTCCCCACTTCAGCCTCTGGGCTCAGAGGCCTGAGTGGCATTTGGGAACTGAAGAGTGTGGCTTAAGTCATGTGTCTATAACCCTAGCACGTGGGCAGCTGAGGCAGGAAAATAGTATATGTTTGAGGCCAACCTCAAAAAAATTAAGTAAATAGAAAATTTAAAAAGTAATTGGTTCCCAAAGTAAAGTAAAAAGTGCAACACTGAGGTGAAATTCTGTTGTTGTAAATATTTGTAAATGTCAAACATGCTACGTGTTCTGAAACAATTATATTTATTTATTTATGCACATGTGCACATGTTGTGGGCAGAGGACATCCTGCAGTTTACGCTCTCTTTTCATCATCTGGGCCTTGGGGATTGAACTCAAGTTGTCAGGCTAGGCTGCAAGCACCTTTACGCACTGAGCCACCTTGTGAGCCATTTACACATGCTGTCCCCCACCCACCCATACCCACACCCAACACATTAAGAACTCCATTGTATTCAAAAACGGTTTATCATTTACCCTTTCCTGTCCAGAGTTTTCTATGCTGGTTGACAAAGCAGAGCTAAGTTAAGTGAGTTCTTTATGTTCTAAGAAAAGCAAGCTGATGGAAGTTATCTTACAGTATTGTGTGAAGATATGAAAGCAAAGCGTACCTTTAAAGCTGGGCTTGGTGATGCACAGTACTTGGGAGACAGAAGCAGGCGGATTTCTGAATTCACAGCCAGCCTGGTCTACAGAGTCAGTTCCAGGACAGCCAGGGCTACACAGAGTAACTCTGTCTTGAAAAAAAAAAAAAAAAGAAAATACATACACACACACACACACACACACACATACATACATACAGATATATACACACACATATACATGTACACACATATATACATGCACACACACATATATACATGCACACATGTATGCATACATGCATATATACATATGTGCACACACAGATACATACATGCATACACACATACATGTATACACACATACATATATACATACATGCACACATGCATACACACATACATATACACATATACATACATAACACACACATATACACACATGTATACACATGTACACATACATACACATATATACATACATATATAATACACATGTATACACACATATACATACACACATATATACATACACATGTATACATGCATACATACATACACACATAAATACACATATACATACACACATATATACATACACATGTATACATGCATACATACATACACACATAAATACACATATACATACACACATATATACATACACATGTATACATGTATACATACATACACACATAAATACACATATACATACACATATACACACATACATACACTTATACATATATACACACATATATATAAACACATACATATATAGATACACACATAATTCATATACTCATACATATATACATATATACAAACATGTATATGTACACACATAAACACATATGCATACATGTATACATGCATATACACATACATACATATATACATGTATACATATACATACACTTAACAGGGTATGATGTGGAGAGGACTATGGAAGGACTGCTGTAAGGTGCAGAAGCTCTGGAAGGCCCAAGCTAGAGGGAAACAAGACTTGGGGGGCATGGTTAGCATGGACCATACAAAGGCCTACAGATGAGGTGAAGAGTGGGGTGTTTAGGAAGAGGGAGAACTAGATCCTGTGAACTTGCCAACCGCGCCCTTCCCTCTGCCCACAG
Seq C2 exon
CCCTCATCTTTGATGGCAGCACCAACCCAGCCCACCCCAAACACATTGGCAGCATCGATCCCAACTGCAGCGTGTCTGATGTGGTGAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000038967-Pdk2:NM_133667:4
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.097
Domain overlap (PFAM):
C1:
PF104364=BCDHK_Adom3=FE(37.6=100)
A:
NA
C2:
PF104364=BCDHK_Adom3=PD(12.1=64.5)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CAGATGCCCTGGTCACCATC
R:
CTTTCACCACATCAGACACGCT
Band lengths:
270-2099
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types
Other AS DBs: