RnoINT0109215 @ rn6
Intron Retention
Gene
ENSRNOG00000001517 | Pdk1
Description
pyruvate dehydrogenase kinase 1 [Source:RGD Symbol;Acc:69427]
Coordinates
chr3:58544151-58545601:+
Coord C1 exon
chr3:58544151-58544228
Coord A exon
chr3:58544229-58545524
Coord C2 exon
chr3:58545525-58545601
Length
1296 bp
Sequences
Splice sites
5' ss Seq
ATGGTAAGC
5' ss Score
9.26
3' ss Seq
GTTTCTCTTCTGCTCTGTAGCGA
3' ss Score
7.31
Exon sequences
Seq C1 exon
ATGGCTATGAGAATGCGAGACGGCTTTGTGATTTGTATTACATTAACTCTCCTGAACTAGAACTTGAAGAACTAAATG
Seq A exon
GTAAGCTTGCCTAGGGGGCGCCTGTCCTAAGTAATGGGTGTTCTGACAGCCAAGGAGCAAGTCAAGATTTGCTTGAACAGTAAAGGGCTCTTCCATCAACTCCATCACTAAGTGGGAAGCCAGAAGAGTCAAGAGTGCAGCGCATAGCCACACTTACAGAGTTTAGTTTGAATATTTTGCTCTCTTGTTTTGGTGTTCTCTCTTTTTTTTTTAACTGATAATTTTGATTCTTTGCTATTTTCTTCAGAGACAGAAAGAAATACTAAGAAAATTTTAATTTTTTTGTATACAGCTCCTAGTAGCAAAGTTTGTCTTTTTTCTACTTCCTGAATTGTAAGTCAGTTTTTATCGTTGAAGGCAGAAGGCTGGCATGTGATAGACAGAGGAGGCCTCTCACCTTTCTGAGCAGCTCTGATGGTCTCCACCTTTGGATAAAGAGTTGCAGAGTTTTGGACAGAGACTGAGAATGGTCGTTTGACAAGGAAAACCTCTCCCGGGTTAAGATAATCCTTTGAGAAGGTGGTGGGAAGAAAAATGTTTTAATAGGCTTGAACTAAGCCACTTTCTGAACTTCTGAATCTGAGTAATGGGCGCGTACCCAGTTGAGGTAGCATGTGGTTTCTTCGGATGGTACCACCCAGTCAGTAAGAATCTCGTGCCCCAGGTGAGAGGTTAGAGGCCTGCGCTGTGGGTGCAGAGTCCACGTTCCCCACTCCTGTTTCCAAGTGGGAGCTTCTCGGAGGACAGTTTCGTTTACTGCTAAACTGTTTTCTGTTGGTCAGAGTACTCTGAAAGGATGGTGTCTTAGACCGCCTTGTTCTCCTAGAGGTCTTTATTATATAAACCTCTTGGGGAATGATGCTAGCTTTTTTTTTTTTTTAATTTTGCTTTTTTTTTTTAAATCCAGTGTTATATCCATAGAAATGTCTGAAATAAAATAAACAATGATCTACCCAGGTGAAACATATTTTTTCCTAAGATACCCATCTTGGGAAGTGCAATCCTACCTGAAGATTGAATTCTTCTAAGACTTGCTGTCCTAGAGAGGCATGGGAGTGTGGGTGGCGAACCTCTCACACCAGAGTGTGAGGAATGGCTTCTTGTCCCTGTCATCTGTGAGTGTGAGTCCAGAGCTCAAACTCTTAAGACAGTGAAGAAGTGGGGTGAGAGGACCCCCTGACCCGTAGCACCCCCCTCGGCTGCTAATGTTCGCTCCACGTCACTCCACAGTTTATTCTTAAGAATGCTTTGAGCGCGTCTCTCCGTACTTTCATATGTTTCTCTTCTGCTCTGTAG
Seq C2 exon
CGAAATCACCAGGACAGCCAATACAAGTGGTTTATGTTCCGTCCCATCTCTATCACATGGTGTTTGAACTGTTCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000001517:ENSRNOT00000002072:6
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.074 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0251821=HATPase_c=PU(11.2=53.8)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
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]