GgaINT0045755 @ galGal4
Intron Retention
Gene
ENSGALG00000013235 | PDK1
Description
pyruvate dehydrogenase kinase, isozyme 1 [Source:RefSeq peptide;Acc:NP_001026523]
Coordinates
chr7:17204542-17206196:-
Coord C1 exon
chr7:17206055-17206196
Coord A exon
chr7:17204614-17206054
Coord C2 exon
chr7:17204542-17204613
Length
1441 bp
Sequences
Splice sites
5' ss Seq
TTGGTAAGA
5' ss Score
8.85
3' ss Seq
CATGTTTCTTTCATTTAAAGGTA
3' ss Score
10.96
Exon sequences
Seq C1 exon
GATCTGAAAATGCCTGTGAAAAGACTTCATTTATGTTTCTGCGACAAGAGCTGCCTGTAAGATTAGCAAACATAATGAAGGAAATAAGTCTGCTTCCAGACAATCTTCTCAGAACACCTTCAGTTCAGCTGGTGCAGAGTTG
Seq A exon
GTAAGAGGTGTTACTTAATTTCTTTAAGTGTGACTTTCTTCATATACACAGCTGGAGGAGCAACTCATTAAATTCTACAGAAAGAAATACTTAATGTGCTCATAACATGAACATTGTTTAGAATGAGTAAATATCCCAATGGGACAGAAACTGAAGTTGAAGACTTGGGAAAAAACAAAACAAACAAACAAACAAACAAAAACCTGCAGGAGCAATTAGATATTTGACAAGGGAATTGAAAATCATTAACTATTCCAGACAGTCATGTATGAGAATCCAGTAATAACAAAAATCCACCAGAGCAGTGTTTAATAGAGAACTTACCTAAAACAAAGAAACTAGCTGAGGAAACCAACAGAAGTGTCTAAATTCACAAAATGCTTGCAAAACAGAATAGAAACTGTCTAAAAGACAGGTAATTGCAGACTGAGAGTAAGGGCAGAGAAAATAAGAAAACAGTAGAAAGCTCCCAAAGCCAGAGAACAGCAGGATCAATACAGGGCTGTTAAAATTAAAAAGCTGTCCTTTGAAAAGTAAAATTTGCTTTTAGATAAGGACTTTAAACATCTTTTTTTGCAAGATGCAAGCAAAACAAAGGGATTGCTTGGCAACTGCTAACGGCACATGGCATTCTGGAAAAGGCTTTTAATGTTAGGAGAACAGTCTGCCACTGAATGAGTAGGGTTGATTTGAAGACTGAATATAAAAAGAGATATCAGTGCAGATGAAGGCTCTCAGTGAAACACGAAAGCTTGAAGTCTTGTGACACTAAATTATGTTGACAAAACGGAGAGTTAATTCCGCTTGGACAAATGCAAAGCAGAGAACAACCTCCTCCCCTTCCGTGCTTACTCACTCACAATCAAAAATGTTGGTACAACTGTAGATATTTTTCTGAATGTCAGCTGATGGGCAAGAAGGCAAATAGTGTTAGGAGCTAAGTGACCAATGGGGTGGAGGAGAATATAATTGCACCACTGTGTTAGTCTGTATTCCTCTGAATCACATGCAGTTTTCGTCACTCCATCCTGAACAGAAAAGACCAGGAGGGATAATCAAAGGGTTGGAACAGTTTCTACGCGTGGGGAAACCAAATAGAATTCTTTGGCTTGGAGACGGCAGAAATATTTTAATTATAAACAAGTTGGGTACATTTTCTAATAACAGGAACCAACTAGGGCTGCAAATAAGTAATCAGCCACTGGGTTTAAAATGGAAGGAAGGTTGTGTATGCATTTATGTGGAATTCATTGCTCTGGAAATTTTGGAAGAAAACATCACGAATGCATTCAGAAACATCTAACAAAATTCATAGGTGATAAATTTGTGTGATATATCAAATAAAATTGTTTAGATGCAACCAGTCTTAGAATATTGCTAACCAGAGGGAACTAGGGAGGTGTATTAGCACTGGACTGTGTCATGTTTCTTTCATTTAAAG
Seq C2 exon
GTATGTCCAAAGTCTTCAGGAGATCCTTGACTTTAAAGACAAAAGTTCGGAAGATTCGGGGGCTATTCACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000013235:ENSGALT00000021613:2
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=0.000
Domain overlap (PFAM):
C1:
PF104364=BCDHK_Adom3=FE(28.5=100)
A:
NA
C2:
PF104364=BCDHK_Adom3=FE(14.5=100)
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:
GATCTGAAAATGCCTGTGAAAAGACT
R:
CTGTGAATAGCCCCCGAATCT
Band lengths:
214-1655
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]