GgaINT0045756 @ galGal4
Intron Retention
Gene
ENSGALG00000013235 | PDK1
Description
pyruvate dehydrogenase kinase, isozyme 1 [Source:RefSeq peptide;Acc:NP_001026523]
Coordinates
chr7:17203754-17204613:-
Coord C1 exon
chr7:17204542-17204613
Coord A exon
chr7:17203939-17204541
Coord C2 exon
chr7:17203754-17203938
Length
603 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGG
5' ss Score
11.08
3' ss Seq
TAACAATGTATTAATTTTAGTTT
3' ss Score
6.16
Exon sequences
Seq C1 exon
GTATGTCCAAAGTCTTCAGGAGATCCTTGACTTTAAAGACAAAAGTTCGGAAGATTCGGGGGCTATTCACAG
Seq A exon
GTAAGGACCTGTCATGTACCTCAATACTAATGTTATATATAAGACTGACAGGAAAAGAAGTGGCTTAAAATAATTTCAGCTGTCTTCAGTCTCTAGGTAAGAATCACAGTAACATTATCCCTTACCCCCTGGAAGGATGGAACATTGAAACATGAAACAAAGCACTTTTATGTCATATCATTCTGTGTGGGGCTTTTTTTGTTACACTGGGGAAACTATGAATATATTAACCAAATTTTTACCAGTTCTTTGCAACGTTGTCAGTGCTGTATGGAACTTTTCATCTGTGGATTGGGTTTGATCATTATTGGCTGACCATAGCTACTGTTGGACAGGCATGGGATGATTTGCCTGAACATGGTTGGCACAATTCTCTCTTCTTTTGGCATTAAGCAATTTATTAATTATATATATATAATATAATTATATTATTAATCAATCAAATTATTTATATGCTATAAAGACTGGGCTGTCTTCTCACTGCAGTAAGCAGACCCGTGCTACTTCTGTACACAGCTGTCTTCATTTTCATGGGCAGATACTCAGTTTGCCAGAGGATGACATTCATTTGAAAGTGAACACCTAACAATGTATTAATTTTAG
Seq C2 exon
TTTTACAGATACCGTGATAAAAATACGCAATCGACACAACGATGTAATTCCTACTATGGCTCAAGGAGTAATAGAGTACAAGGAAAGCTTTGGCATTGATCCAGTGACCTCACAGAATGTGCAGTATTTTTTAGACCGTTTCTACATGAGTCGCATTTCAATTAGAATGCTCCTTAATCAACACT
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000013235:ENSGALT00000021613:3
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(14.5=100)
A:
NA
C2:
PF104364=BCDHK_Adom3=FE(37.6=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:
TGTCCAAAGTCTTCAGGAGATCC
R:
AGTGTTGATTAAGGAGCATTCTAATT
Band lengths:
254-857
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]