GgaINT0097520 @ galGal3
Intron Retention
Gene
ENSGALG00000009700 | PDK4
Description
NA
Coordinates
chr2:23872259-23873083:-
Coord C1 exon
chr2:23873012-23873083
Coord A exon
chr2:23872444-23873011
Coord C2 exon
chr2:23872259-23872443
Length
568 bp
Sequences
Splice sites
5' ss Seq
TGAGTAAGC
5' ss Score
5.78
3' ss Seq
ATAAAACTTTTGTGATCTAGATT
3' ss Score
5.6
Exon sequences
Seq C1 exon
GTACATCCAAAGTCTAATGGAGCTGGTTGAGTTCCATCAGAAAAGCCCAGATGACCAAAAAGTCTTATCTGA
Seq A exon
GTAAGCTTTCAGTTTGTTTCATTGACCTTCTGAACGTGCATTCAATTTTATACAGCGTAGTCACTTCAGAATGACCATTGTCCTGAGCTGAAGTTGATAATCTAGTACGAAGTGCTGAAGACAGAGCAAGCTGGTAGAAGTATCTTTTGAAGTTAAGCAATACTTCTCATAGAAGACCTTTTGTAGCTTTGTTTCTAGGGCATAATGCCCCTCAAACTACCACAGCAAAAAGATCAACAGAAATTATCTCATGTCAAATCCCAGCTTCTTTCTAAGATGTCAGCTAGGGGTCTCTTTTAACCCTTCATGCAAACTGCACTCCCCTGTGTGCAAACTGCTATGAATGAGTAAAAATGCCATAAATTTGAATTGGATAATGATTATGCAGACTATATTAAAATATCAAACTCAGAGTTCTCAATGAGTGAGGAGTTAATTTTAAAAAGAATGGAAGAAGAAACCATATTAATGCTCTTTCAGTTATCTGTGCTGCTGGATTAGATAATAACTTTATACTTGCTTCCATGTAGTCTTAGAATGATGTTCTAATAAAACTTTTGTGATCTAG
Seq C2 exon
ATTTATAGATACATTAATCAGAGTTCGAAACAGACATCACGATGTAGTCCCTACAATGGCACAAGGAGTAATTGAATACAAAGATATGTTTAAAGTAGATCCTGTCACCAATCAAAACATTCAATACTTCTTGGATCGCTTTTACATGAGCCGCATTTCCACCCGGATGCTGATGAACCAACACA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000009700:ENSGALT00000015790:3
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(14.3=100)
A:
NA
C2:
PF104364=BCDHK_Adom3=FE(36.9=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:
TCCAAAGTCTAATGGAGCTGGT
R:
TGTTGGTTCATCAGCATCCGG
Band lengths:
250-818
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]