GgaINT0097519 @ galGal3
Intron Retention
Gene
ENSGALG00000009700 | PDK4
Description
NA
Coordinates
chr2:23873012-23874036:-
Coord C1 exon
chr2:23873895-23874036
Coord A exon
chr2:23873084-23873894
Coord C2 exon
chr2:23873012-23873083
Length
811 bp
Sequences
Splice sites
5' ss Seq
CTGGTAAGT
5' ss Score
10.65
3' ss Seq
TTCTTCTGTGTTCTCAATAGGTA
3' ss Score
11.91
Exon sequences
Seq C1 exon
GCTCGACTAATGGGTGTGAAAGGACTTCCTTTGCGTTCCTGCGACAAGAGCTCCCCGTGAGGTTTGCAAACATACTGAGAGAAATCGAGCTCCTTCCTGATAAATTGCTAAGCACCCCTTCAGTGCAGTTAGTGAAAAGCTG
Seq A exon
GTAAGTGAAAACGGCCTGGATTGAGCCTGCAGAATAACATGGCTTCAACAGCTTAGTTGTCGTCAATGCTTTTGAGTAACTTGATGTAGCAAGGAAGACTTGCTTCTACTTCCTAACAAGCAAGAAGAGTGAGAGAGTCAGTGCATGCCATGTGAAAACAGAAGAGCTATGTGGAACTGGAAGATCAGGGTGTATTCTTGCCTGAGTCTCTCACTGGTGGAATTGTTAATAAGGCTTCCATTCTGTAGCAAATTGCCTCGACCTGTGAGGTGTTTATCATTCAGTTAACATCCACTCTGTAGTGGGCAGTGATTGGATCAGAATTAACCTTGCTCTACTGGCACAATTGCAGCACTTTGCATACAGAGCAAAAGTATTAGAGTAAGATCCAGAAACTGTTCTTAATCTAGCATACTACAGTTGTGCCTTTGCAATATGCGTCAATGCTGTCAGGTGTCATTAACAAAGAGGCTCAAGTACTTAGCTTGTGTCAAAGCTGATCAGATCTGGAAAAAATTTTGCTCAGGTACTTTCCTAATGATGATCTTCTTTTGAAATGCCTTTCTTACCAGCTTGAATTATAAGAGACATCGATGTTACTACACTGATGTTTTAAATTCCTTTCTGGGTGGCAAGCACAAGAAGGCTTGTGTGACTATCTGTGTTCCTGTACTTAGGTGGAGCTTTGTTCTGAAGATACTTTAGATTTCAAGCTGACTTGTTAAGAGTTATGACTCGAACAAGACACTGATCATCTTGTTCCTACTAATAAGAATCAACTGATAGCATGTTTCTTCTGTGTTCTCAATAG
Seq C2 exon
GTACATCCAAAGTCTAATGGAGCTGGTTGAGTTCCATCAGAAAAGCCCAGATGACCAAAAAGTCTTATCTGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000009700:ENSGALT00000015790:2
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(28.0=100)
A:
NA
C2:
PF104364=BCDHK_Adom3=FE(14.3=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:
GCTCGACTAATGGGTGTGAAAGG
R:
TCAGATAAGACTTTTTGGTCATCTGG
Band lengths:
214-1025
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]