GgaINT0097526 @ galGal3
Intron Retention
Gene
ENSGALG00000009700 | PDK4
Description
NA
Coordinates
chr2:23868766-23869586:-
Coord C1 exon
chr2:23869476-23869586
Coord A exon
chr2:23868880-23869475
Coord C2 exon
chr2:23868766-23868879
Length
596 bp
Sequences
Splice sites
5' ss Seq
CTTGTAAGA
5' ss Score
4.17
3' ss Seq
TTTTGTACTGTACTTTTTAGGCT
3' ss Score
8.8
Exon sequences
Seq C1 exon
ATCTCTGACAGGGGAGGTGGTGTTCCAGTAAGGAAAATTGAGCAGCTGTTTAGCTACATGTATTCCACAGCACCAAGGCCAAGGATGGATGATGGTCGACAGACTCCTCTT
Seq A exon
GTAAGATGATTTCAATGTTCAAGTTGCTATAAGTATTGGGCAGGTTAATAATAAATAATGAATGCTATTTCTACCCTACTGCTTTGTAGGGTATGCAGAGATTGAGCCTCATAGATAAGAGTTAACGTGCTATTAAATAAATTTAATAGCTAGCTCAATGAATGTGCCTTTAAAGGTATAAACAGAGACATAATCCAACCTAATCTGATTTTTCTCCTACTCCAATGATAATAATTTACTTGATCTTCACTCCCACTCAGTCATCAAACTTACTAGAAGTGCTGTCTTTACAGAGGCAAGCACAATGGGATGTTTAGTTATCTACTAGTAAAAACTTACACTAATCAAGCTGTACTAGTGAAAACTGGACAAGGAAAACACAAGTGTAATATGTGAGAGTAAGACTTGGGTATATCTACATCTTCCTCCTTGATGGAGACTCTTCTTAAATAGTCAGTTTCCTTATGAAACTGATTAGAGATTTCCTCTAAGAGAAAGCGTAAAGGACTTCTAAAGTCTAGGATCTCTGCAAATTTCCTATTTATTTTGAAGTCGTAAGAACTAACACAACATTCATTTTGTACTGTACTTTTTAG
Seq C2 exon
GCTGGCTTTGGATATGGCTTGCCAATTTCACGTCTATATGCCAAATACTTCCAAGGAGACTTAAATCTTTACTCCATATGTGGCTATGGAACAGATGCTATTATCTACTTGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000009700:ENSGALT00000015790:9
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:
PF0251821=HATPase_c=FE(29.0=100)
A:
NA
C2:
PF0251821=HATPase_c=FE(29.8=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:
ATCTCTGACAGGGGAGGTGGT
R:
TCAAGTAGATAATAGCATCTGTTCCA
Band lengths:
223-819
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]