GgaINT0045756 @ galGal3
Intron Retention
Gene
ENSGALG00000013235 | PDK1
Description
NA
Coordinates
chr7:19080382-19081245:-
Coord C1 exon
chr7:19081174-19081245
Coord A exon
chr7:19080567-19081173
Coord C2 exon
chr7:19080382-19080566
Length
607 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
GTAAGGATCTGTCATATACCTCAATACTAATGTTATATGTAAGACTGGCAGGAAAAGAAGTGGCTTAAGATAAGCCACTAGATACTAGATGAGTCTCTAGATAAGAATCACAGTAACATTATCCCTTACCCCCTGGAAGGATGGAACATTGAAACATGAAACAAAGCACTTTTATGTCATATCATTCTGTGTGGGGCTTTTTTTGTTACACTGGGGAAACTATGAATATATTAACCAAATTTTTACCAGTTCTTTGCAACGTTGTCAGTGCTGTATGGAACTTTTCATCTGTGGATTGGGTTTGATCATTATTGGCTGACCATAGCTACTGTTGGACAGGCATGGGATGATTTGCCTGAACATGGTTGGCACAATTCTCTCTTCTTTTGGCATTAAGCAATTTATTAATTATATATATATAATATAATTATATTATTAATCAATCAAATTATTTATATGCTATAAAGACTGGGCTGTCTTCTCACTGCAGTAAGCAGACCCGTCCTACTTCTGTACACAGCTGTCTTCATTTTCATGGGCAGATACTCAGTTTGCCAGAGGATTACATTCATTTGAAAGTGAACACCTAACAATGTATTAATTTTAG
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:
254-861
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]