GgaINT0001718 @ galGal3
Intron Retention
Gene
ENSGALG00000013419 | PBX4
Description
NA
Coordinates
chrUn_random:30305363-30305795:-
Coord C1 exon
chrUn_random:30305639-30305795
Coord A exon
chrUn_random:30305470-30305638
Coord C2 exon
chrUn_random:30305363-30305469
Length
169 bp
Sequences
Splice sites
5' ss Seq
CGGGTAAGG
5' ss Score
10.17
3' ss Seq
TTTGTTTTCCTGTGATTCAGCTT
3' ss Score
7.31
Exon sequences
Seq C1 exon
GTTTCCAACTGGTTCGGTAACAAAAGAATTCGGTACAAGAAGAACATGGGGAAGTTCCAAGAAGAAGCCAACATTTACGCTGCGAAAACAGCGGTGGATGCGACCAACGTTGTGGCTCAGGGCAACCGGGCAAACTCCCCATCAACACCAAATTCGG
Seq A exon
GTAAGGAGGAGCACTTTGGAAGCCTCCAATTCCCTCTTGTGACAGCGAGCGCCGTGAACTACCGACGGTTGGAAATGTGGGAAATATTGGAAACGTTGGAAATAAAAGATAGATACATCCATTTTTGCACTGAATTTTCTTTTCCTTTCTTTGTTTTCCTGTGATTCAG
Seq C2 exon
CTTCCTCTGGCTCTTTTAAGATGACCAATTCTGGAGATTCCTTCATAAATCTGCAGTCGTTGACCTCCTACCAGAGCTCCCCGGTGGGAGGCAACGTGCAGTCACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000013419:ENSGALT00000021886:6
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.321 A=NA C2=0.500
Domain overlap (PFAM):
C1:
PF0004624=Homeobox=PD(21.7=24.5)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTTTCCAACTGGTTCGGTAACA
R:
CACCGGGGAGCTCTGGTAG
Band lengths:
243-412
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]