GgaINT0001719 @ galGal3
Intron Retention
Gene
ENSGALG00000013419 | PBX4
Description
NA
Coordinates
chrUn_random:30304855-30305469:-
Coord C1 exon
chrUn_random:30305363-30305469
Coord A exon
chrUn_random:30304942-30305362
Coord C2 exon
chrUn_random:30304855-30304941
Length
421 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGC
5' ss Score
9.6
3' ss Seq
CCCGTGGGATCTTGTTGCAGATG
3' ss Score
8.76
Exon sequences
Seq C1 exon
CTTCCTCTGGCTCTTTTAAGATGACCAATTCTGGAGATTCCTTCATAAATCTGCAGTCGTTGACCTCCTACCAGAGCTCCCCGGTGGGAGGCAACGTGCAGTCACAG
Seq A exon
GTGAGCACGTTATTTCACTATTATTATTATTATTATTATTAAAGCAGTTTCTCTTCATATCAGATAAGGATGACTTTCTTCTCTTTGGAGTCAGATTGGTGAATCAAACCCATTGAAATCTGTGGGTTTTTGTTGTTGTTGTTGAAATCAAACTCTTAAGACTGAGCGAGACCTGAATTGATCTCCTGGTATCCTTCCATCCTTCAGATTCACATCAACAAATCGGTGTTGGCTTGTTTGAGAGTTGGTCTTGCCCTGCATAAATAGAACTTGATGGGGGCACTGCGGCGTTAATGGCGTTGATTTATAGTTATTTTAAATAAAGCAGGTGTATCCCGCTCGTAATACCTGATTTTTTTCTGATTAGTCATTATTTTTTTCTCTCCCCTTATTGGCATCATCCCGTGGGATCTTGTTGCAG
Seq C2 exon
ATGGATTCCTTGCACCATGTCATACACCAGGCAGGAAGATATGACACCATTGTGGGGAATCCTTTGTACACGACGCAGCGCATCGAC
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000013419:ENSGALT00000021886:7
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.500 A=NA C2=0.483
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TTCCTCTGGCTCTTTTAAGATGACC
R:
GATGCGCTGCGTCGTGTA
Band lengths:
190-611
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]