GgaINT0044050 @ galGal3
Intron Retention
Gene
ENSGALG00000013090 | LOXL4
Description
NA
Coordinates
chr6:23682048-23682646:+
Coord C1 exon
chr6:23682048-23682202
Coord A exon
chr6:23682203-23682478
Coord C2 exon
chr6:23682479-23682646
Length
276 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGC
5' ss Score
9.6
3' ss Seq
TAGCCCCTCTCTGCACACAGGTG
3' ss Score
8.29
Exon sequences
Seq C1 exon
GCCTGGGGCCCATCCACATGAGTGAGGTGCGCTGCATTGGCCACGAGCGCTCCCTGGGTGAGTGCCGCTTCCAGGACGGTGAGCAGAGTGGGTGCCGGCACGATGACGACGCGGCCGTCCGCTGCCACGTACCCCACATGGACTTCCAGAGCCAG
Seq A exon
GTGAGCCCCTGCCCCATTGTACAGCCCTCCACACAGAGCCCCATTGCACAGCCCCTCCATGCAGAGCCCCATTGCACAGCCCCTCCATGCAGAGCCTTTAGCTCCCTTCCTATTATGGATGCTTGGAGCAGCCCAAGGGGATGGGGGCAAGTAGAGCAACTCAAGCCACACTGATGTGGGGTCTGCAGGACACGCTGGAAGTGGTCATGTGGGATGATGGATACACAGGGCTTCCTACCCCACAGCAGCCCTGTCCTAGCCCCTCTCTGCACACAG
Seq C2 exon
GTGCGCCTGGCTGGGGGCCGCAGCCCTGAGGAGGGCGTTGTGGAGGTGCTGGTGCCAGTGCAGGGCAGGCTGCAGTGGGGTGCAGTGTGTGGAGCTCAGTGGGGGCTCAACGAAGCCATGGTGGTCTGCAGGCAGCTGGGGTTGGGCTTTGCCAGCCATGCCCTACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000013090:ENSGALT00000021368:8
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=0.054
Domain overlap (PFAM):
C1:
PF0053013=SRCR=PD(42.9=80.8)
A:
NA
C2:
PF0053013=SRCR=PU(49.5=92.9)
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:
GGGCCCATCCACATGAGTG
R:
CAAAGCCCAACCCCAGCTG
Band lengths:
301-577
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]