GgaINT0000220 @ galGal3
Intron Retention
Gene
ENSGALG00000013254 | LOXL3
Description
NA
Coordinates
chr4_random:108786-109427:+
Coord C1 exon
chr4_random:108786-108949
Coord A exon
chr4_random:108950-109215
Coord C2 exon
chr4_random:109216-109427
Length
266 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGG
5' ss Score
8.41
3' ss Seq
GAGGCTGACGTGCCTTGCAGACG
3' ss Score
5.92
Exon sequences
Seq C1 exon
GGCGGATCTGGTTGGACAACGTGAACTGTGCGGGGAATGAGAAGAGCATCAGGGACTGCAAACACCGGGGCTGGGGGAACAGCGACTGCAGCCACGAGGAGGATGCGGGCGTCATCTGCAAGGATGAGCGCATCCCAGGCTTCAAAGACTCCAACGTCATCGAG
Seq A exon
GTGAGGGGGCTGCAGACAGCTCGCCCTGCTGTGGAGGGACAGCAGCTATTTCCTGCTGTGCTCCCAGAGATGTGCCCTGGGACCAGGGTTGTGTGGGATGGAGTTGGGCACTCGGATTCTCAGTGCCATTGGAGGTTTCCTGCGGGGCTGTGGGACCTGCCTGTCCCTGCTCCTCACCAGGGATGGAGGACCTCTTCTGTGGGACACCCTGGGGAGGGGCTGGCAGAGTGCTGGGTGCCGGGTGCCGAGGCTGACGTGCCTTGCAG
Seq C2 exon
ACGGAGCAGAGCCACGTGGAGGAGGTCCGTCTGCGCGCGGTGGTGTCGGGGGCACAGCGGCGGCTGCCAGTGACAGAGGGCATCGTGGAGGTGCGCTACAAGGATGGCTGGGCACAGATCTGCGATGAGGGCTGGGACAGCAAGAACAGCCACGTCATCTGCGGCATGATGGGCTTCCCCACTGAGAAGAAGGTGAACAGGAACTTCTACAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000013254:ENSGALT00000021647:2
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=0.014
Domain overlap (PFAM):
C1:
PF0053013=SRCR=PD(41.7=72.7)
A:
NA
C2:
PF0053013=SRCR=PU(50.0=73.2)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCGGGGAATGAGAAGAGCATC
R:
GATGACGTGGCTGTTCTTGCT
Band lengths:
294-560
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]