GgaINT0000226 @ galGal3
Intron Retention
Gene
ENSGALG00000013254 | LOXL3
Description
NA
Coordinates
chr4_random:115197-115804:+
Coord C1 exon
chr4_random:115197-115359
Coord A exon
chr4_random:115360-115560
Coord C2 exon
chr4_random:115561-115804
Length
201 bp
Sequences
Splice sites
5' ss Seq
AAAGTGAGC
5' ss Score
5.89
3' ss Seq
GAGCCGCCATCTCTCCCCAGCTG
3' ss Score
6.92
Exon sequences
Seq C1 exon
GAGACGTGGTACTGGGATGCCAGCAACGTGACAGAAATGGTGCTGAGTGGTGTGAAGTGCGCTGGCCATGAGCTGTCCCTGAGCCACTGCCAGCACCACGGCAGCAGCCTGAACTGCAGGAACACGGGAACGCGCTTCGCTGCCGGTGTCATCTGCTCTGAAA
Seq A exon
GTGAGCAACCGCGGGGGCTGCGGGCAGTGGTGGCTGCAGGCGCTGGGGCTGTGGGCCCAGGGGCTGCAGACGGAGAGCCTGTAAGCAACGGGGGCTGCGGGTGGTGGGGCCGTGGGCTCCATTTTTGCCCCACTGGTGGGACGGCTGTGCACTGCGCTGCCTGGGGTGGCCATCCAGCCCTGAGCCGCCATCTCTCCCCAG
Seq C2 exon
CTGCCTCTGACCTGCTGCTGCACGCCCCGCTGGTGCAGGAGACGGCATACATCGAGGACCGCCCGCTGCACATGCTGTACTGCGCCGCCGAGGAGAATTGTCTGTCCAGCTCAGCCCGCCACGCCAACTGGCCTTACGGGCACCGCCGTCTGCTCCGCTTCTCCTCCCAGATCCACAACAACGGCCGCGCTGACTTTCGCCCCCAGGCTGGGCGGCACTCCTGGGTCTGGCACGAGTGTCACCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000013254:ENSGALT00000021647:8
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0053013=SRCR=PD(48.1=94.5)
A:
NA
C2:
PF0118612=Lysyl_oxidase=PU(66.9=96.3)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGTGCTGAGTGGTGTGAAGTG
R:
CGTTGTTGTGGATCTGGGAGG
Band lengths:
308-509
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]