GgaINT0044045 @ galGal3
Intron Retention
Gene
ENSGALG00000013090 | LOXL4
Description
NA
Coordinates
chr6:23680466-23680934:+
Coord C1 exon
chr6:23680466-23680644
Coord A exon
chr6:23680645-23680722
Coord C2 exon
chr6:23680723-23680934
Length
78 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGT
5' ss Score
10.03
3' ss Seq
CCACTGTGGCCTCCCTGCAGGGG
3' ss Score
10.13
Exon sequences
Seq C1 exon
GTCCCATCTGGTTAGACAATGTGCAGTGTGGGGGCAATGAGGTGTCCCTGGCTGACTGCGCCCACAACGGTTGGGGCACGAGTGACTGCCACCATGGCGAGGATGCCGGTGTGGTGTGCTCGGGGCAGCGCCTGCGTGGTGACCCCCCCTTGACATCAGCCCCTGCTGCCCTGGGAGAG
Seq A exon
GTGAGTAGGGGCTGTCCATCCATTGAGATGGTTGGGGGTCTAGGGTGGATCTTATTACCCACTGTGGCCTCCCTGCAG
Seq C2 exon
GGGCCAGGGCTGAGCTTGGAGGAGGTGCGGATCAAACCCATCCTGGCTTGGGCTAAGCTGAGCATGCCAGTGGTGGAGGGAGCAGTGGAGGTGAAGTACAACGGGCGCTGGAGACAGGTGTGCGACGCTGGCTGGACCCAGAATAACAGCCGTGTAGTGTGTGGGACGCTGGGCTTCCCCCGCGAGAAGCGTGTCAACACCAGCTTCTACCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000013090:ENSGALT00000021368:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.133 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0053013=SRCR=PD(41.7=66.7)
A:
NA
C2:
PF0053013=SRCR=PU(43.1=70.4)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CACGAGTGACTGCCACCATG
R:
CCACTGGCATGCTCAGCTTAG
Band lengths:
176-254
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]