GgaINT0044051 @ galGal3
Intron Retention
Gene
ENSGALG00000013090 | LOXL4
Description
NA
Coordinates
chr6:23682479-23682946:+
Coord C1 exon
chr6:23682479-23682646
Coord A exon
chr6:23682647-23682790
Coord C2 exon
chr6:23682791-23682946
Length
144 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGC
5' ss Score
9.6
3' ss Seq
GTTGTGTATCCCTTTACCAGGAG
3' ss Score
7.58
Exon sequences
Seq C1 exon
GTGCGCCTGGCTGGGGGCCGCAGCCCTGAGGAGGGCGTTGTGGAGGTGCTGGTGCCAGTGCAGGGCAGGCTGCAGTGGGGTGCAGTGTGTGGAGCTCAGTGGGGGCTCAACGAAGCCATGGTGGTCTGCAGGCAGCTGGGGTTGGGCTTTGCCAGCCATGCCCTACAG
Seq A exon
GTGAGCATCGTGAGTGTGCTGGGATGTGTCGGCATACAGCCCTGGGGTACGTGGGTCCAAGCCCTGGTACTGCTGGTAGTGGTGGTGCTGGGAGCTGGGGGATCAGATGAGGGCTGATCTGAGCGTTGTGTATCCCTTTACCAG
Seq C2 exon
GAGACCTGGTACTGGGCAGGCAGCCCCGACGCCTCGCAGGTGCTGATGAGTGGGGTGCGCTGCACGGGCACAGAGCTGGCCCTGCAGCAGTGCCAGCGCCACGGCCCCGTGCACTGCCCCACTGGCGGGGGACGCTTCTCGGCAGGGGTCACTTGC
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000013090:ENSGALT00000021368:9
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.054 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0053013=SRCR=PU(49.5=92.9)
A:
NA
C2:
PF0053013=SRCR=FE(48.6=100)
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:
GTGCAGTGTGTGGAGCTCAG
R:
AAGTGACCCCTGCCGAGAAG
Band lengths:
243-387
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]