GgaINT1016855 @ galGal4
Intron Retention
Gene
ENSGALG00000000402 | LOXL2
Description
lysyl oxidase-like 2 [Source:HGNC Symbol;Acc:HGNC:6666]
Coordinates
chr22:1239476-1241702:+
Coord C1 exon
chr22:1239476-1239587
Coord A exon
chr22:1239588-1240327
Coord C2 exon
chr22:1240328-1241702
Length
740 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGA
5' ss Score
9.22
3' ss Seq
GTGTTCTCTGGGCTCACCAGGTG
3' ss Score
7.94
Exon sequences
Seq C1 exon
GTCGTCATCAACCCCAACTATGAAGTGGCTGAATCTGACTACTCCAACAACGTGATGAAATGCCGGAGTCGGTACGACGGGCAGCGCATCTGGATGTACAACTGCCACACAG
Seq A exon
GTGAGAAAACAGCACAGCCCAACTCCTTTCAACGTGCCTTAAGAATCATCAGATCCATCTAAAAATGGGAGTCGCAGGCTAAGCTGAACCACTTTTAACGTGGACAGTAACTCAACAGCAACTGCCTGTCAACTTCCAAGTAAAGCCCATGGCAAAGCCAGTTTCCATGGTTGGCTGAAGCTCCTCGAGGAATGTTTTTACTGATTTTTGTTATTAGTTTGTTGCTTTCCTGAAGAAAATACTCGTCTCGTATTACAGCCTGTGACCTAGTTCGAAAAGCCAAACCCACTGCAGTTGGACAAAGAGCACTGAAGTGGTGGATGAGCTCTCCAGCCGAGCCTGAAAATACTTTTTACTAAAAAATGTGCTTAGTTTTTTCCTCCCAACTAGCAAAAAGTGAGCACACGGCCCTGTTTAAGAGCAAAACAGAGCACCCACTTAGCATCACCCTCATGGAGACCATTGCACAGCCCTGATAGCCAACAAAGGTTGGCAGAAAACTGAGGGCAGGTTGTAGCCAAGTCTCCCACGGACACAGATTAGACCCAAAACTCTTTGGCTGTTCCAAATATGGCAAGGCTTAATTAATGCTTAAATCAATTAGCCATGAGCTACCTTGCTCTTCTAGCACTTGCTTTGAGCCCCTGTATGCTGGTTGTGCAACGCCCCCATTGCACAACACGTTGACCTCTTCTCTTGGCTGCTCTTTCCTAACCCGCTGTGTTCTCTGGGCTCACCAG
Seq C2 exon
GTGGCTCCTTCAGCGACGAAACAGAACAGAAGTTCGACCACTTCAGTGGACTCACAAATAACAAAGTGTCCACCCGATAGAGCAGCACTGCCTCCCATCCCACTATTTAAAGAAGCGAGGCTTCCCGCTGCGGTGATTCCCCCAACCACTGCGCCAAGAGAAAAGAAATCAAGCAATCAAACTCTAAATTAGCAAGGTAAATTATTTTCTAAAGCTGCCTTCCTTCCCGGTGTAAATGCTTGGATCACCTCTTGTAATTCCCATCCCCACTGCTGAGGATGTTGGGAGCAGGCTTTCAAACTCTACTGGGCTCCAACCTACCCCACCAGGACTTCTCCCTCCGTTTTGCAGGACCATCTTTATGTGTGTGCACAGCTCCGGGCTGCAGTGAGCACAGTTTGCCTTTGGTTGGGTATCAACAACCTCAATGGGTCTTTACCATTCATTTTCTTCAAATTTCGGTACTTTTAAGCTCAAGCTGAAGCACCATCGACGCATCCTCTTCCATTTGTGATGGTGCTTATCCTCAGCACTGCTGCCACTGCTCCATTTTAGCAAAGAAACACGGGAAAGAAAACAAGCAAACAAACAAAAATCGAAGCGTTCTTTCTGAGCAGAACAGTCTAAAGCATAATTTAATACTGCAACCAAACTCTTGCATTCAACAACCGACTCCCGGAACCACCCCTTCAATGGAGCAGTGAATGCAGAACTCTGCCTACATCCGCAGCAGAGCTCCACCACCACCCAGCAGCCACGATGGATCCACAGGATTGTTGCTTCCCCACTGCACAGTAAGCAATTCACCCAACAGCCCCCCACATCCATCTACACGTTACCTTCTAAGCTGGATATTCACTCTGTCTTTCGAAGGATGAGTTTAGTTAAGGCATTGTATCCCTGTACCTTACAGAGGTAACTTCGTGGCTTGCATCGCTGGGGATGCGCTGACCGCCTGCCTACGTTGGCTTTGAGGATCTCTTCTTTACACTTAGTCAGTTCACAATGGTGCTAAGTGTGCTCCTCTGTTTGTTTGAGGACATACGTTGCTACAGGTTTTCCGACACGCCTACTTGAATAAAACGTTTCACCCGGAGAAAAAAAAAAAAAATAAAAGAAAATGCTTTTAAATCCTACTTTATATTCCTACTCCACGACAGTTTAGGGCCTTGTTCACAATTCCTGGTGCTGAAGTTTCCTTCCCCCTCTGTGTTTGTACAGAAGGCTTCTACACGCAGCTAGAGCTAATGGGATAATGCCAATTAACCATCTCAACCCACAGGGATCAACCCACAAACCTACCTCACAGGGATGTTGTGAGGCTTAAAAGGTTCTTGCTAATGCCTACTGGAGTATTTCTTGTAGCCAAGATGGT
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000000402:ENSGALT00000000548:12
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:
PF0118612=Lysyl_oxidase=FE(18.1=100)
A:
NA
C2:
PF0118612=Lysyl_oxidase=PD(1.0=7.4)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACGTGATGAAATGCCGGAGTC
R:
CTCCCAACATCCTCAGCAGTG
Band lengths:
351-1091
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]