BtaINT0086256 @ bosTau6
Intron Retention
Gene
ENSBTAG00000006214 | LOXL2
Description
lysyl oxidase homolog 2 precursor [Source:RefSeq peptide;Acc:NP_001092523]
Coordinates
chr8:71310112-71311497:-
Coord C1 exon
chr8:71311314-71311497
Coord A exon
chr8:71310144-71311313
Coord C2 exon
chr8:71310112-71310143
Length
1170 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAGG
5' ss Score
10.51
3' ss Seq
GGATGTTTCCACACTGTCAGACA
3' ss Score
2.12
Exon sequences
Seq C1 exon
CAACCACTGGTGCGATTGAGAGGTGGTGCCAACGTCGGGGAGGGCCGCGTGGAGGTGCTCAAGAATGGAGAATGGGGTACCGTCTGCGACGACAAGTGGGACCTGGTGTCTGCCAGCGTGGTCTGCAGAGAGCTGGGCTTCGGGAGTGCCAAAGAGGCCATCACGGGCTCCCGGCTGGGGCAAG
Seq A exon
GTAAGGCGTGGGAAGAGTGTTCCTTGGCCTCTCTTCACAGAAGGCATCACGTGGGAGCCCAGCCTGGGCTGGCTTTGTCCTTTACAGTCCCTTCTGGCTTTGCCTCTTCCCTCCAGCACCTGCTTCCCACGTGGTGCTAGTGGTAAAGAACCCGCCTGCCAATGCAGGAGACATAAGAGAAGCGGGTTCTATCCCTGGGTTGAGAAGATCCCCTGGTATAGGAAATGGAAATCCACTCCAGTATTCTTGCCTGGAGAATTCCATGCACAGAGGAGCCTGGTGGGCTACAGTCCATGGGGTCGCAAAGAGTCAGACATGACAGAGTGCACACCCACATATCCAGCACCCAGCTCTGTTAGACAGTCCTACACCTCTCTCCAGGTAGTTCAAGCTGGAAGGGCGTTAGAGAACATTGTCCCCATTTTATGGATTTGGAAGCTGAGGCCCCGAGAAGGAAGTAAACAACCAAGATAAGACAACATATTAGCAACCATTGGATATTCTAACAGAGGTTTCCTAGCTCCTAACCCAGTGCTCCCCACGGCCCCACTGAGAAAGCTGGAATTTCCAGGCTCTTTCTCCAGGAGAAGAACTGGGAATTCATGAGGCTGTGGACCACCCCAGGCACAGAATTCCAAATCTTACTTTCCCCGCTTAGGTTAGCGCTATGAACATTCTCTCCCTGCCACCAGAGGTTGGGAACAGTTTGCACTTCTCCCAGTGTCTTGAGCTGCTAAGAAAAAAAGGGGCCTGGCTTTTGTTAAGTGTCCCAAACAAATCTTTCTTCTGAGCAAGGAGCAAAAGTATAGGAGGCTTTCAAGCCTGTCACCCTGTTGAGAGGAATGTTGTAAACGTGACATGACAGCACAGTAGGAAACTTCCTCTCCCGAGCCCTGTGAAGGCCATTGCTCCGTGTCAGCCCCTGTCCTGCAGAGAATGGAATCTTCGCTCCAGAGTCTGCAGCCCAGAGAGCGTCCAGCCTTCCCCCCATAGAACTGTGTTGAGCAGAGGAGACCAGTTATCTGGAATCTTCTCGCCACTGACCCCCAGGGAGGCTGCTGCAGCCGGGGGATTGCTGTGGTTTGGAGAGGGTGGGGAGGAAGGAGAGTGAGCTGCTGGCGAGGGTGGGCTGTCCTGTCCTGTGGGGAGAGGATGTTTCCACACTGTCAG
Seq C2 exon
ACATAGGGCCGTCGCCCTGCAGAAAGGAATGT
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000006214:ENSBTAT00000008159:5
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.016 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0053013=SRCR=PU(57.3=88.7)
A:
NA
C2:
PF0053013=SRCR=FE(10.4=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CAACCACTGGTGCGATTGAGA
R:
CATTCCTTTCTGCAGGGCGAC
Band lengths:
215-1385
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]