BtaINT0086253 @ bosTau6
Intron Retention
Gene
ENSBTAG00000006214 | LOXL2
Description
lysyl oxidase homolog 2 precursor [Source:RefSeq peptide;Acc:NP_001092523]
Coordinates
chr8:71278583-71280440:-
Coord C1 exon
chr8:71280329-71280440
Coord A exon
chr8:71279557-71280328
Coord C2 exon
chr8:71278583-71279556
Length
772 bp
Sequences
Splice sites
5' ss Seq
TAGGTAAGG
5' ss Score
9.31
3' ss Seq
TCTGATGCCCGTTTCCCCAGGTG
3' ss Score
9.88
Exon sequences
Seq C1 exon
GTTGTCATCAATCCCAACTACGAGGTGGCGGAGTCTGACTACACCAACAACATCATGAAGTGCAGGACCCGGTATGATGGCCACCGCATCTGGATGTACAATTGTCACATAG
Seq A exon
GTAAGGCCTCGGGGCCTGCTGGGGAGCACTGTGCCCCCAGGGCTGCCCCTCCTCAGGCCAGCCAGGTCCTCCCACTCCTCAACCCACCTCCAGGAGACAGGCGGGAGCTGCCCCACTTTCTCCAGGAAACAGAGCGCCTTCCTAAGTTGGGTAAAGACCTTGGGGAGGGGGGCCAGTCTCACGTTTCCACACACACGGGAAGGATATGGTGAACACACAGGCCTGGATGAAGACGGAGTTTTCACGGCCAGCTTTGGCTGAGGCAAGAGAATGGGACAGAAATGGGCCGGCCCAGCACAGACCCCAAAGCTATTTAAGGGCTGGCGAAGCTGAGGCCACCACCTCATTATGCGTGAGACCGCAAAAATGTGGGCGTCGGCAATTTGTGGGCTCTGTGTGTCATTTTCCTGTCGAGCTCTAGCCGCCCCCGTGGCTTCTGGCCACCAGTGAAGAAGCATTTCCCTGCATTATACAACCTGGATTCCGAAAGGGGAGGCTGGGCTTTCTCCTCCACTGGCAAGGTGATGGCCTTGCTCTCGGTGGAGGCGAAAACTAACGGCATTAGATTAAGTCACTCCTTCAGCCGACTCTGCCAGGGCAGCTGACGTGAGCCTGGCCCTACAGATGGCCAGCACCTGTCACTGCCCTGCTGGCATCACACACAGGTGGCCCTGCAGGCCGCCTGGGGAGGATGGGGTGGCTCCAGCTCTGCGGGGGGAGACCTGTGCATCTGGTTTGCCCAACATTGTCTCTCTGATGCCCGTTTCCCCAG
Seq C2 exon
GTGGTTCCTTCAGTGAAGAGACGGAAAAAAAGTTTGAGCACTTCAGTGGACTCATAAATAACCAGGTCTCCAAGCGGTAAAGTGGCAACATGGTCATCTCCTGCCTTCAGGCCACGGGCATCTCCCCCAAGAACTGCAGTCTGACCGGATATCACCCTGCTCCCCCTCATCCAGCCCGGCCCTGCCCATCTCGACCCCCTGCAGCCCTCGGCCAAGCTCAGGAGGAAGGCGAGGAAGGCATGTTCCTGACACCTGCAGCCTGGGACAGCCTCCGGGGCTGGGGCTCGTCCACGGGGCGGTGGGGACCAGCGCCAACTAAGAGCCATCCTGGCTGGGACCACGGGCACACAGGTGGTCAGCTGCTTGTCCCGTCCAAGGCGTGGTCCACTCCAAGCCTCATCACCTGCCCGGCTCACCACAGATAACATGGGGCCATTTTCTTCTCAAGTTACATGTTGGCAACGTGGGTTAGCAGCCCAAGGAGGCCAGGCTGGATCCCACTTCTCCTCCTCTTAGGTTGTTTCCAGCCAACTTGAATATCTAGACTTCTCTTCCAATTAAATGACCTGCCTCTACTCTGTTTATTCTATTCACACATATAAGTAATGCTGCCACCTGTCTTCTGATCCAGTGAGCTCAGAGATGGTGCTTCTCTTGCCCCCAGACACCTACACCCCTGTGTCCTCCTATTTTTCAAGATACTATAATTATATTCTATTTTCACAGACTTTGAAACACAAAGTAATTTAGTGGCATTTCATATCGGGTATCTGGGCCTTTGAACGTACAGCTCAAAAGAAAAAGCAGCCCACCTGTGTAAGTGACGCCTCTGTCTGTCCTTCTAATTCTGTGGGTAATTGATTCAACGGTGCTAGAACCAGGGTTCTGGGTGAGGAGGACGCTCACCGATCGCCATGTGTCATCACGGACACTTACACATACTTGAAACTACGAATAAAAGATTTATGACCTGC
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000006214:ENSBTAT00000008159:16
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
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GAGGTGGCGGAGTCTGACTAC
R:
GGTGTCAGGAACATGCCTTCC
Band lengths:
344-1116
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]