BtaINT0086261 @ bosTau6
Intron Retention
Gene
ENSBTAG00000018578 | LOXL3
Description
lysyl oxidase-like 3 [Source:HGNC Symbol;Acc:HGNC:13869]
Coordinates
chr11:10088199-10088653:+
Coord C1 exon
chr11:10088199-10088442
Coord A exon
chr11:10088443-10088537
Coord C2 exon
chr11:10088538-10088653
Length
95 bp
Sequences
Splice sites
5' ss Seq
TGGGTGAGA
5' ss Score
6.04
3' ss Seq
GGGTCCCCTTGTCCCCACAGGCA
3' ss Score
10.68
Exon sequences
Seq C1 exon
CCGCGTCAGATCTGCTGTTGCACTCAGCACTGGTGCAGGAGACCGCTTACATCGAGGACCGGCCTCTGCACATGCTGTATTGTGCTGCTGAAGAGAACTGCCTGGCCAGCTCGGCCCGCTCAGCCAACTGGCCTTACGGCCACCGGCGTCTGCTCAGATTCTCCTCCCAGATCCACAACCTGGGACGTGCTGACTTCAGGCCCAAGGCTGGGCGCCACTCCTGGGTGTGGCATGAATGTCATGG
Seq A exon
GTGAGAGGGTCAAGTAGTAGAAGGGCAAGACCACTGGGGAAGAGGTGAGCCTGCTGGGGGCACGGAAAGAAACAGGGGTCCCCTTGTCCCCACAG
Seq C2 exon
GCATTATCACAGTATGGACATCTTCACTCACTACGATATCCTGACCCCCAACGGCACCAAGGTGGCCGAGGGCCACAAAGCTAGTTTCTGTCTAGAAGACACCGAATGTCAGGAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000018578:ENSBTAT00000024724:10
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0118612=Lysyl_oxidase=PU(38.7=96.3)
A:
NA
C2:
PF0118612=Lysyl_oxidase=FE(19.1=100)
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:
CTCCTCCCAGATCCACAACCT
R:
AAACTAGCTTTGTGGCCCTCG
Band lengths:
171-266
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development