BtaINT0086264 @ bosTau6
Intron Retention
Gene
ENSBTAG00000018578 | LOXL3
Description
lysyl oxidase-like 3 [Source:HGNC Symbol;Acc:HGNC:13869]
Coordinates
chr11:10088977-10089833:+
Coord C1 exon
chr11:10088977-10089088
Coord A exon
chr11:10089089-10089270
Coord C2 exon
chr11:10089271-10089833
Length
182 bp
Sequences
Splice sites
5' ss Seq
TTGGTATTT
5' ss Score
2.39
3' ss Seq
ACCACCTGTTCACCTTGCAGGGG
3' ss Score
10.17
Exon sequences
Seq C1 exon
GTAGTCATCAACCCCAATTTTGAAGTAGCAGAGAGTGACTTCACCAACAACGCCATGAAATGTAACTGCAAATATGATGGACATCGCATCTGGGTGCACAACTGTCACATTG
Seq A exon
GTATTTGGTGGGAAGAGAAGCCAGAAGGCCTGGGGCTGGGAGGGAAAGGCCTTCATTCGCATCTCCCTAGGTTGTTTCTGAGTCTCCCCACCCACTTCTGGATCTCCCAGTCTCTCCACTTCCACCCACCCTTCCCCATAATGGGTCTGTTTTCCTACCCAAACCACCTGTTCACCTTGCAG
Seq C2 exon
GGGATGCCTTCAGTGAAGAGGCCAACAGGAGGTTTGAACGCTACCCTGGCCAGACCAGTAACCAGATCATCTAAGGTGCCACCACCTTCCTCTGCAGACCACCACTGGCCCCTAACGGCAGGGGTCTGAGGCTGCCATTACCTCAGGAGCTTACCAAGGAATCTTTGATGTCGGCAGGCCCACAGCACTCGTCCGTTGTGCACTGCAGATATGGAACCATCAAGCAGAAATCACTGCCCTCTTTCTTAGGCTAGCTGTCCTGATCTGTGGCCAGGCACGGGGCATTCTGCTCCCAGGCCCAGCACAAAGCCAAGCACGCCAGAGAGAGGCGCACCTGACTGACTACCCAGGACACCAGACAACAGCGGCTCGTTTTCTTGAACAGGGAGGTCAGAACGGTTTAACTCCAGCATCTCCCCTCAGTTCTGGAAGACAAAGCTTTACCTCTAGCCTTTTTGTGGGGGGAAAGAGCAGTGTTCCACCCTTCCCCTCATTTTTCAGTATGACATGTTGTTAGGTATAATTTTATTTTATATAAAAAGTGTTTTTGTGATTCTTCAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000018578:ENSBTAT00000024724:13
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=8.0)
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:
GATGGACATCGCATCTGGGTG
R:
TATCTGCAGTGCACAACGGAC
Band lengths:
248-430
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development