BtaINT0086271 @ bosTau6
Intron Retention
Gene
ENSBTAG00000018578 | LOXL3
Description
lysyl oxidase-like 3 [Source:HGNC Symbol;Acc:HGNC:13869]
Coordinates
chr11:10087532-10087996:+
Coord C1 exon
chr11:10087532-10087699
Coord A exon
chr11:10087700-10087833
Coord C2 exon
chr11:10087834-10087996
Length
134 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGT
5' ss Score
10.67
3' ss Seq
ACACCTCTGTATGTCCCCAGGAG
3' ss Score
9.72
Exon sequences
Seq C1 exon
ATCCGACTCAGCGGGGGCCGCAGCCGACATGAAGGGCGAGTCGAAGTGCAAATAGGGGGACCTGGGTCCTTTCGCTGGGGCCTCATCTGTGGAGATGACTGGGGAACACTGGAGGCCATGGTTGCCTGCAGGCAGCTTGGACTGGGCTATGCCAACCACGGCCTACAG
Seq A exon
GTGAGTGGGAAGGAGAAGGGAACCAAGGCTATTGCCTCCAAAGGTTGTGTCTGGGACACAGGTCTGCCAAAATGAGTCTCTTGGCTGGGGAGGCTGGATGGTGGCCTCACAAAAACACCTCTGTATGTCCCCAG
Seq C2 exon
GAGACCTGGTACTGGGATTCAGGAAATGTGACAGACGTGGTGATGAGTGGAGTGCGCTGCACAGGGGCTGAGCTGTCCCTGGACCAGTGTGCTCATCATGGCACCCATGTCACCTGCAAGAGGACAGGAAGCCGTTTTACTGCTGGAGTCATTTGTTCTGAAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000018578:ENSBTAT00000024724:8
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.071 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0053013=SRCR=PU(49.1=92.9)
A:
NA
C2:
PF0053013=SRCR=PD(49.1=94.5)
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:
GACATGAAGGGCGAGTCGAAG
R:
CCATGATGAGCACACTGGTCC
Band lengths:
244-378
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development