BtaINT0086260 @ bosTau6
Intron Retention
Gene
ENSBTAG00000018578 | LOXL3
Description
lysyl oxidase-like 3 [Source:HGNC Symbol;Acc:HGNC:13869]
Coordinates
chr11:10071901-10073875:+
Coord C1 exon
chr11:10071901-10071957
Coord A exon
chr11:10071958-10073526
Coord C2 exon
chr11:10073527-10073875
Length
1569 bp
Sequences
Splice sites
5' ss Seq
AAGGTAGGG
5' ss Score
8.76
3' ss Seq
CCTGGGCTTCTCAATTTCAGCTT
3' ss Score
8.95
Exon sequences
Seq C1 exon
TTGATCTACAGGACCAAGACTCTTCTCCCAGCCGCTAGGGTCCCCGTTCAGCCAAAG
Seq A exon
GTAGGGGGAGTCACGCTCCCGGTGGGAGGAAGGAGAGTTGTAGATGGAGAGGATGATGGAGGGACCTGGGAAAAGGGGTGATGTAGGGTAGAATCAAAGGAAAGCCAAGCTACTGAGGGTTGTATAGTCAAAGAAGACACAAGAAGAGTGGGGAAAGGAAGCAGATATTGGGGAGTGGGGCTACAGGGTGTTCCAAATAGGGCATCCGAAGTGCCCGAAGGCTAGGGGCTCCTCTGTGAGGCCCTCTCCCTGGGTCCCCAAGCCAAAATGTCCCCAAACAAAGCTTCCCTGTTGTGTTGTTTGTCTGAGTTGGGGGAAGCATGGGGCAGGGGTTGTGGGGGGGCGGGTAGGGGGAGCTCGCTGTAAAGGAGTTGTTCTCCTTTACAGAGGGAAGGCCTTGGCTGAGAAGCCGACTAGTGCTCTTGCCTCCTGTGGCCCCGGGAAAGAGATGGCTGTGTTGGCAGGAGGCTTGGACAACCCCACCCCACCCCACCCCACCCCACCCCACCCCAACCTTGAGGCCTGGCCCTTCTGGGCCCCTTGACCCTGCAGGGCATGTAGGATGTGTACCAAGTTCTCCAATGCATTCTGGTTCTCTGCCTTTTCTACCTGGAATCTGCCCAGAAAGGACTCTCAGCTTGGCTGCCATTTAGGGGACCTGAGATCTGAGGATGCCCTAAGCCCCTTCTTGCCTGCCTCTTTCCACAATCAGTAACTATCTGTCCTCTCTCTGACTGGCTGAACAGGATCATCTGGGTCCCTCCTGCCTCTGCTCCTTGGCTTTTGTCAGTCCCTCTCCTCCTCTTTGCCTTTTCATGAGGTTCGTGGGGTTCTCAAGGCAATTATACTGAGTTTCAGTAAGCTCTGGGAGTTGGTGATGGATAAGGAAGCCTGGCGTGCTGCAGTCTGTGGGATCGCAAAGACTGAGCAACTGAACTGAACTGAACTCCTCCTTACTCATTGCCTGCCTTTCTCAGTTGCTCCCCAATTCTGTGTGCCAGACTCTCTCCTGATCCCCTTCTGTCCATTTTCAACACACTCTCTCTCTCCGCTGTCTGTTTGGTCCCCTTTTATTCCCATAGTTTCCCTTCCTCTCACATCCTGTCTGTCTGGGTCTCCCTCTCTGTGTCTCTTGCTCGGTCTCAACCTATTTATCTTGATGGGCCTCTGATCTCGGTCTCTAATCTCTGTCTTTTGATCACTGGGTGTCCTTGACCTGTGAATCGGGATATAGACGTGATGATAGCAGAACTAGGGAAAGGACATTATGAGACATAACAACTAATAGTGAGCGTTTATTCTTTACAGAAGGGAGGGAGAGCCTTCTCTCTCTCTCTCTTTTTCTCTCTCTTTCTCTCTCTCTCTTCCCCCCGCCCCCCTCCCCAATCTGGGTGTCTCAGTCTGTGCCTCTGTTACTCTGTATTTCTCTTCTTACCTAGTATGTATTTCTGTCTCTCTTAACCCCTGGGTCCCTCCCTTTCTGTCACACTGGCTCTCTGTCTCTGGTCTTAACCAGTGTCTCTTTTCCTCTCATGACCTCTCTCTCAGACCTGGGCTTCTCAATTTCAG
Seq C2 exon
CTTCTCTCTCTCTGGGGCACCCAGGCCTTCCCTGCCATGGGACCTGTCAGCGTTTGGCAGTGGAGCCTGTGGGGGTTGCTGCTGTGCCTGCTGTGCAGTTCGTGCCTGGGATCTCCAACCCCATCCACGGCACCTGAGAAGAGGGCTGGGAGCCAGGGGCTGCGGTTTCGGCTGGCTGGTTTCCCCAGGAAGCCATCCGAGGGCCGTGTGGAGATACAGCGGGCTGGTGAATGGGGCACCATCTGCGATGATGACTTCACGCTGCAGGCTGCTCATGTCCTATGCCGGGAGCTGGGCTTCACAGAGGCCACAGGCTGGACCCACAGTGCCAAATATGGCCCTGGAACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000018578:ENSBTAT00000024724:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
5' UTR
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=0.076
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
PF0053013=SRCR=PU(57.3=52.4)
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACAGGACCAAGACTCTTCTCCC
R:
GCTCCCGGCATAGGACATGAG
Band lengths:
342-1911
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development