HsaINT0095589 @ hg38
Intron Retention
Gene
ENSG00000115318 | LOXL3
Description
lysyl oxidase like 3 [Source:HGNC Symbol;Acc:HGNC:13869]
Coordinates
chr2:74535292-74535755:-
Coord C1 exon
chr2:74535588-74535755
Coord A exon
chr2:74535455-74535587
Coord C2 exon
chr2:74535292-74535454
Length
133 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGT
5' ss Score
10.67
3' ss Seq
ACATCTGCATATGTCCCCAGGAG
3' ss Score
8.18
Exon sequences
Seq C1 exon
ATCCGACTCAGTGGGGGCCGCAGCCAACATGAGGGGCGAGTCGAGGTGCAAATAGGGGGACCTGGGCCCCTTCGCTGGGGCCTCATCTGTGGGGATGACTGGGGGACCCTGGAGGCCATGGTGGCCTGTAGGCAACTGGGTCTGGGCTACGCCAACCACGGCCTGCAG
Seq A exon
GTGAGTGGGAAGGAAAGGGGAGCCGAGGCTGTTGTCTCAAAGCCTGTGTTTTGGGCAGAGGGCTGAGGAATGAGTCCCTTGGCCCAAGATGCTGGATCCTGGGCCTTACAGAAACATCTGCATATGTCCCCAG
Seq C2 exon
GAGACCTGGTACTGGGACTCTGGGAATATAACAGAGGTGGTGATGAGTGGAGTGCGCTGCACAGGGACTGAGCTGTCCCTGGATCAGTGTGCCCATCATGGCACCCACATCACCTGCAAGAGGACAGGGACCCGCTTCACTGCTGGAGTCATCTGTTCTGAGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000115318:ENST00000264094:8
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.151 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
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CGAGTCGAGGTGCAAATAGGG
R:
GTCCTCTTGCAGGTGATGTGG
Band lengths:
257-390
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains
- Pre-implantation embryo development