HsaINT0095584 @ hg19
Intron Retention
Gene
ENSG00000115318 | LOXL3
Description
lysyl oxidase-like 3 [Source:HGNC Symbol;Acc:13869]
Coordinates
chr2:74776496-74777475:-
Coord C1 exon
chr2:74777312-74777475
Coord A exon
chr2:74776711-74777311
Coord C2 exon
chr2:74776496-74776710
Length
601 bp
Sequences
Splice sites
5' ss Seq
GAGGTCTGC
5' ss Score
3.9
3' ss Seq
GCTTGTGGCCCCGCCCCCAGGTA
3' ss Score
8.16
Exon sequences
Seq C1 exon
GCCGCATCTGGCTGGACAACTTGAGCTGCAGTGGGACCGAGCAGAGTGTGACTGAATGTGCCTCCCGGGGCTGGGGGAACAGTGACTGTACGCACGATGAGGATGCTGGGGTCATCTGCAAAGACCAGCGCCTCCCTGGCTTCTCGGACTCCAATGTCATTGAG
Seq A exon
GTCTGCATTTCCTAGACATACACACACACACTACCCAGGATAGCCGAGAGTACTGTGGGGTGGTTAGCGGAGACATTAGAAGGTAGTTACCCCTGGGGGATCATTTGGATTGGTGGGAGACTTGGAAAAGCAAATGATAGAGCTCCCAGATGCTGTAAAATCCAACAGGTTTTTAGCATTCACATTCAAGGGGCTAAACCTGGCATGAGCCTCTCCAGCTTCATCCCTAGTCACCCCTGGGGCACCTGGTGCTCTCCTTCTCCTCAAATGTTCCTGCTTTCCTGAGACATCTTCCTTCTGACTTTCTCCTCCTTCAAAGCCATTTCCTTTTTGAAGTGCTCCCTCCTGCTCCAGGCACAGGGAGGGCCTCCTTCCTAGTGCCCTGAATCCTCTCTGGGAGCACAGCACATCCCACGCGCTGCTGGCTGCAAGAGAGTCCACACCGCGGACTGCGGCCATCGTGGCCGCTCTCTCAGCGCCGCCTCGGGCCCATCCCGCCACTGGGTTTACAGCAGGCACACCAAGCAGGGTTCCTTAAGGGCGGCGGGACACATGAAAGGTGCCACTGGGATTCTTTCCCTGCTTGTGGCCCCGCCCCCAG
Seq C2 exon
GTAGAGCATCACCTGCAAGTGGAGGAGGTGCGAATTCGACCCGCCGTTGGGTGGGGCAGACGACCCCTGCCCGTGACGGAGGGGCTGGTGGAAGTCAGGCTTCCTGACGGCTGGTCGCAAGTGTGCGACAAAGGCTGGAGCGCCCACAACAGCCACGTGGTCTGCGGGATGCTGGGCTTCCCCAGCGAAAAGAGGGTCAACGCGGCCTTCTACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000115318-LOXL3:NM_032603:3
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.012 A=NA C2=0.025
Domain overlap (PFAM):
C1:
PF0053013=SRCR=PD(41.7=72.7)
A:
NA
C2:
PF0053013=SRCR=PU(48.5=68.1)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGGACAACTTGAGCTGCAGTG
R:
GTTGACCCTCTTTTCGCTGGG
Band lengths:
353-954
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
Other AS DBs:
FasterDB (Includes CLIP-seq data)
AS-ALPS (AS-induced ALteration of Protein Structure, links to PINs)
APPRIS (Selection of principal isoform)
DEU primates (Only for human)