HsaINT0095579 @ hg19
Intron Retention
Gene
ENSG00000115318 | LOXL3
Description
lysyl oxidase-like 3 [Source:HGNC Symbol;Acc:13869]
Coordinates
chr2:74761443-74761901:-
Coord C1 exon
chr2:74761658-74761901
Coord A exon
chr2:74761559-74761657
Coord C2 exon
chr2:74761443-74761558
Length
99 bp
Sequences
Splice sites
5' ss Seq
TGGGTGAGA
5' ss Score
6.04
3' ss Seq
AAGTTCCCTTCTCCCCACAGGCA
3' ss Score
10.83
Exon sequences
Seq C1 exon
CTGCATCAGATCTGTTGCTGCACTCAGCACTGGTGCAGGAGACCGCCTACATCGAAGACCGGCCCCTGCATATGTTGTACTGTGCTGCGGAAGAGAACTGCCTGGCCAGCTCAGCCCGCTCAGCCAACTGGCCCTATGGTCACCGGCGTCTGCTCCGATTCTCCTCCCAGATCCACAACCTGGGACGAGCTGACTTCAGGCCCAAGGCTGGGCGCCACTCCTGGGTGTGGCACGAGTGCCATGG
Seq A exon
GTGAGAGGGTAGGGAGTCAAGTAGAAGGGCAAGACCACGGGGGATGGGGCAAACCTTCTGGGGGCAGAGAAGGAAACAGAAGTTCCCTTCTCCCCACAG
Seq C2 exon
GCATTACCACAGCATGGACATCTTCACTCACTATGATATCCTCACCCCAAATGGCACCAAGGTGGCTGAGGGCCACAAAGCTAGTTTCTGTCTCGAAGACACTGAGTGTCAGGAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000115318-LOXL3:NM_032603:10
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0118612=Lysyl_oxidase=PU(38.7=96.3)
A:
NA
C2:
PF0118612=Lysyl_oxidase=FE(19.1=100)
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:
CTCCTCCCAGATCCACAACCT
R:
AACTAGCTTTGTGGCCCTCAG
Band lengths:
170-269
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Genotype-Tissue Expression Project (GTEx)
- 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)