HsaINT0095581 @ hg38
Intron Retention
Gene
ENSG00000115318 | LOXL3
Description
lysyl oxidase like 3 [Source:HGNC Symbol;Acc:HGNC:13869]
Coordinates
chr2:74533882-74534236:-
Coord C1 exon
chr2:74534100-74534236
Coord A exon
chr2:74533994-74534099
Coord C2 exon
chr2:74533882-74533993
Length
106 bp
Sequences
Splice sites
5' ss Seq
CAGGTACCT
5' ss Score
8.16
3' ss Seq
GGCCTTTTTCTCACTCACAGGTT
3' ss Score
10.43
Exon sequences
Seq C1 exon
ATGTCTCCAAGCGGTATGAGTGTGCCAACTTTGGAGAGCAAGGCATCACTGTGGGTTGCTGGGATCTCTACCGGCATGACATTGACTGTCAGTGGATTGACATCACGGATGTGAAGCCAGGAAACTACATTCTCCAG
Seq A exon
GTACCTGGAGTCTGGGGCTTCCAGATGGGTGAGTGGGGGGAGCGTTAAAGACACCTTTGAATTCGAGGATTGTCGCTGGGTTAAGTGGCCTTTTTCTCACTCACAG
Seq C2 exon
GTTGTCATCAACCCAAACTTTGAAGTAGCAGAGAGTGACTTTACCAACAATGCAATGAAATGTAACTGCAAATATGATGGACATAGAATCTGGGTGCACAACTGCCACATTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000115318:ENST00000264094:12
Average complexity
IR
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:
PF0053013=SRCR=PD(30.9=54.3),PF0118612=Lysyl_oxidase=FE(39.8=100)
A:
NA
C2:
PF0118612=Lysyl_oxidase=FE(18.1=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:
CTCCAAGCGGTATGAGTGTGC
R:
TTGTGCACCCAGATTCTATGTCC
Band lengths:
234-340
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