HsaINT0095602 @ hg38
Intron Retention
Gene
ENSG00000138131 | LOXL4
Description
lysyl oxidase like 4 [Source:HGNC Symbol;Acc:HGNC:17171]
Coordinates
chr10:98257650-98258164:-
Coord C1 exon
chr10:98257981-98258164
Coord A exon
chr10:98257805-98257980
Coord C2 exon
chr10:98257650-98257804
Length
176 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGT
5' ss Score
10.47
3' ss Seq
GCACCTCTCTCCCCATCTAGGGC
3' ss Score
10.74
Exon sequences
Seq C1 exon
GAGCCGAGGGTGCGCCTGCGCTCCGGGGCCCAGGTGGGCGAGGGCCGGGTGGAAGTGCTCATGAACCGCCAGTGGGGCACGGTCTGTGACCACAGGTGGAACCTCATCTCTGCCAGTGTCGTGTGTCGTCAGCTGGGCTTTGGCTCTGCTCGGGAGGCCCTCTTTGGGGCCCGGCTGGGCCAAG
Seq A exon
GTGAGTGAGACAGCCTGGGAGGGGTTAGAAGGCCTGGATATGCCACTGGTCCATGTCTTGAAGGCCCTGGGGTGACAGGGCCAGGACAGAAAGTTATCCCCCTCTGTGAAGGGGAAGCCACAAGTGTGGGGTTACGGAGATGGAGCCTCGCACACAGCACCTCTCTCCCCATCTAG
Seq C2 exon
GGCTAGGGCCCATCCACCTGAGTGAGGTGCGCTGCAGGGGATATGAGCGGACCCTCAGCGACTGCCCTGCCCTGGAAGGGTCCCAGAATGGTTGCCAACATGAGAATGATGCTGCTGTCAGGTGCAATGTCCCTAACATGGGCTTTCAGAATCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000138131:ENST00000260702:7
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.113 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0053013=SRCR=PU(56.1=88.7)
A:
NA
C2:
PF0053013=SRCR=PD(42.9=80.8)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GAAGTGCTCATGAACCGCCAG
R:
GCACCTGACAGCAGCATCATT
Band lengths:
258-434
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