HsaINT0095578 @ hg19
Intron Retention
Gene
ENSG00000115318 | LOXL3
Description
lysyl oxidase-like 3 [Source:HGNC Symbol;Acc:13869]
Coordinates
chr2:74779449-74781062:-
Coord C1 exon
chr2:74781003-74781062
Coord A exon
chr2:74779774-74781002
Coord C2 exon
chr2:74779449-74779773
Length
1229 bp
Sequences
Splice sites
5' ss Seq
AAGGTAGGG
5' ss Score
8.76
3' ss Seq
TTTGTCTCTGGGGCACCCAGGCC
3' ss Score
4.52
Exon sequences
Seq C1 exon
TAGGACTGATCTCCAGGACCAGCACTCTTCTCCCAGCCCTTAGGGTCCTGCTCGGCCAAG
Seq A exon
GTAGGGGGAGTCACGCTAACCGCAGAGGGAATGAGTAGGGGATGGAGAGGATGTGGAGGGACCAGGGAAAACGGGTGGTGTGGGATGGAGTCGAGGGGAAGCCACCCAACTGAGAGTTTGATTCTTGTCAAAGGGCAAGTGAGACAGAGTACACGGAGGAGGCACATACCGGAGGCGGGGGCTACGGGTGTTCGAACAGGGCCGCCAGGAGCGCCCTAAGGGAGGGGGCTCCTCCGGGAGGCGCTGCCCCTGGGTCCCCAACCCAGAACAAAGCTGCCTTGTTGGATTGATTGTTTGGGTTGGGGGAAGCATGTTGACGGGGGCTTGCTGTAGAGGGGCTGTTCTCAGCCCTAGGCAGAGAAGGCCTTGGCTGAGGAGCCATAGCGCCTGGCCTCCCGTTGCCCGGTGACAGGGATGGTGGTGTTGGCAGGAGGCTGGGACAACCCTACCCCATCCCCCGCCCAGCCTTGAGGCCTGGCCCTCCTGGGCCTCTTGACCCTGCAGGGCATCTGAGAGCCTGCGTGTTGGGGAGGGCGTGCAGCAGGTTCTCCAGGCGAGCTTTGGTGCCAGCCTTCCCTGCCTGGGAATCTGCTGGGTTAGGACTCTGGGCTCCCATTCAGGGGATCTGTGATCCCAGGGCCGCCTAGGGCCCCTTACGTGCCTCTCTGCACAATCAGTACAGCTGTCTGTCCTCCCTCTGAGTAAATGGGGTCATCTGGATCCCTCCCACGTCCGCCCCTTGGCTCTTGTCAATCCCTCTCCTTCTCACCCGCGGTGTGCTTGGTTCCCCTATACTGAGTGCTTAGTTCTTTGCCTATCACTTTCTATCCGTTGTCTCTCTCCTCTGTGTCTTTCTGGTTTTCTCTCTCTCATTCCCACAGTCTCCCTTCCTCTCACATCCTGTCTGTCTGGGTCTTCCTCTCTCTCTACGTGTCTCTTGCTCAGTCTCTATCTCTTTTTATTGACCCTTCTCTGACTCTCGATCTCTCATAGTTGTCTCTTATCTCTGGGTCTCTCAGGCTGTGCCTCTATGACCTGTGCCTCAGCCCTTATTTAATGTGTTTCTCTCCCTGTCTCTTGGTCCCTGGGGCTCTTTCTCTCCTGTTGTCTCTCGCTGTCTCTGTCTTACTCAGTGTCTGTTTTTCTTTCGTGACTTCTCCCTCTCTTTCTGACTCTGGGCCCCACTCAATCTGTTTCTCTCACGCACACTTTGTCTCTGGGGCACCCAG
Seq C2 exon
GCCTTCCCTGCCATGCGACCTGTCAGTGTCTGGCAGTGGAGCCCCTGGGGGCTGCTGCTGTGCCTGCTGTGCAGTTCGTGCTTGGGGTCTCCGTCCCCTTCCACGGGCCCTGAGAAGAAGGCCGGGAGCCAGGGGCTTCGGTTCCGGCTGGCTGGCTTCCCCAGGAAGCCCTACGAGGGCCGCGTGGAGATACAGCGAGCTGGTGAATGGGGCACCATCTGCGATGATGACTTCACGCTGCAGGCTGCCCACATCCTCTGCCGGGAGCTGGGCTTCACAGAGGCCACAGGCTGGACCCACAGTGCCAAATATGGCCCTGGAACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000115318-LOXL3:NM_032603:1
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact
5' UTR
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=0.076
Domain overlap (PFAM):
C1:
NA
A:
PF0053013=SRCR=PU(57.3=52.4)
C2:
PF0053013=SRCR=PU(57.3=52.4)
Main Skipping Isoform:
NA
Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACTCTTCTCCCAGCCCTTAGG
R:
TATTTGGCACTGTGGGTCCAG
Band lengths:
348-1577
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)