HsaINT0095582 @ hg19
Intron Retention
Gene
ENSG00000115318 | LOXL3
Description
lysyl oxidase-like 3 [Source:HGNC Symbol;Acc:13869]
Coordinates
chr2:74759946-74761120:-
Coord C1 exon
chr2:74761009-74761120
Coord A exon
chr2:74760807-74761008
Coord C2 exon
chr2:74759946-74760806
Length
202 bp
Sequences
Splice sites
5' ss Seq
TTGGTATTT
5' ss Score
2.39
3' ss Seq
ATTGCCTGTCCACTCTGCAGGTG
3' ss Score
9.05
Exon sequences
Seq C1 exon
GTTGTCATCAACCCAAACTTTGAAGTAGCAGAGAGTGACTTTACCAACAATGCAATGAAATGTAACTGCAAATATGATGGACATAGAATCTGGGTGCACAACTGCCACATTG
Seq A exon
GTATTTGATGGGAAGAGCAACCCAGGAAGATTAGGGGATGGGAGGGAAAGACGTTCATTCTCTTTTCCATAGCTTGTTTCTCCATCTTCCCACCTTCCTGTAGAGCTCTCAGTCCCTCCACTTCTACCCACCCTTCTCCACAGTGCATCTATCTCCCTCCCTCTGTGCAGGGCGCCTCCCAAATTGCCTGTCCACTCTGCAG
Seq C2 exon
GTGATGCCTTCAGTGAAGAGGCCAACAGGAGGTTTGAACGCTACCCTGGCCAGACCAGCAACCAGATTATCTAAGTGCCACTGCCCTCTGCAAACCACCACTGGCCCCTAATGGCAGGGGTCTGAGGCTGCCATTACCTCAGGAGCTTACCAAGAAACCCATGTCAGCAACCGCACTCATCAGACCATGCACTATGGATGTGGAACTGTCAAGCAGAAGTTTTCACCCTCCTTCAGAGGCCAGCTGTCAGTATCTGTAGCCAAGCATGGGAATCTTTGCTCCCAGGCCCAGCACCGAGCAGAACAGACCAGAGCCCACCACACCACAAAGAGCAGCACCTGACTAACTGCCCACAAAAGATGGCAGCAGCTCATTTTCTTTAATAGGAGGTCAGGATGGTCAGCTCCAGTATCTCCCCTAAGTTTAGGGGGATACAGCTTTACCTCTAGCCTTTTGGTGGGGGAAAAGATCCAGCCCTCCCACCTCATTTTTTACTATAATATGTTGCTAGGTATAATTTTATTTTATATAAAAAGTGTTTCTGTGATTCTTCAGAGCCCAGGAGTCAGTGCTGGTGGTTGGAGGGACCTGCCCCCACTGGTTCATTTAACCCTCTGTCTCGGTGCCCTCAGAACCTCAGCCAGAAAGGCAAGGAGGAAATCAGAGCAGGAGCCTCATACTCTTGGTGATCTATTCATTCTGTGACCTCAGGGGTCACATATAAGGTCAGTGTTTCTCGTCCCCGCCGGATCTGCACTGCCAACTGGGATTGGGTTCGAACAGCTTCATAAACATCTTCAGCATTTTGTACCATCTGCTCCCCAATGGCCAAAATCACATCACCAGGCCGCAGACCAGCCC
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000115318-LOXL3:NM_032603:13
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0118612=Lysyl_oxidase=FE(18.1=100),PF077056=CARDB=PD(45.2=50.0)
A:
NA
C2:
PF0118612=Lysyl_oxidase=PD(1.0=8.0)
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGAATCTGGGTGCACAACTGC
R:
GCAAAGATTCCCATGCTTGGC
Band lengths:
307-509
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)