HsaINT0095576 @ hg19
Intron Retention
Gene
ENSG00000134013 | LOXL2
Description
lysyl oxidase-like 2 [Source:HGNC Symbol;Acc:6666]
Coordinates
chr8:23174462-23177565:-
Coord C1 exon
chr8:23177398-23177565
Coord A exon
chr8:23174628-23177397
Coord C2 exon
chr8:23174462-23174627
Length
2770 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGA
5' ss Score
9.22
3' ss Seq
TGTTTTGTTGGTTCTTCCAGGAG
3' ss Score
9.35
Exon sequences
Seq C1 exon
CTGCGCCTGAACGGCGGCCGCAATCCCTACGAGGGCCGAGTGGAGGTGCTGGTGGAGAGAAACGGGTCCCTTGTGTGGGGGATGGTGTGTGGCCAAAACTGGGGCATCGTGGAGGCCATGGTGGTCTGCCGCCAGCTGGGCCTGGGATTCGCCAGCAACGCCTTCCAG
Seq A exon
GTGAGAAGCCCCGGCCTCAGACCCCGCATTCACCCCCCATGCAGTCTGACCACACTGTCTTCAGTCAGCCCCCCTCTCCCACGTACCCTCCCTAGCCGTGCAGGCAGGACAGAGCAAGTTGCCCTGGACCCAGAGGCAGGGAGCCTCGCTCTGGCCACAGCGCTGCTCCTTACAGGCCTGAGTCCTCGGGCAGGTCGCTCCCATCTCTGCCTCTATTTCTCGGCTGCAGAACGAGGGGCTGGGCTCTGCTTTTCATGGTCCACTCCTGCTCTGCACACTGGGGTTCACCCTGGGCTCAAGACTGATCCTGGGGGTTCCTGATGTGCCTTGTGCAGAAGGAACCAACTCAGTCCTTCGGGGAGGTGGTGACCCCCAGCCCAAGGCTCAACCCCCGCTAAACGCCTTAGCTTGCTCCCTTGAAACCCGCTCTGGTCTGAACACGTTTCCCCGCTGGCATCTGTGCCTAATGCATTCTCCCATTGACACGCTAGGGAATCTCCAAGCCTTGTCACATCAGCTGCACTTCCTCCCACTGCCCCCTCTCCAAAGAGAGTGACTCAGCTGAGAACAGCTGAGCTCTGGTCCTAGTTCCCACCCTCCCGCCCCCATCACAGAGCAGCAACAAAATAGGAGGCTCTGGGTCTAATCCCGACGCATTCCCACCAGCTGGCTGTGTAATGGTCTGAGGCAAAGCAGCCACCCTTCCCTGCCTCAGTTGTCCTCCCTGTGACATGGAATGAATAATCCCAAGACCTCAGTATCCTGGTTGTAAACACTTCCATTAAGCAGCTTACATAACGGGAAGATGCTTGGAGACCCTGCTCTTGTGTTGTTAACCCTGACTCCAGCTCTCCTTCCCCAGTGGTCCTTCTTGGGGCCTAAGAAAGGGGTTTAGGGAGAGAAGAGGAGAATTCCTGCATCCTTACTGAGCCTGACTGTCTCCCATGGGCTGGGTGGGTCCCAGGTTGCTCCAATGGGAGGTCCTGAGCCCTGAGCAGAAGCTGCCTGGGATCCCCTGCCCTGTGGCTCCTCATTCCGGCATCCAGAAGAGACAGGCCTTTAAAATAGCTGCTTACGCCCTCTGGGAGCTTGGCCTCCCCAGGCAACGCAGTGTTTCTGCTAATATTGTTTATGACAAGCCAGGGCACTCTCTAAATCTCCAAGGAGAGTGGAAAAACGGTGCCACATTTCAAGGGAGTCTTCAACCAGATATTTTTCTTCCCAGTCAGCTCATTCCTAAGACACCTGGGCCTCAGCTGGGGTCTTGAAATAGGCCTGGGACTGACATTTGTACCAAATCTGCCACTGATTACAAGCCCCATCCCTTCTCAAGTCCTCATTTTTTTCATCTGGAGGATGGAGGTGGGTATTGGTCAAGTTCTCTAGAGAAACAAAACCAGTAGGTTGTATGAATGTGTATTTTTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGCTATCAACCAATAGGATGTATGAATGTGTGTTTATATATGTGTATGTATATCTCTCACACACACAGCATGAAGAAAGATATTTCTTTTAAGGAATTGGCTCATCCAATTATGGGGCTGGCAGGTCTGAAGTCTGCAGAGTAGACCAGCCGGCTGGAAGCATTGATGTTGCAGCTAGAGTCTGAAGTCAGTCTGTGGTCAGAATGGCTTCTTCCTTGGGAGGCCTCAGGTTTTTTGGGTTTTTTTTTTTTTTACCCCTTAAGATCCTCAACCGATTGGATAAGAATTGCCCATATTATGGAGGGTAATCTGCCTTACTCAAAGTCTACTGATTAAAATGTTAATCTCATCTAAAAACAGCCTCACGTAAGCATCTAGAATAGTGTTTGACCAAATATCTGGGTACTGTGGCTTAGCCAAGTTGACACGTAAAATGAACCATCACAGGAGAGTTTAGATGAGATACTAATACTTCCAAGGCCCTTCCTATCCTGATGGTCTGTCTCTGACGATCCCGAGAAGACCTCCCTGAGCTCTAATCCTGCCTCAGCCTCCAAGCCCGAGAGACCTGAGGAACACAGCACCTGTGTTCTCATCCCGTTTCTGTACCTGACGATCCCAATTCTGCTCCTCATTTTTCTCTGCTGGAAACTTCTCTGAAGTGTGAGAGTAAATCCTAACAGTATTTCGAAGGCCCATAGAGCAAAGGGGCCAAATAAATCCCAGCATCCTAAGCCTCGGATCTCCTCAGCTTCTGTGCAGAACTACTCTATTAATTGCTCTTTAAACTGGGGAAAAGTCTAAATTCAGAAGTTCGTCTTTATAACATGTCTAATGATTGACCTATGCAAATAGATTTCTTCTTCTCTCCCACCACTTCCAATCAACCAGTAACATCTTCCTGGAGCACTGTGTTGAGAAGGATTCTGAGATCCTATTCGGGCTTAGAGGAGAGAGTGCTGTGATTGATTAGCAATGTCTGCCCTGGATCAGGACTGGGGAGTGGGCAACCTGAGTTGTGTGCACCTGCCATTCCTGACACACAGCCTTGCAGTGTCTGACCACAACCTTAGCTCTACTTCCCTGAGGGAGAGAGTGACAGAGTCCAAGTGCTACACTCAGGAGACCTGGATTCCCACTCACTCTGCCACCAACTAACTGCACAGCTTGGATAGGTGACCCTCCGTGCTGTTTCGATCTGAAAAATGGGATCATGAAACATTGGGATTTTTGTGAGGCTGCAAGTTGATAGGATATGAGAAAGTGACAGTTTGAGATGATGTACCCACCATTTGTTTTGTTGGTTCTTCCAG
Seq C2 exon
GAGACCTGGTATTGGCACGGAGATGTCAACAGCAACAAAGTGGTCATGAGTGGAGTGAAGTGCTCGGGAACGGAGCTGTCCCTGGCGCACTGCCGCCACGACGGGGAGGACGTGGCCTGCCCCCAGGGCGGAGTGCAGTACGGGGCCGGAGTTGCCTGCTCAGAAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000134013-LOXL2:NM_002318:8
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:
PF0053013=SRCR=PU(48.6=92.9)
A:
NA
C2:
PF0053013=SRCR=PD(49.5=94.6)
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:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
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)