HsaINT0095575 @ hg19
Intron Retention
Gene
ENSG00000134013 | LOXL2
Description
lysyl oxidase-like 2 [Source:HGNC Symbol;Acc:6666]
Coordinates
chr8:23177398-23179794:-
Coord C1 exon
chr8:23179643-23179794
Coord A exon
chr8:23177566-23179642
Coord C2 exon
chr8:23177398-23177565
Length
2077 bp
Sequences
Splice sites
5' ss Seq
AAGGTGATG
5' ss Score
5.22
3' ss Seq
GCCTGCCTTTGTGTCTGCAGCTG
3' ss Score
10.53
Exon sequences
Seq C1 exon
GGATCGGACCCATCCACCTCAACGAGATCCAGTGCACAGGCAATGAGAAGTCCATTATAGACTGCAAGTTCAATGCCGAGTCTCAGGGCTGCAACCACGAGGAGGATGCTGGTGTGAGATGCAACACCCCTGCCATGGGCTTGCAGAAGAAG
Seq A exon
GTGATGGGACTGGACACCTAGAGGGGACTGTAACTGAGGCTGCAGAAAGTATAGCCACAGAGCTCTGGGGTGAACCCTGGAAGTGACCAGGTGCTGCTGCTAGTACTGCTGCAGACATTGCCACTTGGCATTTGCAATGTTTAGTTCCCCCTCGAACCTCGGGCCTGGCCCTGGCCCGGCAGCAGGCCCAAGCCCCTGTGTGCAGTGTGAGCTGGAAAGGCCCTGCCTCCTTGCATGTTAACATCTGAGGTGAGTTACCTCACCTCTGCCCCACCACCTCCAAAGACAGGCGTGGGACCGGCTAGCCACAACCTTATCAAAACACGGTGCAGCCTGGCTGTGCTCTGCTGGCTGGAGGCGTTCTCTTTCCTCTATTCATGTTCAGAAAAAAACTGGGCTGCCACACACTTCGCTCCCTTCTTTAAAACCCTGTGCTGCTGCCACTGAGAACCAAAGGAACAGGAAAAGGGAAATGCCTGGGCTGTTTTAAGAGACTTGGAAAGGGCTTGACCTTCCCTGGCATCCTCCTTGGGTGAGGAGGTGGAGAGGGTGAGGACAGAGGCTCCTGGCTGACCATGAGGTCCCATACGCTCCATTGTCACTGGTGAGGTCAGACCCCGCTCACCAGAAAGCCACACGGTTACCAGGATGCTGACGCTCTACGTGGGGCTCTGGGAATGGCAAGCTGTGTCCTTTGCTGAGTTAGAACTGCATGCCAGCTACACTGTGCGCTCCAGTCTTCTCTAGAAAATGAGAAAAGCCCCCCAGTGCATGAAGTGTCCAGATTCCTTCCAGAACAGTCAAACCCTTCTCTCTGTCCTAGAGGCCATCCCGGGCCTGGTAAGCCTTAACGCCTTGGAGCCTTGGCAGGTGCCCTTGGTGACCATGTGTTTTCCTGGCCCCAGAGGCAACGAGGCAGCCACATTCCGCAGCCAGAGCCTCTGAGACTTGCCTTGGCTTTAGGACCTAGAGCAGGAACACTGCTCTGGCTCAGGCAAGAGATGAGGGAGGGTAGGGAAGGACTGGAGGGAAGTGGATGCATTGGAGAGAGACGAGAGATAAAACCCACAGGTGAAGACCGACAGGATGTGAGATAAGAGAGTGGGAGATGTCAAGAATTGCTCCTCTGTTTCTGGCTTGAATAACAGCAGATTCAGGAGCCAAGAAACTATGATATGTGGCCAAGCCCACCCTTCCTCCTGGTTTTTTATTCGTTTGTTTTTTGAGACGGTCTTGCTCTGTTGCCCAAGCTGGAGTGCAGTGGTATGATCATAGCCCACTGCAACCTGAAACTTCTGGGCTCAAGGGATCCTCCCACCTCCCGAGTAGCGGGGACTACAGGTATGCACCACCATACCTGGCTCATTTTTTAAACTTATTTTTTTGTAGAGATGGGGTCTCACTATGTTGCGCAGGCTGGTCTCAAAACCCTGGGCTTAAGTGATCCTCCCACCTTGGCCCCGCAAAGTGCTGGGATTACAGGCATGAGCTACCATACCCAGCCTCTTTTTTAAGATAAAGTTGTATCGGAACATGGCCACACCCGGTCATTTAGGGTAAAGAGAAAAGACAGCAAGTTCAGATTTGTGATCTCTGAGATACCAAGTGGGGTTGTCAAACAGGCAGCTGGTTAGGTGGGCCTCAGACCAGCAGGAGAGCCATGGGACAAGATGCCAGTGGCTCTGGAACCCGCCAGGTAGGGGATGTGGCAAAGAGAAAAGTGCCCAGGCAGGAGTCTTGTGGGATTCCAACATGTCAAGGTCCCGAGGGCACCATCCTCCCAAAGAGCAGCCCCCCACTGATAGGCTCATGGGGAGCAGGGTCAGCTTCTGCTGTGGGGCTCAGTGGAGTCACAGGGCCTCCCCAGCTGCTTAGGGTGCCTGGGGTGGGGACCTCACTATAAGACCATGCTAGGCACAGCGCTGCCACCGGGGGCTCCCAAGGGTGCTGCTGAATCTGAGTGTGTCCCGGGCAGCACCACCTGGCTTAGGACTCCAGGACACTGGGGCTGATGGCAGCGTAGGGGGGAAGCTCCCTTGTCCCTCTTGGTGACCGTGGCCTGCCTTTGTGTCTGCAG
Seq C2 exon
CTGCGCCTGAACGGCGGCCGCAATCCCTACGAGGGCCGAGTGGAGGTGCTGGTGGAGAGAAACGGGTCCCTTGTGTGGGGGATGGTGTGTGGCCAAAACTGGGGCATCGTGGAGGCCATGGTGGTCTGCCGCCAGCTGGGCCTGGGATTCGCCAGCAACGCCTTCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000134013-LOXL2:NM_002318:7
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=PD(42.3=80.4)
A:
NA
C2:
PF0053013=SRCR=PU(48.6=92.9)
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)