HsaINT0090349 @ hg19
Intron Retention
Gene
ENSG00000130702 | LAMA5
Description
laminin, alpha 5 [Source:HGNC Symbol;Acc:6485]
Coordinates
chr20:60887688-60888066:-
Coord C1 exon
chr20:60887944-60888066
Coord A exon
chr20:60887837-60887943
Coord C2 exon
chr20:60887688-60887836
Length
107 bp
Sequences
Splice sites
5' ss Seq
GCGGTAGGG
5' ss Score
6.22
3' ss Seq
AGCCCCCACTGGTCCTGTAGATC
3' ss Score
6.54
Exon sequences
Seq C1 exon
AGCCAGTTCCTGTGCTTGGCCGTGCAAGAAGGCAGCCTCGTGCTGTTGTATGACTTTGGGGCTGGCCTGAAAAAGGCCGTCCCACTGCAGCCCCCACCGCCCCTGACCTCGGCCAGCAAGGCG
Seq A exon
GTAGGGCCAGGGTGGGGACCAGGGTGGCAGGGAGAGGAGATGGAACGATGGGGGCGGGGCAGGCCGCAGGGACACAGCTGGCCCTGGAGCCCCCACTGGTCCTGTAG
Seq C2 exon
ATCCAGGTGTTCCTGCTGGGGGGCAGCCGCAAGCGTGTGCTGGTGCGTGTGGAGCGGGCCACGGTGTACAGCGTGGAGCAGGACAATGATCTGGAGCTGGCCGACGCCTACTACCTGGGGGGCGTGCCGCCCGACCAGCTGCCCCCGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000130702-LAMA5:NM_005560:66
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:
PF0221019=Laminin_G_2=FE(30.8=100)
A:
NA
C2:
PF0221019=Laminin_G_2=FE(37.7=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCAGTTCCTGTGCTTGGCC
R:
CCCCCAGGTAGTAGGCGTC
Band lengths:
242-349
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)