HsaINT0090339 @ hg19
Intron Retention
Gene
ENSG00000130702 | LAMA5
Description
laminin, alpha 5 [Source:HGNC Symbol;Acc:6485]
Coordinates
chr20:60891004-60891829:-
Coord C1 exon
chr20:60891727-60891829
Coord A exon
chr20:60891115-60891726
Coord C2 exon
chr20:60891004-60891114
Length
612 bp
Sequences
Splice sites
5' ss Seq
TTGGTGAGT
5' ss Score
9.27
3' ss Seq
TGAAGCTGCCTCCCCCGCAGTGT
3' ss Score
6.91
Exon sequences
Seq C1 exon
ACGGTGGTGCGGCAGGGCCTGGTGGACCGAGCCCAGCAGCTCCTGGCCAACAGCACTGCACTAGAAGAGGCCATGCTCCAGGAACAGCAGAGGCTGGGCCTTG
Seq A exon
GTGAGTGCTGGGCTCCGATGGGGGCCCTTAGGCCTGCTGGGCATCTGAGCTCCCAGGGACCCTCAGCCCCCAGCCACATGCACACGTGGGGTTTGTGGGTCACCGCAGCATGGTTTGGGGTGGGAGAGCTTTGGAGATGGCTCCCCAGCTGCTTGTGTGTCAGCCCCGGGGAGCCCTGCAGGGGAGTCCAGGGAGGAGCAGCCTCCTGCGAGGCACTGGCTGCCACTGAGGCACCAGCTGAGCCACAGGGCACAGGGCAAGAGATACGTGGCCTCTGCTCTGCTGACCCGAGGGCTACACGCGTGCCAAGCTGCGCAATGAGAAAGGTGTGAGCTGCTAGGACCAGAGGGCTGTCTCTTCTGAGCCTCTATTGTTTCATCTGTACAATGGGGACAGCTATGCCTGCAGTGGGACCAGAGGCCTTCAGGGAACAGAGGCTACGCTGAGACTCAACACCTCCCCACAGGCTAAGGGACTCCATGTCTGAGTGTCCCTGTCCATCTGTCTGCTGTGTGTCAGCCTTGGTCCTCCTGGGGTCAGAAGGGTGGAGGTGGGCTGCAATTGTATACTGGGGGTGAAGCTGCCTGGGAGCTGAAGCTGCCTCCCCCGCAG
Seq C2 exon
TGTGGGCTGCCCTCCAGGGTGCCAGGACCCAGCTCCGAGATGTCCGGGCCAAGAAGGACCAGCTGGAGGCGCACATCCAGGCGGCGCAGGCCATGCTTGCCATGGACACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000130702-LAMA5:NM_005560:57
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=0.026
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
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:
CTGGTGGACCGAGCCCAG
R:
CTGTGTCCATGGCAAGCATGG
Band lengths:
196-808
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)