HsaINT0090302 @ hg38
Intron Retention
Gene
ENSG00000130702 | LAMA5
Description
laminin subunit alpha 5 [Source:HGNC Symbol;Acc:HGNC:6485]
Coordinates
chr20:62333564-62334039:-
Coord C1 exon
chr20:62333901-62334039
Coord A exon
chr20:62333707-62333900
Coord C2 exon
chr20:62333564-62333706
Length
194 bp
Sequences
Splice sites
5' ss Seq
ACTGTGAGT
5' ss Score
7.94
3' ss Seq
TCACCCCTGCCCCCGCCCAGGCA
3' ss Score
6.47
Exon sequences
Seq C1 exon
CCCAGGATCGTGGCCAGGCTGAACCTGACCTCCCCTGACCTTTTCTGGCTCGTCTTCCGATACGTCAACCGGGGGGCCATGAGTGTGAGCGGGCGGGTCTCTGTGCGAGAGGAGGGCAGGTCGGCCACCTGCGCCAACT
Seq A exon
GTGAGTGGGGTCCCTGGGCCACAGCCCCTGCCCCACCAGCCCAGCCCACCCCACCCCACCCCACTCCCAAGCCCCGCCACCTTCCTCTGGCTCATGTGGGTGGTAGGACCAGCCTATCCCCAACCCTGTAGGGGGTGCAGCCTGGGGTGGCCCCAAGGGCTGGGCTCAGGAGTCTCACCCCTGCCCCCGCCCAG
Seq C2 exon
GCACAGCACAGAGTCAGCCCGTGGCCTTCCCACCCAGCACGGAGCCTGCCTTCATCACCGTGCCCCAGAGGGGCTTCGGAGAGCCCTTTGTGCTGAACCCTGGCACCTGGGCCCTGCGTGTGGAGGCCGAAGGGGTGCTCCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000130702:ENST00000252999:23
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.021 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCTGACCTTTTCTGGCTCGTC
R:
CACCCCTTCGGCCTCCAC
Band lengths:
243-437
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