HsaINT0090327 @ hg38
Intron Retention
Gene
ENSG00000130702 | LAMA5
Description
laminin subunit alpha 5 [Source:HGNC Symbol;Acc:HGNC:6485]
Coordinates
chr20:62322269-62322758:-
Coord C1 exon
chr20:62322658-62322758
Coord A exon
chr20:62322450-62322657
Coord C2 exon
chr20:62322269-62322449
Length
208 bp
Sequences
Splice sites
5' ss Seq
CAGGTAGGG
5' ss Score
9.46
3' ss Seq
GTGACCAGCCTGTGCCACAGGAG
3' ss Score
2.07
Exon sequences
Seq C1 exon
GGTGCGACTGTACCCCATGTGGGACAGAGGCCTGCGACCCCCACAGCGGGCACTGCCTGTGCAAGGCGGGCGTGACTGGGCGGCGCTGTGACCGCTGCCAG
Seq A exon
GTAGGGCTGTGGGGTAAGCAGGGCTGGGTGGGTGGGGCCTAGGGACTAGAGTTGGGGCCTGGGGAGAATCTGATAGGTGGGGCTGAGGGGCAGTGTTTGATGGGCAGAGCCTCAGGGGGTGGGGCCAGATGGGCAGGACCCCTGGCTTCCAGGTTGGTCTGGGACAGTCTTGAGGGCTGGGCAGGGCAGTGACCAGCCTGTGCCACAG
Seq C2 exon
GAGGGACATTTTGGTTTCGATGGCTGCGGGGGCTGCCGCCCGTGTGCTTGTGGACCGGCCGCCGAGGGCTCCGAGTGCCACCCCCAGAGCGGACAGTGCCACTGCCGACCAGGGACCATGGGACCCCAGTGCCGCGAGTGTGCCCCTGGCTACTGGGGGCTCCCTGAGCAGGGCTGCAGGC
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000130702:ENST00000252999:46
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.164
Domain overlap (PFAM):
C1:
PF0005319=Laminin_EGF=PU(71.1=94.1)
A:
NA
C2:
PF0005319=Laminin_EGF=PD(24.4=18.0),PF0005319=Laminin_EGF=PU(92.0=75.4)
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:
GTGCGACTGTACCCCATGTG
R:
GAGCCCCCAGTAGCCAGG
Band lengths:
262-470
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