HsaINT0090340 @ hg38
Intron Retention
Gene
ENSG00000130702 | LAMA5
Description
laminin subunit alpha 5 [Source:HGNC Symbol;Acc:HGNC:6485]
Coordinates
chr20:62315028-62316058:-
Coord C1 exon
chr20:62315948-62316058
Coord A exon
chr20:62315208-62315947
Coord C2 exon
chr20:62315028-62315207
Length
740 bp
Sequences
Splice sites
5' ss Seq
CAGGTATGC
5' ss Score
9.37
3' ss Seq
CTGCCCTCTGCCCACCACAGACG
3' ss Score
7.82
Exon sequences
Seq C1 exon
TGTGGGCTGCCCTCCAGGGTGCCAGGACCCAGCTCCGAGATGTCCGGGCCAAGAAGGACCAGCTGGAGGCGCACATCCAGGCGGCGCAGGCCATGCTTGCCATGGACACAG
Seq A exon
GTATGCGGAGCCTGGGCCCGGCTCTCGCAGCCGGCCGACCATGAGGCTCTGTGACAGTGGCGCTGGCCACATGTGGTTGGTGAGCACTCACTGTGCTGTGGAAGAGACCCCCACAGTGGGCAGCTGGGGCCAGACACAGAAAGCCTACCAGGGAGGTGCCAGGGCTGCAGATAGCACAGACAGCCCCAGCCGTCGGGAGCCTGGCAAGCTTGGAAGTGCTTTGGGTAGAAATGGAGTTATAGGTGGGAGGGCTGTAGGCCTTGGGGGGGATTGGGGCACACCCTGCAGGAAGGGCACCCAGGAGGGCACAGTGGTCAGCGTGGCTGGAACCAAGGGGCTGGCAAGACCTTGGGCGGTGAGGACCAGGGCTCCCACCCTGAGAGGCTTGGAGCAGAGGACGATGTGCCTCACCCAGTTTCTGAGGGACCCCTGTGGCTGCGGACTGTTCCCAGCAAGCCCAGGAGAGATGGTGGGGGCCAGGTGGTGGGAGGTGACATGGGGCACATGTCCAGGGACCAGCTGTGGCCTGAGAGGCTGGGTGCCTGTCCTGGCATGGAGGGGGCGTCTGGTGGAGGCATTTAGGATGGGTTTGGATTGCACTGAGCAGCGGGGTGTGAGGGTCTCACACGATCCATAGGGGGTTGGATGTCCCTGTTGCTGGCCCAACAGAAAGACTTGGGGACATGAAGCCAGGATGGTCCCCGCTGGCCCCTGCTGAGCCTGCCCTCTGCCCACCACAG
Seq C2 exon
ACGAGACAAGCAAGAAGATCGCACATGCCAAGGCTGTGGCTGCTGAAGCCCAGGACACCGCCACCCGTGTGCAGTCCCAGCTGCAGGCCATGCAGGAGAATGTGGAGCGGTGGCAGGGCCAGTACGAGGGCCTGCGGGGCCAGGACCTGGGCCAGGCAGTGCTTGACGCAGGCCACTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000130702:ENST00000252999:58
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.026 A=NA C2=0.197
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF060097=Laminin_II=PU(38.9=83.6)
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:
CTCCAGGGTGCCAGGACC
R:
CTGAGTGGCCTGCGTCAAG
Band lengths:
280-1020
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