HsaINT0090312 @ hg38
Intron Retention
Gene
ENSG00000130702 | LAMA5
Description
laminin subunit alpha 5 [Source:HGNC Symbol;Acc:HGNC:6485]
Coordinates
chr20:62329138-62329916:-
Coord C1 exon
chr20:62329777-62329916
Coord A exon
chr20:62329254-62329776
Coord C2 exon
chr20:62329138-62329253
Length
523 bp
Sequences
Splice sites
5' ss Seq
CTGGTGAGT
5' ss Score
10.1
3' ss Seq
GACCAGGCCTCACCCCCTAGGAT
3' ss Score
6.49
Exon sequences
Seq C1 exon
GCCACGCCAACGCCAGCTTCTGTCCACATGGCTACGGCTGCCGCACCCTGGTGGTGTGTGAGGGCCAGGCCCTGCTGGACGTGACCCACAGCGAGCTCACTGTGACCGTGCGTGTGCCCAAGGGCCGGTGGCTCTGGCTG
Seq A exon
GTGAGTCCCAGCTGATGTCCTGCTCAGGGACCAGCTGTCCTTATACTTGTCATTACCACTGTGGTACACTTGGGCTGGGTCTGTCTCTTCTGGGCCTGCTGAGGCCTGGCCTTGTGCCCAGCAAAGCAGCTCCTGCCTTTGGGGACCTCCCGATCCACCTTGTGAGGCTCCAGAGGGGCCCTGGACCCTGCACCCTGCACCCTGCTGGTCAGGGTGGCCTTCCTGGAGGAGGTGGGGCCTCCAGGAAGGAGAGGGAAGAGGAAGGCGTGGCCAGCAGACAGAGATGTGGGAGACACCAGGAGGTCTCATGAATGCTGCTGCCTCCTCATGCCCCCGAAAGCTGCTGTTTGGCTTGGAGTGGCCTCCCCTGAGCAGCCAGGGCCCAGGGCTGGGCTGGGCTGGGCTGGGCTGCTGCTGCCAGGACTCTGAGCTGCCTGCAGGACCCTGGTCCCAGCCAGCCTCTGGGGGCCTCCCCGCTGCAGGCTCTGGGCCCGCGGGAGAGTGACCAGGCCTCACCCCCTAG
Seq C2 exon
GATTATGTACTCGTGGTCCCTGAGAACGTCTACAGCTTTGGCTACCTCCGGGAGGAGCCCCTGGATAAATCCTATGACTTCATCAGCCACTGCGCAGCCCAGGGCTACCACATCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000130702:ENST00000252999:32
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=0.000
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:
CACGCCAACGCCAGCTTC
R:
CTGATGTGGTAGCCCTGGG
Band lengths:
254-777
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