HsaINT0090295 @ hg38
Intron Retention
Gene
ENSG00000130702 | LAMA5
Description
laminin subunit alpha 5 [Source:HGNC Symbol;Acc:HGNC:6485]
Coordinates
chr20:62336340-62336786:-
Coord C1 exon
chr20:62336734-62336786
Coord A exon
chr20:62336446-62336733
Coord C2 exon
chr20:62336340-62336445
Length
288 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGC
5' ss Score
8.7
3' ss Seq
GCAGTCTTGTCCTCTCCCAGGCA
3' ss Score
7.52
Exon sequences
Seq C1 exon
CTGGCTCTTGCCACCCTGCCGGTCTGGCCCCAGTGGATCCTGCCCTTCCTGAG
Seq A exon
GTGAGCCCAAGTCTGCTCGTGTGTGGGAGATGGGTGAGGACCCAGGCCAAGCTAAAAGTCCCGAGTCCGGTGAGACCAGGGCTTCCTGCCTGCTGCTCAGTTGCCATGGCAACCCCAGGGCCTGTCTGCTCCTTAGGCTGGTCCTCTGCCCCCACTGCAGGTGACTCCTGTGAGTCACAGGTGAGGGCCCTCAGCCCTCACCACCCCTTGTCAGGGCTCTATGGCTCTATGGTTTGTGGGTGGGAGAGCAGGGCGCCCGCTCTGACCTGCAGTCTTGTCCTCTCCCAG
Seq C2 exon
GCACAGGTTCCCTGTATGTGCCGGGCTCACGTGGAGGGGCCGAGCTGTGACCGCTGCAAACCTGGGTTCTGGGGACTGAGCCCCAGCAACCCCGAGGGCTGTACCC
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000130702:ENST00000252999:17
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0005319=Laminin_EGF=PD(6.1=16.7)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGGCCCCAGTGGATCCTG
R:
GGTACAGCCCTCGGGGTT
Band lengths:
134-422
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