HsaINT0090297 @ hg38
Intron Retention
Gene
ENSG00000130702 | LAMA5
Description
laminin subunit alpha 5 [Source:HGNC Symbol;Acc:HGNC:6485]
Coordinates
chr20:62335021-62335269:-
Coord C1 exon
chr20:62335217-62335269
Coord A exon
chr20:62335127-62335216
Coord C2 exon
chr20:62335021-62335126
Length
90 bp
Sequences
Splice sites
5' ss Seq
CCGGTGAGT
5' ss Score
10.9
3' ss Seq
CCTCCTCCCTTGGCCCCCAGGGC
3' ss Score
11.05
Exon sequences
Seq C1 exon
GCTGCAGCTGCGACCTCAGGGGCACACTGGGTGGAGTTGCTGAGTGCCAGCCG
Seq A exon
GTGAGTCTGAGGACCAAGGTGTGGGGGATTTGGGGGCACACTGGTCAGGACCCTCCCCTGCCCCACTTCACCTCCTCCCTTGGCCCCCAG
Seq C2 exon
GGCACCGGCCAGTGCTTCTGCAAGCCCCACGTGTGCGGCCAGGCCTGCGCGTCCTGCAAGGATGGCTTCTTTGGACTGGATCAGGCTGACTATTTTGGCTGCCGCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000130702:ENST00000252999:19
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=PU(31.4=88.9)
A:
NA
C2:
PF0005319=Laminin_EGF=PD(64.7=91.7)
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:
CTGCAGCTGCGACCTCAG
R:
GGCAGCCAAAATAGTCAGCCT
Band lengths:
155-245
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