RnoINT0084012 @ rn6
Intron Retention
Gene
ENSRNOG00000053691 | Lama5
Description
laminin subunit alpha 5 [Source:RGD Symbol;Acc:621023]
Coordinates
chr3:175571261-175571605:-
Coord C1 exon
chr3:175571445-175571605
Coord A exon
chr3:175571370-175571444
Coord C2 exon
chr3:175571261-175571369
Length
75 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGC
5' ss Score
9.88
3' ss Seq
ACAGTCCATCCCTCCCTCAGCTC
3' ss Score
6.99
Exon sequences
Seq C1 exon
GTGGACATCCAGCTTGAGATGGCGGTGCCTCGGCCAGGCCGATATGCTCTCGTGGTGGAGTACGTCAGTGAGTATTCACACCAGGAGATGGGCGTGGCTGTGCACACCCCTCAGAGAGCCCCGCAGCAGGGGATGATCGACCTCCACCCCTGTCCCTACAG
Seq A exon
GTAAGCTTAGGACAGGAAAGGGTTGGTGGGAGGACCTGCCCAGGCCTTTCCACTTACAGTCCATCCCTCCCTCAG
Seq C2 exon
CTCCCTGTGCCGGGGTCCGGCTCGGGATACCCAGCATCATTTAGCTGTCTTCCACCTGGACTCTGAGGCCAGCATCCGGCTCACGGCTGAGCAGGCTCACTTCTTCCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000053691:ENSRNOT00000081226:27
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.185 A=NA C2=0.027
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTGTGCACACCCCTCAGAGAG
R:
CAGGAAGAAGTGAGCCTGCTC
Band lengths:
173-248
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]