RnoINT0084002 @ rn6
Intron Retention
Gene
ENSRNOG00000053691 | Lama5
Description
laminin subunit alpha 5 [Source:RGD Symbol;Acc:621023]
Coordinates
chr3:175574058-175574312:-
Coord C1 exon
chr3:175574207-175574312
Coord A exon
chr3:175574108-175574206
Coord C2 exon
chr3:175574058-175574107
Length
99 bp
Sequences
Splice sites
5' ss Seq
CACGTGAGT
5' ss Score
9.3
3' ss Seq
TCCTGCTCCGTTCTCCTCAGGCT
3' ss Score
9.54
Exon sequences
Seq C1 exon
GCACAGGCTCCCTGTACGTGCCGGGCTCATGTGGAGGGGCCAAGCTGTGACCGCTGTAAACCTGGGTATTGGGGACTGAGCTCCAGCAACCCTGAAGGCTGCACAC
Seq A exon
GTGAGTCTGCCCTAGAGGGACGGTTAGGGGTTTAAGGGGTAGACCTGTCCCCCCCCATCCTGTCCCCCAGGGCTCTCAATCCTGCTCCGTTCTCCTCAG
Seq C2 exon
GCTGCAGCTGTGACCCACGAGGCACACTGGGTGGAGTTACTGAGTGCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000053691:ENSRNOT00000081226:18
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:
PF0005319=Laminin_EGF=PU(30.0=88.2)
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:
AGGCTCCCTGTACGTGCC
R:
CTGGCACTCAGTAACTCCACC
Band lengths:
152-251
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]