RnoINT0084065 @ rn6
Intron Retention
Gene
ENSRNOG00000053691 | Lama5
Description
laminin subunit alpha 5 [Source:RGD Symbol;Acc:621023]
Coordinates
chr3:175553936-175554306:-
Coord C1 exon
chr3:175554153-175554306
Coord A exon
chr3:175554070-175554152
Coord C2 exon
chr3:175553936-175554069
Length
83 bp
Sequences
Splice sites
5' ss Seq
TAGGTGTGT
5' ss Score
4.3
3' ss Seq
ATCACGGCCCCTCCCCACAGAGC
3' ss Score
10.62
Exon sequences
Seq C1 exon
GTGTCTGTGGGGTTCAGCGGCTGTATGAAGAAGTTACAACTGGATAAGCGGCCACTGAGGGCCCCAACAAGGATGGTGGGGGTCACACCCTGTGTCTCAGGCCCCCTGGAAGATGGCCTGTTCTTCCCAGGCAGTGAGGGAGCCGTCACATTAG
Seq A exon
GTGTGTGAGGCAAGGGAGGTCTTGTGGGAATAGGGGTTCTAAGCAAGGCCCTGGACCTCTCCCATCACGGCCCCTCCCCACAG
Seq C2 exon
AGCTCCCCAAGGCCAAGATGCCCCATGTGAGCCTGGAGCTGGAGGTGCGGCCCTTGGCCGCTGCTGGCCTCATCTTTCACCTGGGCCAGGCCCATGCTACTCCCTACGTGCAGCTGCAGTTGCTAACAGAACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000053691:ENSRNOT00000081226:75
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.038 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0221019=Laminin_G_2=PD(12.3=30.8)
A:
NA
C2:
PF0221019=Laminin_G_2=PU(23.4=64.4)
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:
CTGTTCTTCCCAGGCAGTGAG
R:
TCTGTTAGCAACTGCAGCTGC
Band lengths:
167-250
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]