RnoINT0084016 @ rn6
Intron Retention
Gene
ENSRNOG00000053691 | Lama5
Description
laminin subunit alpha 5 [Source:RGD Symbol;Acc:621023]
Coordinates
chr3:175570194-175570665:-
Coord C1 exon
chr3:175570464-175570665
Coord A exon
chr3:175570321-175570463
Coord C2 exon
chr3:175570194-175570320
Length
143 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGG
5' ss Score
10.07
3' ss Seq
TTGGAGACTCTCTTCAACAGGGC
3' ss Score
5.4
Exon sequences
Seq C1 exon
CGCTGCCTGTCTAGCCTCCCGATTCCCGAAGCCACCGCAGCCCATCGTCCTTAAGGACTGCCAGGTCTTGCCACTGCCTCCAGACCTGCCTCTGACCCAGTCTCAGGAGCTCTCACCGGGAGCATCTCCAGTGGGACCACAGCCTCGGCCGCCAACCGCGGTGGATCCTAATGCAGAACCCACCTTGATACGCCACCCACAG
Seq A exon
GTGAGGGCTCTGGGCAGCCTCTCCAGGGATGGGGGTGAGGCAGGGCAGAGCTCTGGGTCCCCGTCATCTGCCACCGCATAACAGATGGCTGCAGACAGAGCTGTTCCCCACTCTGACCACTCATTGGAGACTCTCTTCAACAG
Seq C2 exon
GGCACGGTGGTCTTCACCACCCAGGTGCCCACCCTGGGCCGTTACGCCTTCCTGCTGCATAGCTACCAGCCGGTCCACCCCTCCTTCCCTGTGGAGGTACTCATCGACGGTGGCCGCATCTGGCAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000053691:ENSRNOT00000081226:30
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.456 A=NA C2=0.000
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:
CTGTCTAGCCTCCCGATTCCC
R:
TATGCAGCAGGAAGGCGTAAC
Band lengths:
257-400
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]