RnoINT0084003 @ rn6
Intron Retention
Gene
ENSRNOG00000053691 | Lama5
Description
laminin subunit alpha 5 [Source:RGD Symbol;Acc:621023]
Coordinates
chr3:175573868-175574107:-
Coord C1 exon
chr3:175574058-175574107
Coord A exon
chr3:175573974-175574057
Coord C2 exon
chr3:175573868-175573973
Length
84 bp
Sequences
Splice sites
5' ss Seq
CAGGTATGT
5' ss Score
9.8
3' ss Seq
CACTTCCCGTTCCTCCCCAGGGC
3' ss Score
10.26
Exon sequences
Seq C1 exon
GCTGCAGCTGTGACCCACGAGGCACACTGGGTGGAGTTACTGAGTGCCAG
Seq A exon
GTATGTCAAAGTGTCTGGGTATTGGGTTGGGGTCTGGAGTCAAGTGTATCACCTCAACAAGCCTCACTTCCCGTTCCTCCCCAG
Seq C2 exon
GGCAATGGGCAGTGTTTCTGCAAGGCTCATGTGTGTGGCAAGACCTGTGCAGCCTGCAAGGATGGCTTCTTTGGCCTGGATCATGCTGACTACTATGGCTGCCGTA
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000053691:ENSRNOT00000081226:19
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(30.0=88.2)
A:
NA
C2:
PF0005319=Laminin_EGF=PD(66.0=91.7)
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:
CTGCAGCTGTGACCCACG
R:
GGCAGCCATAGTAGTCAGCAT
Band lengths:
152-236
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]