RnoINT0084023 @ rn6
Intron Retention
Gene
ENSRNOG00000053691 | Lama5
Description
laminin subunit alpha 5 [Source:RGD Symbol;Acc:621023]
Coordinates
chr3:175567351-175567756:-
Coord C1 exon
chr3:175567616-175567756
Coord A exon
chr3:175567513-175567615
Coord C2 exon
chr3:175567351-175567512
Length
103 bp
Sequences
Splice sites
5' ss Seq
GAGGTATCC
5' ss Score
7.59
3' ss Seq
ACCCATGTGTGTGCTCACAGTTC
3' ss Score
8.03
Exon sequences
Seq C1 exon
GAGAATGTACAGGGCTCCAGATGTGACCAGTGTCGCGTGGGGACCTTCTCCTTGGATGCTGCTAACCCCAAGGGCTGTACCCGCTGCTTCTGTTTCGGAGCCACAGAGCGCTGTGGAAACTCTAACTATGCCCGCCATGAG
Seq A exon
GTATCCTACCCTAGCCTGGGACTGAGGCGGAAGCCATTAGAGGGGCCCTGGAGTGCAGGGCAAGGCCAAGTTTCCACTCTGTGACCCATGTGTGTGCTCACAG
Seq C2 exon
TTCATGGACATGGAGGGCTGGGTGCTTTTGAGCAGCGACCGACAGGTTGTACCCCACGAGCATCGGCCCGAGATGGAGCTGCTGCACGCAGATCTGCGGCTTGTGGCCGACACTTTCCCAGAGCTGTACTGGCAGGCCCCGCCCTCCTACCTGGGAGACAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000053691:ENSRNOT00000081226:37
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=0.019
Domain overlap (PFAM):
C1:
PF0005319=Laminin_EGF=PD(51.0=53.2)
A:
NA
C2:
PF0005213=Laminin_B=PU(8.0=20.4)
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:
GCTCCAGATGTGACCAGTGTC
R:
GTACAGCTCTGGGAAAGTGTCG
Band lengths:
257-360
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]