RnoINT0084007 @ rn6
Intron Retention
Gene
ENSRNOG00000053691 | Lama5
Description
laminin subunit alpha 5 [Source:RGD Symbol;Acc:621023]
Coordinates
chr3:175572646-175573086:-
Coord C1 exon
chr3:175572930-175573086
Coord A exon
chr3:175572785-175572929
Coord C2 exon
chr3:175572646-175572784
Length
145 bp
Sequences
Splice sites
5' ss Seq
CAGGTGGAC
5' ss Score
3.09
3' ss Seq
GTTGTCTTACACCACCGCAGCCC
3' ss Score
5.73
Exon sequences
Seq C1 exon
GCCAGCGAAGGACCACTACTTGCCAGACCTGCATCACATACGGCTGGAACTAGAGGAGGCGGCCACTCCCGAGGGCCATGCCGTCCGCTTTGGCTTCAACCCCCTGGAGTTTGAGAACTTCAGCTGGAGAGGCTACGCACATATGACGGCTATCCAG
Seq A exon
GTGGACCGTGCTGCCCTCCCCCCCGGGCGTGGTGCAGAGGTGGAAGCTGATGGGACTCTGGGGGTGCCAGCAGAACAAGCAGCACCTCGGGATCAGGGTCAGTACTGGGTCAGAGGAGTGACACTGTTGTCTTACACCACCGCAG
Seq C2 exon
CCCAGGATCGTGGCCAGGCTGAACGTGACCTCCCCTGACCTCTTTCGGCTGGTCTTCCGATATGTTAACCGTGGATCGACCAGCGTGAATGGGCAGGTCTCTGTTCGGGAAGAGGGCAAGTTTTCCAGCTGTACCAACT
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000053691:ENSRNOT00000081226:22
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=0.021
Domain overlap (PFAM):
C1:
PF0005319=Laminin_EGF=PD(25.0=20.8)
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:
CTTGCCAGACCTGCATCACAT
R:
CGAACAGAGACCTGCCCATTC
Band lengths:
246-391
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]