RnoINT0084034 @ rn6
Intron Retention
Gene
ENSRNOG00000053691 | Lama5
Description
laminin subunit alpha 5 [Source:RGD Symbol;Acc:621023]
Coordinates
chr3:175562924-175563347:-
Coord C1 exon
chr3:175563167-175563347
Coord A exon
chr3:175563074-175563166
Coord C2 exon
chr3:175562924-175563073
Length
93 bp
Sequences
Splice sites
5' ss Seq
GGCGTGAGT
5' ss Score
7
3' ss Seq
ACCCCATACTCTTGCTGCAGGCT
3' ss Score
7.98
Exon sequences
Seq C1 exon
GAAGGACACTTCGGTTTTGAGCAATGCCAGGGCTGCCACCCTTGTGCCTGTGGACCAGCTGCTGAGGGCTCTGAGTGCAACCCTCAGACTGGTCAGTGTCACTGCCGGCCAGGGACCACAGGACCCCAGTGCCTTGAGTGTGCTCCTGGCTACTGGGGACTCCCGGAGAAAGGTTGCAGGC
Seq A exon
GTGAGTACAGGAGTGTGGGACGGCAGGGTGGAGAGAGGCAGGCATCCCTGGATGTCTATGGTCACATCTACCTACCCCATACTCTTGCTGCAG
Seq C2 exon
GCTGCCAATGTCCACGAGGCCACTGTGACCCACACACAGGCCGCTGCACCTGTCCTCCAGGGCTCAGTGGGGAGCGCTGTGACACCTGCAGCCAGCAGCACCAGGTGCCTGTACCGGGCAGGCCTGGGAGCCATGGCATACACTGTGAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000053691:ENSRNOT00000081226:47
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.020
Domain overlap (PFAM):
C1:
PF0005319=Laminin_EGF=PD(24.4=18.0),PF0005319=Laminin_EGF=PU(92.0=75.4)
A:
NA
C2:
PF0005319=Laminin_EGF=PD(6.0=5.9)
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:
GGGACTCCCGGAGAAAGGTT
R:
CACAGTGTATGCCATGGCTCC
Band lengths:
173-266
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]