RnoINT0084070 @ rn6
Intron Retention
Gene
ENSRNOG00000053691 | Lama5
Description
laminin subunit alpha 5 [Source:RGD Symbol;Acc:621023]
Coordinates
chr3:175579040-175579416:-
Coord C1 exon
chr3:175579326-175579416
Coord A exon
chr3:175579175-175579325
Coord C2 exon
chr3:175579040-175579174
Length
151 bp
Sequences
Splice sites
5' ss Seq
AGCGTAAGT
5' ss Score
10.07
3' ss Seq
TCTCTGACTGTTCCTCTCAGCCT
3' ss Score
6.05
Exon sequences
Seq C1 exon
CACCACACCACGGGTATCAACTGCGAGCGCTGTGTTCCTGGCTTCTACCGCGCCCCTGACCAGCCACTGGACTCGCCTCATGTCTGTCAGC
Seq A exon
GTAAGTAGAGCTGCGTTTCTAAACCTCGGAGGCTGTGTGAGTCCTAGTGTCTGTCTGTCTCACCTGCCGTATTTCCCGGATCACCCCCAAGAGGCCAGACCATAGCTCCCTGGTATTTTGTGACCCTCTTCTCTCTGACTGTTCCTCTCAG
Seq C2 exon
CCTGTGACTGTGAGTCAGACTTCACCGATGGGACCTGCGAAGACCTGACGGGCCGCTGTTACTGCAGGCCGAACTTCACAGGAGAGCGGTGTTCCGCCTGCGCTGAGGGCTACGTGGACTTCCCGCACTGCTACC
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000053691:ENSRNOT00000081226:9
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=0.000
Domain overlap (PFAM):
C1:
PF0005319=Laminin_EGF=PD(41.2=90.3)
A:
NA
C2:
PF0005319=Laminin_EGF=PU(91.7=95.7)
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:
CACCACACCACGGGTATCAAC
R:
GGTAGCAGTGCGGGAAGTC
Band lengths:
226-377
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]