RnoINT0083994 @ rn6
Intron Retention
Gene
ENSRNOG00000053691 | Lama5
Description
laminin subunit alpha 5 [Source:RGD Symbol;Acc:621023]
Coordinates
chr3:175578798-175579174:-
Coord C1 exon
chr3:175579040-175579174
Coord A exon
chr3:175578861-175579039
Coord C2 exon
chr3:175578798-175578860
Length
179 bp
Sequences
Splice sites
5' ss Seq
ACCGTGAGG
5' ss Score
4.23
3' ss Seq
TCTGCTATCTCCTCCCTTAGCTC
3' ss Score
8
Exon sequences
Seq C1 exon
CCTGTGACTGTGAGTCAGACTTCACCGATGGGACCTGCGAAGACCTGACGGGCCGCTGTTACTGCAGGCCGAACTTCACAGGAGAGCGGTGTTCCGCCTGCGCTGAGGGCTACGTGGACTTCCCGCACTGCTACC
Seq A exon
GTGAGGGCCAGCCAGGAGCTCGGGCTTGGGGGGGTGTTGGTTGGGAAGGACCAGGGTCACTACCTGAGGGGATTGAAGGGCCTAGGAAGGGTGGAAGACCCAGGGCTAAGGGCCCTGGAGAGTCTGTGGTACTGGAGCCAGAGAGACCTAGTTGACAAGTCTGCTATCTCCTCCCTTAG
Seq C2 exon
CTCTGCCTTCATTTCCCCATAATGACACGGGAGAACAGGTGCTTCCTGCCGGACAGATCGTGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000053691:ENSRNOT00000081226:10
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=PU(91.7=95.7)
A:
NA
C2:
PF0005319=Laminin_EGF=PD(6.2=13.6)
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:
AGTCAGACTTCACCGATGGGA
R:
TCACGATCTGTCCGGCAGG
Band lengths:
186-365
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]