RnoINT0084019 @ rn6
Intron Retention
Gene
ENSRNOG00000053691 | Lama5
Description
laminin subunit alpha 5 [Source:RGD Symbol;Acc:621023]
Coordinates
chr3:175568785-175569194:-
Coord C1 exon
chr3:175569079-175569194
Coord A exon
chr3:175568997-175569078
Coord C2 exon
chr3:175568785-175568996
Length
82 bp
Sequences
Splice sites
5' ss Seq
TAGGTGGGT
5' ss Score
5.56
3' ss Seq
CACCGTTTCCCTCCACACAGCCC
3' ss Score
8.68
Exon sequences
Seq C1 exon
GACTACATACTTGTCGTCCCTGAGGATGCCTACAGCTCCAGTTACCTCCAAGAGGAGCCCCTGGACAAATCCTATGACTTCATCAGCCACTGCGCCACCCAGGGCTACCACATTAG
Seq A exon
GTGGGTTGGGTTGGAGCAGGAAGGGGAGTGGGGGTCTCAGGGGTCAGGCCAGGAGCCAGGCTCACCGTTTCCCTCCACACAG
Seq C2 exon
CCCCAGCAGCTCGTCTCTGTTCTGCCGGAACGCTGCCACCTCCTTGTCTCTCTTCTACAACAATGGGGCCCTCCCTTGTGGCTGCCACGAGGTGGGTGCCGTAGGCCCCACATGCGAACCCTTCGGGGGCCAATGCCCCTGCCGGGGCCACGTCATTGGCCGTGACTGCTCCCGCTGCGCCACTGGCTACTGGGGCTTCCCCAACTGCAGGC
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000053691:ENSRNOT00000081226:33
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:
NO
A:
NA
C2:
PF0005319=Laminin_EGF=PU(91.8=62.5)
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:
AGGATGCCTACAGCTCCAGTT
R:
GGAGGGCCCCATTGTTGTAGA
Band lengths:
168-250
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]