RnoINT0084039 @ rn6
Intron Retention
Gene
ENSRNOG00000053691 | Lama5
Description
laminin subunit alpha 5 [Source:RGD Symbol;Acc:621023]
Coordinates
chr3:175561088-175561872:-
Coord C1 exon
chr3:175561761-175561872
Coord A exon
chr3:175561250-175561760
Coord C2 exon
chr3:175561088-175561249
Length
511 bp
Sequences
Splice sites
5' ss Seq
ATGGTAAGG
5' ss Score
9.33
3' ss Seq
TGACAATCCCCTCTCTATAGAAC
3' ss Score
7.76
Exon sequences
Seq C1 exon
GCCACAGGGGTCCAAGATCAGGCAGGCCGGCTGCTGGACAACACGGAGTCCACGCTGGTCCGGGCACAGAAATTGTTGGAGATCGTGCAAGCTGTGAGCCGTGCCCTGAATG
Seq A exon
GTAAGGCTGGCTGATGCTTGGGCCCAGTATAGGGTGAGCTGCTTGTAGGGGCGGGACGGGCCTCCTGGAAGTCTCCTCTTAAGCTGGCTGGGTCCTGTAAGTTTCTGGTCTCTGGGCAAGTGGCTGTTCGGCCAGGGTCTGTTGGATCCCAGAGCTAGACCTTCATAGCACCACTGAATACGAGCATACCTCCTCAGTGACGGACAGACCCATGGCTGAGAAGAACCTGGGGTTCCCAATCTTATGACCTGATCTGGCACAGCCAAAGGATTGGGATGGGGGCAGGAGGGGGTGAGCTTTCTGCTTGGGGGAGGGGGAGGAATTGGGATGAACCGTGTGTCAGGTTGAAGAGAGAAAGGTGGAGAGGGGTCTTAATCTTGGGGGCTCTAAGAACCTGTGAAGTACTGCTGGGATATGTGCTGGTGTCCTGCCTAATGCCCTGGGCAGGTCTCAGGCTTGGAAGTGGGTGAGTGGCGTCTAGCCCCAGGCCCTGACAATCCCCTCTCTATAG
Seq C2 exon
AACTGGCATCTCAAGGATTTCCAGGCAATGCCACAACACCGTCTGGCGAGCAGCTGCGCTGGGCACTGGCTGAAGTGGAGCGGCTACTCTGGGATATGCGGACTCGTGACCTGGGGGCCCCACAGGCAGTGGCAGAAGCTGAACTGGCAGAAGCCCAGAGGC
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000053691:ENSRNOT00000081226:51
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.237 A=NA C2=0.327
Domain overlap (PFAM):
C1:
PF060089=Laminin_I=FE(14.1=100)
A:
NA
C2:
PF060089=Laminin_I=FE(20.6=100)
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:
CCACAGGGGTCCAAGATCAGG
R:
GCTTCTGCCAGTTCAGCTTCT
Band lengths:
265-776
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]