RnoINT0084046 @ rn6
Intron Retention
Gene
ENSRNOG00000053691 | Lama5
Description
laminin subunit alpha 5 [Source:RGD Symbol;Acc:621023]
Coordinates
chr3:175558188-175559152:-
Coord C1 exon
chr3:175559042-175559152
Coord A exon
chr3:175558368-175559041
Coord C2 exon
chr3:175558188-175558367
Length
674 bp
Sequences
Splice sites
5' ss Seq
CAAGTGCGT
5' ss Score
6.68
3' ss Seq
ATGGCTTCCGTCTGTTATAGGCG
3' ss Score
9.89
Exon sequences
Seq C1 exon
CTCATGGCCGCCTGCAGGCCGCGGGGACCCAGCTTCGCGATGTCCGTGCCAAGAAGAACCAGCTGGCCGCCCAGATCCAGGAGGCACAAGCCATGCTGGCCATGGACACAA
Seq A exon
GTGCGTAACTTCTCCCTTCTCTTGCCTATCCCTCCTCCGCACTCAGCAGTGCCTTGTGAGAGCAGACGTCAGTCCGTGCTGTGGTCTGTGTGTCCGAGGAGGCTCCCGTGCTAAGCAGCACTCTGGGCTTGTGCCTCTGACCCCTGAGGCGCAAGTCACCGGCACAGTTGGCCCTGCAGGCACTTGGCACCGATGAGCAGGTCACAAGAGTGCTGGACAGTGCTGAAGTTATGGGCGGGCACGGGACAAGCCGTAGTGGGGTAGTTACTGGAGGATGTAGGAGCGCGTCCAACAGAGCCCCTTGGTCCAGGAGGGCGTTCCCAGAAAAGACCTGCTGACCAGCAAGCACAGAGGTCAGAGTGGGGTTCATCTGGCTGCCTGTCCAAGAGGGCTCAGAACTGACAATGTGGTCTGACCCTGCTGTCTAGGTTTTCCTGTGGCCACCAAAATGTCCCAGGCACACCTGGCCACAAACCTAGAAACAGGCGGGGCAAGACTCCTGATAATGGCCCTGGGTGGGAGTATTACAGGGCCAAGAAGAGAAGAGTGGGTAGGATTTTGAATGTATCGAGCGGCAAGTGTGGAGCTGCTGTGCAGAGGGGCGGGCGTGCGCAGCCGAGGGCCCCAGGAGCATGAAGTTGGCTCCTGCTGGGCATGGCTTCCGTCTGTTATAG
Seq C2 exon
GCGAGACCAGCGAGAAGATCGCTCACGCCAAGGCTGTGGCTGCAGAAGCCCGCGACACGGCCGCCCATGTGCAGTCTCAGCTTCAGGGTATGCAGAAGAATGTGGAGCGGTGGCAGAGCCAGCTGGGGGGCCTGCGAGGCCAGGACCTGAGCCAGGCGGAACGGGATGCAAGCAGTTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000053691:ENSRNOT00000081226:58
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.105 A=NA C2=0.574
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF060097=Laminin_II=PU(38.9=83.6)
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:
GACCCAGCTTCGCGATGTC
R:
TGAACTGCTTGCATCCCGTTC
Band lengths:
265-939
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]