RnoINT0084026 @ rn6
Intron Retention
Gene
ENSRNOG00000053691 | Lama5
Description
laminin subunit alpha 5 [Source:RGD Symbol;Acc:621023]
Coordinates
chr3:175584719-175585092:-
Coord C1 exon
chr3:175584974-175585092
Coord A exon
chr3:175584890-175584973
Coord C2 exon
chr3:175584719-175584889
Length
84 bp
Sequences
Splice sites
5' ss Seq
GAGGTGGGG
5' ss Score
4.41
3' ss Seq
GTGGTCCATGTCCTCTGCAGATC
3' ss Score
9.72
Exon sequences
Seq C1 exon
CCTCCAAGAGGGATTGTTTGGAGCGGTTTGGACCTCGGACTCTAGAGCGCATCACGCAGGACGACGATGTCATCTGCACCACAGAGTACTCCCGAATAGTGCCTCTGGAGAACGGCGAG
Seq A exon
GTGGGGTGCACAGCCCTGCTGGTCCTGGGGGTAGTGGGCCCCTGTTGTTTCCAACCCCAGTCTGGTGGTCCATGTCCTCTGCAG
Seq C2 exon
ATCGTGGTGTCCCTGGTGAACGGACGCCCTGGGGCCAGGAACTTCTCCTATTCACCAGTACTTCGAGACTTCACCAAGGCCACCAACATCCGCTTGCGGTTTCTTCGAACCAACACGCTCTTGGGCCACCTTATGGGCAAGGCGCTGCGGGACCCCACCGTCACCCGCAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000053691:ENSRNOT00000081226:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0005512=Laminin_N=FE(15.4=100)
A:
NA
C2:
PF0005512=Laminin_N=FE(22.0=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:
CGGTTTGGACCTCGGACTCTA
R:
GGCCTTGGTGAAGTCTCGAAG
Band lengths:
177-261
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]