RnoINT0084055 @ rn6
Intron Retention
Gene
ENSRNOG00000053691 | Lama5
Description
laminin subunit alpha 5 [Source:RGD Symbol;Acc:621023]
Coordinates
chr3:175556257-175556606:-
Coord C1 exon
chr3:175556484-175556606
Coord A exon
chr3:175556406-175556483
Coord C2 exon
chr3:175556257-175556405
Length
78 bp
Sequences
Splice sites
5' ss Seq
GCGGTGAGG
5' ss Score
7.93
3' ss Seq
CCATTACCTATCCCTTGCAGATC
3' ss Score
10.18
Exon sequences
Seq C1 exon
AACCAGTTCTTGTGCCTGGCAGTACAGGACGGCACTCTTGTACTCCTCTATGACTTCGGCTCCGGCCTGAAGAGGGCGGACCCACTGCAGCCCCCACAAGCCTTGACGGCAGCCAGCAAGGCG
Seq A exon
GTGAGGCAAGGGACCTGGGGACAGGAGGACCAGCCGAGAAATTTGGCTTTCCTGAGGCCCATTACCTATCCCTTGCAG
Seq C2 exon
ATCCAAGTGTTTCTATTGGCTGGCGCCCGCAAACGTGTGCTGGTGCGTGTGGAGCGGGCCACTGTGTTCAGCGTAGATCAGGATAACGAGCTGGAGATGGCTGATGCCTACTACCTGGGAGGTGTGCCACCTGAGGAGCTGCCCCCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000053691:ENSRNOT00000081226:66
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.020
Domain overlap (PFAM):
C1:
PF0221019=Laminin_G_2=FE(30.8=100)
A:
NA
C2:
PF0221019=Laminin_G_2=FE(37.7=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACAGGACGGCACTCTTGTACT
R:
ATCTACGCTGAACACAGTGGC
Band lengths:
178-256
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]