RnoINT0015316 @ rn6
Intron Retention
Gene
ENSRNOG00000020205 | Agrn
Description
agrin [Source:RGD Symbol;Acc:2067]
Coordinates
chr5:173597115-173597741:-
Coord C1 exon
chr5:173597394-173597741
Coord A exon
chr5:173597308-173597393
Coord C2 exon
chr5:173597115-173597307
Length
86 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGG
5' ss Score
9.16
3' ss Seq
ACTCTGTCTGTCTTCTGCAGTAC
3' ss Score
9.72
Exon sequences
Seq C1 exon
ACTGGTTTCCCACTTTCTTTACGGGAGCTGCAACAGGAACTACAGCTGCTATGGCCACAGCCAGAGCCACCACTGTGAGCCGACTGCCGGCCTCTTCCGTCACCCCACGAGTCTACCCCAGTCACACCAGCCGGCCTGTTGGCAGAACTACAGCACCACCAACCACTCGCCGGCCACCAACCACTGCCACCAACATGGACCGGCCTCGGACCCCAGGCCATCAACAGCCCTCAAAGTCCTGTGATTCCCAACCTTGCCTCCATGGAGGTACCTGCCAGGACCAGGATTCTGGCAAGGGTTTCACCTGCAGCTGTACTGCAGGCAGGGGTGGCTCTGTCTGTGAGAAAG
Seq A exon
GTGAGGTCACCCATTGCTAGAGGGTTTGGGGTTATGGCCAGAGGGTATAGCAGGGTCGTAGGTTTAACTCTGTCTGTCTTCTGCAG
Seq C2 exon
TACAACCCCCCTCCATGCCAGCTTTTAAGGGCCACTCCTTCTTGGCCTTCCCCACCCTCCGAGCCTACCACACACTGCGCCTAGCACTGGAATTCCGGGCTTTGGAGACAGAGGGACTGCTACTCTACAATGGCAATGCACGTGGCAAAGATTTCCTGGCTCTGGCTCTGTTGGATGGGCGTGTGCAGTTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000020205:ENSRNOT00000045678:23
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.641 A=NA C2=0.062
Domain overlap (PFAM):
C1:
PF0000822=EGF=WD(100=28.2)
A:
NA
C2:
PF0005418=Laminin_G_1=PU(25.0=50.8)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCCATCAACAGCCCTCAAAGT
R:
GGAGTGGCCCTTAAAAGCTGG
Band lengths:
170-256
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]