RnoINT0015310 @ rn6
Intron Retention
Gene
ENSRNOG00000020205 | Agrn
Description
agrin [Source:RGD Symbol;Acc:2067]
Coordinates
chr5:173598835-173599409:-
Coord C1 exon
chr5:173599077-173599409
Coord A exon
chr5:173598973-173599076
Coord C2 exon
chr5:173598835-173598972
Length
104 bp
Sequences
Splice sites
5' ss Seq
GGGGTGAGC
5' ss Score
5.97
3' ss Seq
CTTAGACTACATTTCCCCAGGAC
3' ss Score
5.43
Exon sequences
Seq C1 exon
AGAGTGTTACTCCTGGGGCTTCCCCAACATCTGCATCTATGACTACCCCAAGGCATATCCTGAGCAAGACGCTGCCATTTCCCCACAACAGCCTTCCTCTGTCTCCCGGCAGTACTACCCATGATTGGCCCACCCCATTACCCATATCACCTCACACCACAGTCAGCATCCCCAGAAGCACCGCGTGGCCTGTGCTGACCGTGCCCCCTACAGCAGCAGCCTCTGACGTAACCAGTCTCGCAACATCAATCTTCAGTGAATCCGGCAGCGCCAATGGGAGTGGCGACGAGGAACTGAGTGGAGATGAGGAGGCCAGTGGGGGCGGGTCTGGGG
Seq A exon
GTGAGCCGGGCCTCAGGGACTTGTGGGCAGGTCTGAGGGTGATGTGGGGGCAGAGCCCAAGAGTGGCTCCTCCCCAGGGCTGCGCTTAGACTACATTTCCCCAG
Seq C2 exon
GACTTGAGCCCCCGGTGGGCAGCATTGTGGTGACCCATGGGCCACCCATCGAGAGGGCTTCCTGCTACAACTCACCTTTGGGCTGCTGCTCAGATGGCAAGACACCCTCACTGGACTCCGAAGGCTCCAACTGTCCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000020205:ENSRNOT00000045678:18
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.866 A=NA C2=0.468
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0139015=SEA=PU(0.9=2.1)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCTGACGTAACCAGTCTCGCA
R:
ACAGTTGGAGCCTTCGGAGTC
Band lengths:
246-350
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]