RnoINT0003543 @ rn6
Intron Retention
Gene
ENSRNOG00000011300 | AABR07031193.1
Description
NA
Coordinates
chr18:3804821-3805202:+
Coord C1 exon
chr18:3804821-3804873
Coord A exon
chr18:3804874-3805096
Coord C2 exon
chr18:3805097-3805202
Length
223 bp
Sequences
Splice sites
5' ss Seq
CAGGTAACA
5' ss Score
8.88
3' ss Seq
ACCGGGTCCTTGTTCTACAGGAA
3' ss Score
9.29
Exon sequences
Seq C1 exon
AGTGCCAATGCCATGAGGCAGGGACAGTGAGCGGGATTGGAGAGTGTGGACAG
Seq A exon
GTAACATGGGGCAGCTTTCCGTGTGATGACTGTGGGGTGCTGCAGTGGCTGGCTGTGGGATTGCTGGAGCACGGTACCAGTCCCTGGCTAGTTGTCATGACCATGGGCATATTTTCCCAATCCCGGCTACCCTGCTTCCTGTTGTTTGATGAGCCCACTTCCAAGCCTGAGGGCTAGTGAATCCTGTGTATCAGATGCTGCTGACCGGGTCCTTGTTCTACAG
Seq C2 exon
GAAGATGGTGACTGCAGCTGCAAAGCTCATGTAACTGGTGATGCTTGTGACACCTGCGCAGATGGATATTTCTCCTTGGAGAAGAGCAATTACTTTGGCTGTCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000011300:ENSRNOT00000092846:16
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0005319=Laminin_EGF=PU(31.4=88.9)
A:
NA
C2:
PF0005319=Laminin_EGF=PD(64.7=91.7)
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:
AGTGCCAATGCCATGAGG
R:
TGACAGCCAAAGTAATTGCTCT
Band lengths:
157-380
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]