RnoINT0051340 @ rn6
Intron Retention
Gene
ENSRNOG00000016502 | Dscaml1
Description
DS cell adhesion molecule-like 1 [Source:RGD Symbol;Acc:1304887]
Coordinates
chr8:50008858-50009190:+
Coord C1 exon
chr8:50008858-50008954
Coord A exon
chr8:50008955-50009061
Coord C2 exon
chr8:50009062-50009190
Length
107 bp
Sequences
Splice sites
5' ss Seq
AAGGTACAT
5' ss Score
7.87
3' ss Seq
CCTCTTCTGTCACCGCCCAGAGC
3' ss Score
7.28
Exon sequences
Seq C1 exon
CTCAAGCCAGCCGACCGTGGGGACTCCGTGTTCTTCAGCTGCCATGCTATCAACTCATACGGAGAGGACCGGGGTTTGATCCAGCTCACTGTGCAAG
Seq A exon
GTACATTCACCTGCCCACCCGCCCTTTCACCTTCTCTAGGGCCCAGAGGCCCACAGCCAAGCTGCCTGCTACTATCTCACCTTTGTTCCTCTTCTGTCACCGCCCAG
Seq C2 exon
AGCCCCCTGACCCCCCAGAGCTGGAGATCCGGGAGGTGAAGGCCCGGAGCATGAACCTGCGTTGGACTCAGAGATTTGATGGAAACAGTATCATCACTGGCTTTGATATCGAGTACAAGAACAAATCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000016502:ENSRNOT00000022476:13
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.212 A=NA C2=0.273
Domain overlap (PFAM):
C1:
PF0767911=I-set=PD(31.2=90.9)
A:
NA
C2:
PF0004116=fn3=PU(47.1=93.2)
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:
CTCAAGCCAGCCGACCGT
R:
CTGATTTGTTCTTGTACTCGATATCA
Band lengths:
226-333
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]