RnoINT0051352 @ rn6
Intron Retention
Gene
ENSRNOG00000016502 | Dscaml1
Description
DS cell adhesion molecule-like 1 [Source:RGD Symbol;Acc:1304887]
Coordinates
chr8:50046375-50047203:+
Coord C1 exon
chr8:50046375-50046473
Coord A exon
chr8:50046474-50047014
Coord C2 exon
chr8:50047015-50047203
Length
541 bp
Sequences
Splice sites
5' ss Seq
GAGGTAAGA
5' ss Score
10.06
3' ss Seq
GTCAACACCCCCTCCTGCAGGCT
3' ss Score
6.9
Exon sequences
Seq C1 exon
TTCCCCCAGACCAGCCCCGCCTCACTGTCTCCAAAACCTCCGCCTCTTCCATCACCCTGACCTGGATTCCAGGGGACAATGGGGGCAGCTCCATCAGAG
Seq A exon
GTAAGAAGGGGAGGGAATTATTCACCTGTTTCTAGTACTTGGTCCCATAATCCCTGAGAATCTGAAGGGTGGTTGAGACTTTGAGGCATTCAAGCACATGGCAAGTGCGCCTACTCCCTCCATCTGTGGTAGAACGGATCTAATGTGCTTTTCTCTCCGAACCTTGGTTTCCCAGTCTTTCACAGCAGGCAAACATGACATCAGTGCCTCGGGTCTATGTGACTCGGCAAAGATTGTTGTAAGAATGCAGCTCGGGGTTCATTAAAACTGTACTTCCAAAAAGCTCTTCCCAAGTGGGGACACTGCTGGTCAGGGACTCCTCGCCCCTCCTAAAAGAGTGTCTTAAGCCTCCCAGTTCTCTAAACCTAATGCTCGAGCTATGGAGAGACCCAGGCTCAGCCAGCATTACAGCGGATGGCCTCCAGCTTTGAATCTCATTTGCATACGCCCATGTCTATGACCTCTGCTGGAGTCCAGGCTGGGTTTCTCCTGTCTTGCCCTTCTCTGCTTTGCCCACTTGAGTCAACACCCCCTCCTGCAG
Seq C2 exon
GCTTCGTGCTACAGTACTCTGTGGATAACAGCGAGGAGTGGAAGGATGTGTTCATCAGTTCCAGTGAGCGCTCCTTCAAGCTAGACAGCCTCAAGTGTGGCACGTGGTACAAGGTGAAGCTGGCGGCCAAGAACAGTGTGGGCTCTGGGCGCATCAGCGAGATCATCGAGGCCAAGACCCATGGGCGGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000016502:ENSRNOT00000022476:24
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.029 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0004116=fn3=PU(36.9=91.2)
A:
NA
C2:
PF0004116=fn3=PD(61.9=81.2)
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:
CAGCCCCGCCTCACTGTC
R:
ATGGGTCTTGGCCTCGATGAT
Band lengths:
270-811
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]