RnoINT0146219 @ rn6
Intron Retention
Gene
ENSRNOG00000033389 | Susd2
Description
sushi domain containing 2 [Source:RGD Symbol;Acc:1308595]
Coordinates
chr20:13970511-13971135:+
Coord C1 exon
chr20:13970511-13970759
Coord A exon
chr20:13970760-13970862
Coord C2 exon
chr20:13970863-13971135
Length
103 bp
Sequences
Splice sites
5' ss Seq
ACTGTGAGT
5' ss Score
7.94
3' ss Seq
ACTGACACCTGTCTCCTCAGGGG
3' ss Score
8.44
Exon sequences
Seq C1 exon
GCATGTTTCTGTCAGTGGCCTCTCAGGATAAGGTATCAATCATGTTGTCATCGGGGGCTGGCCTCGAGGTTGGCGTACAAGGTCCTTTCCTGAGTGTGAGCATCCTGCTTCCTGAGAAGTTTCTGAGCCATACCCGTGGTCTCCTGGGAACACTCAACGATAACCCTGAGGATGACTTCACCCTGCGCAATGGGCATGTCCTGCCCCCGAATGCCACTGCTCAGCAGTTATTCCAGTTTGGAGCCAACT
Seq A exon
GTGAGTGACAGAAGGGTTTGCCCAGGGTGACAGTGGATCAAGGAGAGAAACTTGGCTGTGGCAGGGAACTGTGCCCACACAAGACTGACACCTGTCTCCTCAG
Seq C2 exon
GGGCTATTTCCAACGCCTCTTCCCTGTTTACCTATGACTCTCGGCCTCTGGTCAACCAGTTCCTGAACGGACCCAAGCATGACCCCAACTTCAAACCACTCTTCCCCGATGAGACCACACTCAGTCCCAGCCAGGCAGAAGACTTGGCCAGACTCTGTGAGAGCGACCACTTCTGCGTTCTTGACGTGATAAGCACAGGGGACCCAAGTGTGGGCAATGCCACCAGGATTGCCCACCAGCTGCACCAGCATCGCCTGAAGAGCCTGCAGCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000033389:ENSRNOT00000066773:11
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.095 A=NA C2=0.192
Domain overlap (PFAM):
C1:
PF0009420=VWD=PD(37.8=77.4)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AATCATGTTGTCATCGGGGGC
R:
AGGTAAACAGGGAAGAGGCGT
Band lengths:
245-348
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]