RnoINT0146227 @ rn6
Intron Retention
Gene
ENSRNOG00000033389 | Susd2
Description
sushi domain containing 2 [Source:RGD Symbol;Acc:1308595]
Coordinates
chr20:13968877-13969321:+
Coord C1 exon
chr20:13968877-13968962
Coord A exon
chr20:13968963-13969052
Coord C2 exon
chr20:13969053-13969321
Length
90 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGC
5' ss Score
8.7
3' ss Seq
CTGTCCTACTTCTCCCCTAGCCC
3' ss Score
9.1
Exon sequences
Seq C1 exon
ACTGACTATGGTTGTGACATTGAACATGGCAGCGTGTGCACCTACCACCCAGGGGCTGTGCATTGTGTGCGTTCCGTGCAAGCGAG
Seq A exon
GTGAGCTACCCGACCAGGGATAAGAGGTGGGCAGGGCTTGGGGGCAGCTGCAGCCAACAGCGTCCCTGGCCTGTCCTACTTCTCCCCTAG
Seq C2 exon
CCCCATGTACGGCTCAGGACAGCAATGCTGCTACACAGCTTCAGGTACGCAGCTCCTGACCTCAGACTCCACCAGTGGCAGTACCCCTGACCGAGGCCATGACTGGGGCGCGCCCCCATACCGCTCTCCTCCCCGTGTGCCCGGCATGTCTCACTGGCTCTATGACGTCATCAGCTTCTATTACTGCTGCCTCTGGGCTCCTGAGTGTCCCCGGTATATGAAACGACGGCCCTCCAGTGACTGCCGCAGCTACAGACCCCCACGCCTGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000033389:ENSRNOT00000066773:7
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=0.231
Domain overlap (PFAM):
C1:
PF0378212=AMOP=FE(19.2=100)
A:
NA
C2:
PF0378212=AMOP=PD(52.1=83.5),PF0009420=VWD=PU(0.1=0.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CATTGAACATGGCAGCGTGTG
R:
AGTCATGGCCTCGGTCAGG
Band lengths:
173-263
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]