RnoINT0146228 @ rn6
Intron Retention
Gene
ENSRNOG00000033389 | Susd2
Description
sushi domain containing 2 [Source:RGD Symbol;Acc:1308595]
Coordinates
chr20:13969053-13969572:+
Coord C1 exon
chr20:13969053-13969321
Coord A exon
chr20:13969322-13969413
Coord C2 exon
chr20:13969414-13969572
Length
92 bp
Sequences
Splice sites
5' ss Seq
TGGGTAGGT
5' ss Score
6.86
3' ss Seq
ATCCTTGGCTTTCGCCTCAGCCT
3' ss Score
4.92
Exon sequences
Seq C1 exon
CCCCATGTACGGCTCAGGACAGCAATGCTGCTACACAGCTTCAGGTACGCAGCTCCTGACCTCAGACTCCACCAGTGGCAGTACCCCTGACCGAGGCCATGACTGGGGCGCGCCCCCATACCGCTCTCCTCCCCGTGTGCCCGGCATGTCTCACTGGCTCTATGACGTCATCAGCTTCTATTACTGCTGCCTCTGGGCTCCTGAGTGTCCCCGGTATATGAAACGACGGCCCTCCAGTGACTGCCGCAGCTACAGACCCCCACGCCTGG
Seq A exon
GTAGGTGCTGGCTTGGGTTTCTGACCACAGAGTCATGCCTGGGTGGGAAAAGCCAAAGGAATCTACCTGATGATCCTTGGCTTTCGCCTCAG
Seq C2 exon
CCTCCGCCTTCGGGGACCCCCATTTTGTCACCTTCGATGGCACCAGCTTCTCGTTCAGCGGGAACGGCGAGTATGTGTTGTTGGAGACGTTGGAGACGGCCGCCGCCGTGAAAGATCTGAGAGTGCAGGGACGGGCCCAGCCTGGGAGAATGCCCAATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000033389:ENSRNOT00000066773:8
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.231 A=NA C2=0.241
Domain overlap (PFAM):
C1:
PF0378212=AMOP=PD(52.1=83.5),PF0009420=VWD=PU(0.1=0.0)
A:
NA
C2:
PF0009420=VWD=PU(30.8=98.1)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CGGTATATGAAACGACGGCCC
R:
CTCTCAGATCTTTCACGGCGG
Band lengths:
181-273
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]