RnoINT0146222 @ rn6
Intron Retention
Gene
ENSRNOG00000033389 | Susd2
Description
sushi domain containing 2 [Source:RGD Symbol;Acc:1308595]
Coordinates
chr20:13966453-13967011:+
Coord C1 exon
chr20:13966453-13966660
Coord A exon
chr20:13966661-13966859
Coord C2 exon
chr20:13966860-13967011
Length
199 bp
Sequences
Splice sites
5' ss Seq
CAGGTGGGG
5' ss Score
6.92
3' ss Seq
CTACTATCTCTCTCCCTCAGGTT
3' ss Score
12.01
Exon sequences
Seq C1 exon
GTACCCCGGGGAGCTGCTCCCTGCGCTGTGGGGTACAGGATGAAATCTGTTCCTGTCATCCAACCTGCTCAGGCCTTGGCACCTGTTGTAAAGACTTTCTGAACTACTGTCTAGAGATTTCACCCTCCTCGGGCTCCATGATGGGCGGTAAAGACTTCGTGGTGCAACATTTAAAGTGGACTGATTCTATTACCAGTGTCATTTGCAG
Seq A exon
GTGGGGACACCTGAGCCGCTGGGTCATTAGGGCTCCTACACGCTCAGTCTCATGCATGGAGTGGGAGCTGGAGGTAGAGCCCTGGGGCTGAGGGCAGGCAGGAGAATCCGGGCGCACCTAGCCTAACTCGTTTCCTGAGGAGCAGTGTAGGTCTCCCTAGCTTTTGCCCCAGGCTGCCTCTACTATCTCTCTCCCTCAG
Seq C2 exon
GTTTAAGGAGAGTATCCAGACCCTTGGCTATGTGGACGACTTGAAGCAAGTGCACTGTATATCACCCTTGCTCTACGAAAGCGGCCATATTCCCTTCACCATCTCAATGGACAATGGCCTCTCCTTTCCCCACGCAGGCACTTGGCTAGCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000033389:ENSRNOT00000066773:2
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=0.000
Domain overlap (PFAM):
C1:
PF0103312=Somatomedin_B=WD(100=58.6)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCCTGTCATCCAACCTGCTCA
R:
AAGGGAATATGGCCGCTTTCG
Band lengths:
254-453
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]