RnoINT0146224 @ rn6
Intron Retention
Gene
ENSRNOG00000033389 | Susd2
Description
sushi domain containing 2 [Source:RGD Symbol;Acc:1308595]
Coordinates
chr20:13967542-13968368:+
Coord C1 exon
chr20:13967542-13967709
Coord A exon
chr20:13967710-13968193
Coord C2 exon
chr20:13968194-13968368
Length
484 bp
Sequences
Splice sites
5' ss Seq
CAGGTGGGG
5' ss Score
6.92
3' ss Seq
GCGGTCTTCTCTTCCTCTAGGGA
3' ss Score
10.82
Exon sequences
Seq C1 exon
CTCACCCCTACAAAGTCTCTGAGTCTGAGAAGAGCCAGCTAGTAAACGAGACCCATTGGCAATACTATGGTACTTCAGACACCGGGGGAAACCTCAGCCTCACCTGGAATACCTCAGCGCTGCCCACGCGGACCGTCACCATTGAGCTGTGGGGCTATGAGGAGACAG
Seq A exon
GTGGGGCCTGCCAAGGGGCTTGACGGAGGCGTTTGTGAACGTCCGGGCGCTCAGAGATGAGAAGAGGCGTCTCAGGTGGGGAGGGAGGGAGGGGCGTGGGAAGGAAGAAGGGACTTAAGGCTGGTGGTGTAGATCAAGGTGGGTTTTGCAGCTAGACGAAAACAGCAATGACTTCCAGCATGCATGGTGGGCCCCACAGACAGCGGGAGTGCTGGATGCTGTGACCTTTGAGTAGATGGTATGTAGAGAAGACAGAAGCAGCTACCTCAACCCCCATCTCCTCTGAGCTGGACACAGACCAGGGCCAGTGAGTGATTCAAGCGTGTCTCCACTGGCCACGCAAGCCAGGCACCCTGCTGAAGCATCAGAACCTGGCAGCCCACAGGGAACATGGATAGCGTTCATTCCCCTCAGGCTATCAGTGAGAGGCTGAGGGAAGGAAGGGGGTCCTTGAAGGGCTGACCGCGGTCTTCTCTTCCTCTAG
Seq C2 exon
GGACGCCCTACACTGGGAACTGGACTGCGAAGTGGTCCTATCTATACCCTTTGGCTACAAACATCCCCAATACTGGCTTCTTTACTTTCACCCCCAAACCTGCACCACCTCAGTACCAGAGGTGGAGAGTGGGTGCTCTGAGGATCATTGGCAGCAAGAACTACGCAGGAGAACA
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000033389:ENSRNOT00000066773:4
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:
NO
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:
TCACCCCTACAAAGTCTCTGAGT
R:
TGTTCTCCTGCGTAGTTCTTGC
Band lengths:
342-826
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]