RnoINT0146229 @ rn6
Intron Retention
Gene
ENSRNOG00000033389 | Susd2
Description
sushi domain containing 2 [Source:RGD Symbol;Acc:1308595]
Coordinates
chr20:13969414-13969834:+
Coord C1 exon
chr20:13969414-13969572
Coord A exon
chr20:13969573-13969675
Coord C2 exon
chr20:13969676-13969834
Length
103 bp
Sequences
Splice sites
5' ss Seq
ATGGTGAGG
5' ss Score
7.61
3' ss Seq
ATGCTGAACCCACCACCTAGGCA
3' ss Score
3.5
Exon sequences
Seq C1 exon
CCTCCGCCTTCGGGGACCCCCATTTTGTCACCTTCGATGGCACCAGCTTCTCGTTCAGCGGGAACGGCGAGTATGTGTTGTTGGAGACGTTGGAGACGGCCGCCGCCGTGAAAGATCTGAGAGTGCAGGGACGGGCCCAGCCTGGGAGAATGCCCAATG
Seq A exon
GTGAGGCAGAACCCCACGGCCTCTACTTTGGGGGTGGAACTGTTAGGTCATCCAGGGCAGTAGGCGAGAGCCAAAAGAACCCCATGCTGAACCCACCACCTAG
Seq C2 exon
GCACCCAGGCCCGTGGCACAGGGCTGACCGCAGTGGCTGTCCAAGAAGATAAGTCCGATGTGATAGAGGTGAGGGTAGCTGACGGCTCCCAGGTCTTGGAAGTATTGCTGAATCAAAAACTCCTCAGTTTCACTGAACAAAATTGGATGGACCTGAAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000033389:ENSRNOT00000066773:9
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.241 A=NA C2=0.185
Domain overlap (PFAM):
C1:
PF0009420=VWD=PU(30.8=98.1)
A:
NA
C2:
PF0009420=VWD=FE(30.8=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TTTGTCACCTTCGATGGCACC
R:
GCAATACTTCCAAGACCTGGGA
Band lengths:
244-347
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]