DreINT0020450 @ danRer10
Intron Retention
Gene
ENSDARG00000101452 | SUSD2
Description
sushi domain containing 2 [Source:HGNC Symbol;Acc:HGNC:30667]
Coordinates
chr5:15896168-15896592:+
Coord C1 exon
chr5:15896168-15896369
Coord A exon
chr5:15896370-15896506
Coord C2 exon
chr5:15896507-15896592
Length
137 bp
Sequences
Splice sites
5' ss Seq
CATGTGGGT
5' ss Score
2.93
3' ss Seq
AAATAAGTCTTATTTTTCAGACT
3' ss Score
5.36
Exon sequences
Seq C1 exon
AGATGTTAATGCCCTGTGGAGCGAAGAACATGCAGTCGCCTGGCATCTAGAAGAGGCCTTCAGGAAAGACTCTGCAGGCTGGGCTCTAAAGAAGTGTCTTCTTTGGGATAAAGAAGAGAAATCAATGCCCGACTTCTTAACAGAGATCACCGACTGCCCCTGCACACTGGCCCAGGCCCGCGCTGACACTGGGAGATTTCAT
Seq A exon
GTGGGTGCTATGACTTCAGCTCACACTTTATTAATACTGTTATTTGAGATTTTTCAATATACCACCAATCAAAGATTTACCCAGGCTTTAGTTAAATGTGGTAAAGCTTGATTTAGTAAATAAGTCTTATTTTTCAG
Seq C2 exon
ACTGATTATGGCTGTGATATTGAGGCTGGAAGTCTCTGTGTTTACCATCCAGGTGCAGTTCACTGCGTCAGAGCCATTCAGGGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000101452:ENSDART00000168643:6
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.015 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0378212=AMOP=PU(27.4=58.8)
A:
NA
C2:
PF0378212=AMOP=FE(19.2=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ATGTTAATGCCCTGTGGAGCG
R:
AACACAGAGACTTCCAGCCTCA
Band lengths:
242-379
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]