DreINT0020451 @ danRer10
Intron Retention
Gene
ENSDARG00000101452 | SUSD2
Description
sushi domain containing 2 [Source:HGNC Symbol;Acc:HGNC:30667]
Coordinates
chr5:15896507-15897564:+
Coord C1 exon
chr5:15896507-15896592
Coord A exon
chr5:15896593-15897295
Coord C2 exon
chr5:15897296-15897564
Length
703 bp
Sequences
Splice sites
5' ss Seq
CAGGTAATA
5' ss Score
8.55
3' ss Seq
GTTGATGCCCTGTTTTGCAGTCC
3' ss Score
5.72
Exon sequences
Seq C1 exon
ACTGATTATGGCTGTGATATTGAGGCTGGAAGTCTCTGTGTTTACCATCCAGGTGCAGTTCACTGCGTCAGAGCCATTCAGGGCAG
Seq A exon
GTAATATAGCTTTCAAAACTGGAATGATTTAAAAACATTAAATAGATGTATGTGTCCTTTGTTTTTTTTATTTTATTTTGTTAGCTTTTCTTTTTCTTTTGCTTTGTTGTATTTATTCATTGATTTTTAGTTATTTTGTATTTTTTGTTTCATTTAAAGTTTACATGTATTTATTTATGTTTTTGTATTGCTGTTTATATATTTAGTTCTGGTCTATTTTTTCTATTTACCATATATATATATATATATATGTATATATATATATATATATANNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNTTGCATTTGGGATGTATTTTCTTGTCACAATTCTGGCTGAATTTGATATTTTATGACCGCAAGTATGATCTTGGCATCAGAATTATTGATGTCAGAATTATAAGGTCTGTAGGTCTGACATTAGGTATATTAATACATTAATATACTAATTATTTTAATTAGTAATAATCTTATATATATATTAATTAGTATATTAAATTTTAATATCAAGGGAGGGGGACAAAAACCCAGAAAGACTTATTTTATAACACATTGTCAGAGTTATAAAAAACATTTTATTTAAGCTATTTATTTATTTATTTATTTATTCTGTTGATGCCCTGTTTTGCAG
Seq C2 exon
TCCTGAATATGGAGCAGGTCAGCAGTGTTGTTACGACAGCACTGGAGCTCAGGTGCTCACGAGGGACTCTATTGGTGGCAGTACTCCTGATCGAGGGCATGACTGGGGGGATCCACCATACAAGAAACCCCCCAGAGTTCCTGGATTCTCCCACTGGAAGTACGATGTGATTAGCTTCTACTACTGCTGCCTGTGGTCACACAACTGTGAATACTACTTCACTCACCGGCCGTCCAGTGACTGCAGGACATATCAACCTCCTAGAGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000101452:ENSDART00000168643:7
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=0.198
Domain overlap (PFAM):
C1:
PF0378212=AMOP=FE(19.2=100)
A:
NA
C2:
PF0378212=AMOP=PD(52.1=83.5),PF0009420=VWD=PU(0.1=0.0)
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:
TGGCTGTGATATTGAGGCTGG
R:
TCTAGGAGGTTGATATGTCCTGCA
Band lengths:
343-1046
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]