DreINT0131112 @ danRer10
Intron Retention
Gene
ENSDARG00000060865 | scai
Description
suppressor of cancer cell invasion [Source:ZFIN;Acc:ZDB-GENE-060526-57]
Coordinates
chr5:31430708-31431000:+
Coord C1 exon
chr5:31430708-31430806
Coord A exon
chr5:31430807-31430903
Coord C2 exon
chr5:31430904-31431000
Length
97 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAAA
5' ss Score
5.07
3' ss Seq
GTCCCATCTTCTTTGCACAGGCC
3' ss Score
8.52
Exon sequences
Seq C1 exon
CCTCCGCACTTCAGAAACAAGCTACCTAAATGAAGCCTTCTCTTTCTATTCGGCAATTCGCCAACGGTCATATTACCACCAGGTCAACAAAGAAGACAG
Seq A exon
GTGAAAAGAAGCTAAAATAAATCATAACGAACAAAGTAACAAACTTATATTTCTATCTTATATTGTTGATTAATCTTGTCCCATCTTCTTTGCACAG
Seq C2 exon
GCCAGAGCTGGTTGTAAAAAAGCTGAGGTATTACGCTCGGTTTATCGTTGTTTGTCTGTTGCTCAACAAGATGGACCTGGTTAAGGTGTTGGTTAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000060865:ENSDART00000139744:5
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:
PF120703=DUF3550=FE(17.6=100)
A:
NA
C2:
PF120703=DUF3550=FE(17.1=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:
TCCGCACTTCAGAAACAAGCT
R:
ACCAGGTCCATCTTGTTGAGC
Band lengths:
178-275
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]