DreINT0131115 @ danRer10
Intron Retention
Gene
ENSDARG00000060865 | scai
Description
suppressor of cancer cell invasion [Source:ZFIN;Acc:ZDB-GENE-060526-57]
Coordinates
chr5:31433186-31433614:+
Coord C1 exon
chr5:31433186-31433338
Coord A exon
chr5:31433339-31433512
Coord C2 exon
chr5:31433513-31433614
Length
174 bp
Sequences
Splice sites
5' ss Seq
CAGGTGGGA
5' ss Score
6.71
3' ss Seq
GGGTTTCTTTTGGTTTGCAGGTG
3' ss Score
9.48
Exon sequences
Seq C1 exon
GCCGATCCTCTGATGATCCTGAATGATGACAATGCTGTGGTGGTCCTTTCCAATCGGCTGCAGGAGGGAGGTGTGCCCCCTCTGGAGCAGGGCATGGTGGTTGGCCAGCTCACCTTGGCAGATGCTCTCATCGTTGGCAACTGTAATAACCAG
Seq A exon
GTGGGAGTACAGTACAGCAAAACACCTAACTAGTTACATAATATGTCATATTCAAGCAGTTCTGTCTTATGTAAATGATTAGACACTTCAAATTTGTGGTGTAGGTTTATCTAACGTGTTTTATCTCAGTCATTTTTTTGTTGTTGCAATGATTGGGTTTCTTTTGGTTTGCAG
Seq C2 exon
GTGAAGTTCAGCGAGCTGACCATCGATATGTTTCGAATGCTTCAAGCGCTTGAGAGGGAACCGGTGAACCTGGCTACGCAAAGCTCCAAACCAGGGACACTT
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000060865:ENSDART00000139744:8
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=0.353
Domain overlap (PFAM):
C1:
PF120703=DUF3550=FE(10.1=100)
A:
NA
C2:
PF120703=DUF3550=FE(6.7=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:
GCCGATCCTCTGATGATCCTG
R:
CCTGGTTTGGAGCTTTGCGTA
Band lengths:
248-422
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]