DreINT0158580 @ danRer10
Intron Retention
Gene
ENSDARG00000003592 | surf1
Description
surfeit 1 [Source:ZFIN;Acc:ZDB-GENE-041108-2]
Coordinates
chr5:32681832-32682190:+
Coord C1 exon
chr5:32681832-32681959
Coord A exon
chr5:32681960-32682107
Coord C2 exon
chr5:32682108-32682190
Length
148 bp
Sequences
Splice sites
5' ss Seq
CAGGTACAG
5' ss Score
8.68
3' ss Seq
AGCCCTATTTGACATTATAGGTG
3' ss Score
5.33
Exon sequences
Seq C1 exon
ATAACCTGGCCAGGTTTAGTCAACAATCAACTTCCACTGTCGAAGGAACAAAGAAAGGAGAAGACACCTTTCTGAAGTGGTTTCTCTTGTTGATACCCGTCACCACCTTTTGTCTTGGAACATGGCAG
Seq A exon
GTACAGACACACACAAGTGTAGTGTTTATCTTATAAACCCATAACTAAAGAAGCAATGGGGTACATGCAGTTTATTTTATCTCAGGATTTTCAATGGTGTGCACATAGTCCTTTAGCAGTTTCTGAAAAGCCCTATTTGACATTATAG
Seq C2 exon
GTGAAACGTAGAAAGTGGAAGTTGGAGCTGATCAGTGAACTTCAGAGTCTGACGACTTCAGTGCCAATCCCACTGCCTGTAGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000003592:ENSDART00000011337:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.023 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0210410=SURF1=PU(6.4=32.6)
A:
NA
C2:
PF0210410=SURF1=FE(12.3=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:
CCTGGCCAGGTTTAGTCAACA
R:
TCTACAGGCAGTGGGATTGGC
Band lengths:
207-355
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]