DreINT0131768 @ danRer10
Intron Retention
Gene
ENSDARG00000037362 | scube2
Description
signal peptide, CUB domain, EGF-like 2 [Source:ZFIN;Acc:ZDB-GENE-050302-80]
Coordinates
chr7:28299785-28300099:-
Coord C1 exon
chr7:28299947-28300099
Coord A exon
chr7:28299865-28299946
Coord C2 exon
chr7:28299785-28299864
Length
82 bp
Sequences
Splice sites
5' ss Seq
ACGGTGAGA
5' ss Score
8.94
3' ss Seq
ATATAATATGATTCTTTTAGAGG
3' ss Score
3.67
Exon sequences
Seq C1 exon
CTCTGCCCAATTCAGTGACGACTTACGAGACGTGCCAGACGTACGAGCGGCCCATCGCCTTCACCTCCCGCTCCAAGAAACTCTGGATCCAGTTCCGCTCCAATGAAGGAAACAGTGGAAAAGGCTTTCAAGTGCCTTACGTGACGTATGACG
Seq A exon
GTGAGAAATTGATTGCTTGTGTGTTTTTATTGTATGGTAAGTAGTCTGAGGATTTATTGGATATATAATATGATTCTTTTAG
Seq C2 exon
AGGACTACCAGGAGCTCATTGAGGACATAGTTAGGGATGGAAGATTATACGCCTCTGAGAATCATCAGGAAATTCTTAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000037362:ENSDART00000054366:21
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:
PF0043115=CUB=PD(41.8=88.5)
A:
NA
C2:
NO
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:
CTGCCCAATTCAGTGACGACT
R:
TGTCCTCAATGAGCTCCTGGT
Band lengths:
178-260
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]