DreINT0131127 @ danRer10
Intron Retention
Gene
ENSDARG00000010279 | scamp2
Description
secretory carrier membrane protein 2 [Source:ZFIN;Acc:ZDB-GENE-040426-2702]
Coordinates
chr25:2900967-2901230:-
Coord C1 exon
chr25:2901156-2901230
Coord A exon
chr25:2901082-2901155
Coord C2 exon
chr25:2900967-2901081
Length
74 bp
Sequences
Splice sites
5' ss Seq
CAGGTCAGC
5' ss Score
7.16
3' ss Seq
GTGTGTGGGTGTGTGTGCAGGCC
3' ss Score
7.07
Exon sequences
Seq C1 exon
GGATCCACTATTCCAGCATCAAGCGCCCCGACTCAACCTGCTGTCCTGCAGCCGTCAGTCGAGCCCAGTCCACAG
Seq A exon
GTCAGCATCACACACGCAGACACTTCTTCACAGTGTGTTTAAAGTGGATTTAACGTGTGTGGGTGTGTGTGCAG
Seq C2 exon
GCCACAGCTGCCGCTGCGCAGGCCAGTCTGATCAAACAACAGGAGGAGCTGGAGAGAAAAGCAGCAGAGCTGGAGAGAAGAGAACAAGAGCTGCAGAGTAGAGGAGCACCCACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000010279:ENSDART00000053405:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=0.846
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCCACTATTCCAGCATCAAGC
R:
GCTCCTCTACTCTGCAGCTCT
Band lengths:
179-253
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]