DreINT0020488 @ danRer10
Intron Retention
Gene
ENSDARG00000013526 | SVEP1
Description
sushi, von Willebrand factor type A, EGF and pentraxin domain containing 1 [Source:HGNC Symbol;Acc:HGNC:15985]
Coordinates
chr7:24062627-24063155:+
Coord C1 exon
chr7:24062627-24062800
Coord A exon
chr7:24062801-24063035
Coord C2 exon
chr7:24063036-24063155
Length
235 bp
Sequences
Splice sites
5' ss Seq
TGGGTAAGT
5' ss Score
10.24
3' ss Seq
GGTTTTCGATCATGTTACAGATG
3' ss Score
6.66
Exon sequences
Seq C1 exon
GTGTGGAATGTGGTCCTCCACCTGACCTGGAGCATGGACAATATCATGGAGAGGATTTCTATGCTGGGAGCTCAGTGCTTTATCAATGCAAACCAGGTTTCTACTTGCTCGGGGAGAGTAAGATGCAGTGTACTAATAATGGTAAATGGATTGGCAACCCACCTGCTTGTCTGG
Seq A exon
GTAAGTGATACACAGCAAACGAGTAAAAGAACCAGAGAGAGGCACTGAATAGACAATAGGACTATATCAGGGTTACCAAACACTACTTTATATGGGGGCATCTGGAACCTGGAATATCATTTTACATGTTTAACACAAGAACAAAGGCATGCAGAGTGTGCATGCTAAATGAATGACAAGCAGCTTTTCATTTGTCATTTACACTTTGTTTTGTTGGTTTTCGATCATGTTACAG
Seq C2 exon
ATGTGGATGAATGTTCTTTGGGCTCTGAATGTGATGAACATGCTAGTTGCCAGAACACTGATGGCTCGCATATATGCACCTGCATAGCTCCTTACAGTGGGGATGGAAGAAACTGCACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000013526:ENSDART00000076882:25
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.017 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0008415=Sushi=WD(100=91.5)
A:
NA
C2:
PF129472=EGF_3=WD(100=85.4)
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:
GTGTGGAATGTGGTCCTCCA
R:
GTGCAGTTTCTTCCATCCCCA
Band lengths:
292-527
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]