DreINT0020484 @ 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
chr7:24059421-24059833:+
Coord C1 exon
chr7:24059421-24059596
Coord A exon
chr7:24059597-24059708
Coord C2 exon
chr7:24059709-24059833
Length
112 bp
Sequences
Splice sites
5' ss Seq
CAGGTTAAC
5' ss Score
1.61
3' ss Seq
TGTGTGCTTTATTCAAACAGGAG
3' ss Score
8.67
Exon sequences
Seq C1 exon
GTGGGTCTTGTATGTTAATGGAAAGGAGCGGATTACTGACTGCCCAGCAGTAAATGATGGCCTCTGGCACCACATTGGTGTAACATGGCGCAGCAAGGATGGCGATTGGAGAGTTTACATTGACGGCAGTCCTTCAGATGGAGGGAAAGGACTGTCCATTGGCACTACAATACCAG
Seq A exon
GTTAACCTTCATACCTGATAAAGAACTCAAACTCACAGCCAGTTTATAAAGACATTTATTGCTCGATGGCTACTACAGAGAAACCATGTGTCTGTGTGCTTTATTCAAACAG
Seq C2 exon
GAGGGGGCGCTCTGGTTCTTGGGCAGGATCAAGATCAGAGAGGAGATGGCTTCAACCCAGTGGAGTCCTTTGTGGGCACTCTTAGTCAACTTAATATATGGAACTATGTTTTAACACCACAGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000013526:ENSDART00000076882:21
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.033 A=NA C2=0.071
Domain overlap (PFAM):
C1:
PF0035412=Pentaxin=FE(30.6=100)
A:
NA
C2:
PF0035412=Pentaxin=FE(21.2=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AAGGAGCGGATTACTGACTGC
R:
TGACTAAGAGTGCCCACAAAGG
Band lengths:
242-354
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]