DreINT0020490 @ 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
chr7:24063644-24064476:+
Coord C1 exon
chr7:24063644-24063820
Coord A exon
chr7:24063821-24064391
Coord C2 exon
chr7:24064392-24064476
Length
571 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAGC
5' ss Score
10.22
3' ss Seq
TTGCTCTTCCTTCACCATAGCTC
3' ss Score
8.47
Exon sequences
Seq C1 exon
AGCCGGTAAAATGTAAAGATCCAGGTGTTCCTGAGTTTGGGCAACGAGAGGGCACTAATTTTATCATGGGAAGTGAGGTAGTATTTTCCTGTAAGGAAGGCTATGAGTTAATTGGCTCATCCCAACTTACATGCACAGAGGAGGGTTTTTGGAAGCAGGATGTCCCATATTGCAAAG
Seq A exon
GTAAGCCTAGCTTTAAGATGTTTTTTAGTGATTTATTTAAATTAAAAAATCTGTAGCCATATTCAGAAATGCTCATACAGTAAAATTTTATCAATGTTATTCCACTGAAATAGATATACTGTTTACATATAAGTAATATGTACAGTTGAAGTCAGAATTATTAGCCCCCCTGAAATATTAGCCTGTTCATTTCTGTTGAACGGAGAGAAGATTTTTTTCATCACATACACATAATCGTTTTAATAACTAGTGGTGCAGGTGAAGATTGTGGGTGTTTACAGGGGTTTGACAGATAAATATGTATTTGTAGCTAAATTGTCAGTGGTGCCAAACAGCATTTCTCATAGTTTACATCATTGTTTATGTCCTCGCTACAACATACCGATAACGCTAGAACTGTGCAAGTAATAGATCAATTTTACCAAATAAAAACACTAACAGGTTGTGGCTCACAAGCCACAGCTTCTTCTATTATTGTAGTGGACCTCCTCTTTAAATGCAGTAATGAGAACTGCTGCCTGAGGCCTGCAGTGCCAAACACTGAACATAATTTGCTCTTCCTTCACCATAG
Seq C2 exon
CTCTTTCCTGTCCTCATCCCACTCTCCCAAAATATGGAATCCTTAAAGGGGCAAACTTCACATACGGAAGCAAGGTGACTTTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000013526:ENSDART00000076882:27
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=90.0)
A:
NA
C2:
PF0008415=Sushi=PU(46.3=86.2)
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:
AGCCGGTAAAATGTAAAGATCCAGG
R:
CTGAAAGTCACCTTGCTTCCGT
Band lengths:
262-833
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]