DreINT0020505 @ 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
chr7:24078343-24079234:+
Coord C1 exon
chr7:24078343-24078438
Coord A exon
chr7:24078439-24079138
Coord C2 exon
chr7:24079139-24079234
Length
700 bp
Sequences
Splice sites
5' ss Seq
AGCGTAAGT
5' ss Score
10.07
3' ss Seq
ATGAGTGCTTCTTTCCATAGCGA
3' ss Score
7.84
Exon sequences
Seq C1 exon
CTGTCTGTTGGCGCCATTGTCAGAATGGAGGTGTGTGCCAAAGACCAAACACTTGCTCCTGTCCAGAGGGATGGATGGGACGATTTTGTGAAGAGC
Seq A exon
GTAAGTACACACAAACCAAGATTATTCATTTATTTATATTGCATTAGTCCGTACTTTTGGCAAGATTTCATGGATCAATAATAGTGTGCACCACATCAGCTTACTAAAAGCCTTGAACTGCTGAATGTGGGCTTTATGTCTGTGCACACTGCAAAAAATGCTGGGTTAGGCTCCACACAATTCATTCACATTGTTCTAACTTAGTTGTTTTTTACAACTTAAAGTGCATTGAACATAAAACAGTTGAGTCGTCCCCAAATAATTAAGAATTGTGTCGTTTCAGCTGATTTTATGTAAGTTGTTTGAAAAAGCAGCAAATTATATATTATTTGAGTGCATCGTGAATACATGGCGAAAAGAAAGAGAGGTTAAAACAACACTGCGTCTTATGGTGAAGTTTTGAAAAATGGATTTATTAGAAGTTTATTGGAATAAAAAAGTATTTACCCACTTTCCATGTTGTTACAAACATATTTCAGTTTCTATCTTCTACTTTATACAAACTACTTTTTTAAGATGTCGGAAACCTGTTTGACTTGTATTTCTATTTACTATTAATGTCAATGGCTTCCGGTTCCCCCTTAAAATATCTTTTATTTTACTGAAAACATGCAAATGTCACTTAAAAAGTTAAGCACTAATTGAGATTTTTCTAGATTAGATTATTGCAGTATGTCACTATGAGTGCTTCTTTCCATAG
Seq C2 exon
CGATCTGCATCCTACCATGTCTCAATGGAGGACGCTGCGTAGCTCCATACCAGTGTGAATGCCCAGCAGGATGGACGGGCACACGCTGCCACAATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000013526:ENSDART00000076882:40
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:
PF0000822=EGF=WD(100=75.8),PF0000822=EGF=PU(9.4=9.1)
A:
NA
C2:
PF0000822=EGF=PD(87.5=84.8)
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:
CTGTCTGTTGGCGCCATTGTC
R:
AGCGTGTGCCCGTCCATC
Band lengths:
183-883
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]