DreINT0020501 @ 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
chr7:24072431-24073342:+
Coord C1 exon
chr7:24072431-24072607
Coord A exon
chr7:24072608-24073144
Coord C2 exon
chr7:24073145-24073342
Length
537 bp
Sequences
Splice sites
5' ss Seq
TACGTATGT
5' ss Score
5.54
3' ss Seq
ATATTCCTTCCCCCTCACAGCCA
3' ss Score
9.1
Exon sequences
Seq C1 exon
TGCCAGGTGGATGTGAGAAGATAACAGATTTATTGAATGGAAAGGTGCAAGAACACAACCTCTCCAGTGGACGTGCTCTTGAGTTCCACTGTAATAAAGGCTACACACTGCAGGGAGAGTCTCTCGTCATGTGTGTGGGAAACGGCTCCTGGAGTTCACCCTTCCCCGTCTGTTTAC
Seq A exon
GTATGTCAACCCATATAGTTTCAAATACTCTGAATAGTCTTTAAAGGGAAGATCCCTGGGTGAGGGATTTACTTTTTTTTTTACTAAACACTCACAATCTTGTTTAACAAGGTGTGTTACAGAGTATGTTGAAGAACCCTTTCCTAGTTACATCATTGTCATTCTCTTCTGCTCAAACACAAATTAGGCCCATTATAGATCTTCACACAGTCGACTTAGTGATTTTTTTCCAAAGTCTCATTGATTTAAGGGATTGCAAATTGAATTATTGATGTTTCTTTCAAAAGCAGACATCCATTTGGGTTCTCAAGTTTGGGTCAAGTTTCACAACTAAGCTAGTAAAAAATGTTTGTTAGGCATTAATCAGCATTGCAGAAGACTTTTTTCCCGCCAATGTACATTCAAACTAAACTTTACATATCTAATTACTGCATTATAGTTCTGCTTTTTAATTTAATTGGTAAAGTAATTCACAATATCAGATAAAAACAGCATAAACAAATCGTTAATGACTCAAATATTCCTTCCCCCTCACAG
Seq C2 exon
CCAAACCATGCCCTCCTCTTCCTCATGGCTGGACTGTAGGCAGTGCCAATGCTACTCAGACGGTTTTTTCTGTAGGCCAGTCAGTACAAGTCAGTTGCCCTAAGGGTCAGCGGGTCAAAAGTAACCAAGGAAAAGGTATCGCCACCTTAACTTGCAGGAGTGATCAGACCTGGACCCCCATCAGTGCAGTGTGTGAGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000013526:ENSDART00000076882:37
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=0.015
Domain overlap (PFAM):
C1:
PF0008415=Sushi=WD(100=90.0),PF0008415=Sushi=PU(0.1=0.0)
A:
NA
C2:
PF0008415=Sushi=WD(100=97.0),PF0279317=HRM=PU(95.7=65.7)
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:
TGCCAGGTGGATGTGAGAAGA
R:
TCCAGGTCTGATCACTCCTGC
Band lengths:
351-888
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]