HsaINT0162170 @ hg19
Intron Retention
Gene
ENSG00000165124 | SVEP1
Description
sushi, von Willebrand factor type A, EGF and pentraxin domain containing 1 [Source:HGNC Symbol;Acc:15985]
Coordinates
chr9:113192200-113192730:-
Coord C1 exon
chr9:113192554-113192730
Coord A exon
chr9:113192285-113192553
Coord C2 exon
chr9:113192200-113192284
Length
269 bp
Sequences
Splice sites
5' ss Seq
AAGGTATGT
5' ss Score
9.79
3' ss Seq
TTTGTTTTTCCTTTGTTAAGCTG
3' ss Score
6.27
Exon sequences
Seq C1 exon
AACCTATAAAATGTAAGGCTCCAGGAAATCCGGAAAATGGCCACTCCTCAGGTGAGATTTATACAGTAGGTGCCGAAGTCACATTTTCGTGTCAGGAAGGATACCAGTTGATGGGAGTAACCAAAATCACATGTTTGGAGTCTGGAGAATGGAATCATCTAATACCATATTGTAAAG
Seq A exon
GTATGTTTAGTAAATTTACCACGTTTCTTATGTTTGGCAATCCTAGAAAGGTAAGGCGTAGACATATGAAGTGTTATGTTGTATCAATGTTCTTTGTATTTGAACTGAGGTATTAGGCTCATGTTTAAACATGACCCCACACACACACACCAAAAAAAAAAAAAAAGAAAACAAACAAACAAAAAAAGATCTTGAGCTGCCCCTTGAAATTTCAAAGATTTTTGCACACAGTCTCAAAAAAGTCACGTGTTTGTTTTTCCTTTGTTAAG
Seq C2 exon
CTGTTTCATGTGGTAAACCGGCTATTCCAGAAAATGGTTGCATTGAGGAGTTAGCATTTACTTTTGGCAGCAAAGTGACATATAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000165124-SVEP1:NM_153366:33
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.033 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
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AACCTATAAAATGTAAGGCTCCAGGA
R:
ATATGTCACTTTGCTGCCAAAAGT
Band lengths:
260-529
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains
Other AS DBs:
FasterDB (Includes CLIP-seq data)
AS-ALPS (AS-induced ALteration of Protein Structure, links to PINs)
APPRIS (Selection of principal isoform)
DEU primates (Only for human)