HsaINT0162159 @ 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
chr9:113212339-113213682:-
Coord C1 exon
chr9:113213569-113213682
Coord A exon
chr9:113212541-113213568
Coord C2 exon
chr9:113212339-113212540
Length
1028 bp
Sequences
Splice sites
5' ss Seq
TAGGTAAGA
5' ss Score
9.14
3' ss Seq
TCTTCCTTCTCCATCCTCAGGCC
3' ss Score
11.05
Exon sequences
Seq C1 exon
GTCAGCGGTGTGAAGAAAATATAAATGAGTGTAGCTCCAGTCCTTGTTTAAATAAAGGAATCTGTGTTGATGGTGTGGCTGGCTATCGTTGCACATGTGTGAAAGGATTTGTAG
Seq A exon
GTAAGATGTTTCCAGTCTTCCTATGTTGTCTTAAAATCTTGTAAACCACCACAAATTAGTACATTTCTTAACATATATATTAATGTGAATTTTTGGATTTTATTACTGTATGGTGATTATGTAAGAGAAAGTCCTCATTTTCTGAGGAAATACACACTGAGGGGTTTGGGGTAAAAGGGCATGCAGGTCTGCAATTTACTCTCAAATGGTTCAGCAAAAAATAATTTGTGTATGTGGTGTGTGTGTGTAAAGGCAAACTTTCAAGAAGGAACTGGAGACAAATCATGTAATATCATATTGCAAACAGATGTACAATAATATGGTTTAAAAGTGTATGCTTAATTTCTAAAGAGTAAATCCAAGAAAGTGTCCAGTGAAGGAAAAAGGCAAGATCAAAGAAACAGGCAAGTTTTGAATGGAATTTACTAGCTTTATTTCTTAACATTATCTCAATTAGATGTCTATTACCAAACTTAATTTCAACAAAAAGTAAGATTTAAAAAAGCAGATTATCGGCTGGGCATGGTGGTTCACGCCTGTAATCCCAGCATTTTGGGAGGCCGAGGCAGGTGGATTACTTGAGCTCAGGATTTCAAGACCACCTCGGCCAACATGGTGAAACCCTGTCTCTACTAAAAAAAAAATACAAAAATTAGCCAGGTGTGGTGGTGGGTGCCTGTAGTCTCAGCTACTCAGGAGGCTGAGGCAGGAGAATCGCTTGAACCTAGGAGGTGAAAGTTGCAGTGAGCCGAGATCGCGCCACTGTACTCCAGACTGGGAGAGAGAGCAAGACTCTGTCTCAAAAAAAAAAAAAAAAAAAACAGATTATCAAAAACTCAGAGTCCACAAAAAAATGACTTACAAAAGCCAGAGCCCATTACAGAATGGATCTCAAACCAGTTTGATGGGCTCCACAGCCTCCATTCCAATCCTCTAGAAGCAGCATCCTCCAGGGAGTCAACACTTTAGTTACAGTGTTCCCAGGGAGTTAATCATTTGGGCTGTTTCTCTTCCTTCTCCATCCTCAG
Seq C2 exon
GCCTGCATTGTGAAACAGAAGTCAATGAATGCCAGTCAAACCCATGCTTAAATAATGCAGTCTGTGAAGACCAGGTTGGGGGATTCTTGTGCAAATGCCCACCTGGATTTTTGGGTACCCGATGTGGAAAGAACGTCGATGAGTGTCTCAGTCAGCCATGCAAAAATGGAGCTACCTGTAAAGACGGTGCCAATAGCTTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000165124-SVEP1:NM_153366:23
Average complexity
IR-S
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=PD(6.5=5.1),PF0000822=EGF=PU(90.3=71.8)
A:
NA
C2:
PF0000822=EGF=PD(6.5=2.9),PF0000822=EGF=WD(100=51.5),PF0000822=EGF=PU(61.3=27.9)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTCAGCGGTGTGAAGAAAATAT
R:
CTGAAGCTATTGGCACCGTCT
Band lengths:
316-1344
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Genotype-Tissue Expression Project (GTEx)
- 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)