HsaINT0162180 @ 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
chr9:113148178-113149738:-
Coord C1 exon
chr9:113149565-113149738
Coord A exon
chr9:113148355-113149564
Coord C2 exon
chr9:113148178-113148354
Length
1210 bp
Sequences
Splice sites
5' ss Seq
AACGTGTGT
5' ss Score
3.87
3' ss Seq
TTTTCTTTTCTTTTTGACAGCAA
3' ss Score
9.13
Exon sequences
Seq C1 exon
AGACCAGGTGTGAAACTCCACTTGAATTTCTCAATGGGAAAGCTGACATTGAAAACAGGACGACTGGACCCAACGTGGTATATTCCTGCAACAGAGGCTACAGTCTTGAAGGGCCATCTGAGGCACACTGCACAGAAAATGGAACCTGGAGCCACCCAGTCCCTCTCTGCAAAC
Seq A exon
GTGTGTGTTGCCTTTAGGAGAAATTTTAATCAGATTCAGTTTCACGATTAGCTTCCCGCATATCCAAAACATAGAGGAAGCTCCACTCATAAGGGATATGGGCCCAGAGAAAGCAATTAATGCCTATCCAAGCTGAATTCTCTGGGATATTTTAAAAATATGTTTGTGTTATCTAAGTCCTGTCTGAGAATCAGCTTTTGTCAGATTCCATGAGTGATTACTAAGAGAAAATGCAACTTAATGAAAAAATTTTGACATACATGTATCATGAATTCTACTGGGGATAGGAAAGAAATGAAAGATGTATCATGAATTCTACTGGGGATAGGGAAAGAAATGAAAGAAAATACATTTAATATGTGATGTTAATATAATGAAGTATATATAAATATGATAAATTAAGATAATGAGTTATAGCCATTCGAATGAAAACAATATTCACAAGCAACGTAGAAGTTGAGACTGCTCTTGTTAACTGTTTCAAGTATCATCATAATGTAGTAACAGCGGAAGTGTACCTCACTCAAATACTTTTATGCCCATTTAAAAATCTGAAATTGCTTGAAATATGTGTTGACATGTGTGTCACACACTTGCGCTAAGCACGCATAATGCCATCATCATTTCCTGTGTTTCCCTCGGGCCTATAACAATGAATCCATCTTTATCAATAAAACATGCAAACTCCACTAGTTCTAATATCCTGCCCATAGCAGTATGAGTCTAAAGTCACATTCAGCTCACATAGAAATGTCTGATGGTTTCCTGGTTCCATCCTCCTGAAGGATGTTCAATAAAAGAAAGTAAGGTGACAATGAGAAGCATTTGATATTCTTCAAATAAGGGAATATTTGATATACCCCTTGATTTCTAGTATGCCTTTTGTTTTCACAATGCTGATCAAAAACTCAGTCTAAAATAATGTTGTGGCCCATAATTTCAGGCATAAATTGTCATCTTCAACTTTTAGGACCTTGCATTAGTGGTTGAATAACTTCATGTTTTCTGATCTTATCTGGCTTTATCTTTACACATAATTTCATGAGGATGCAAAACAAGTCTGTGTCTAATGTTTGGAGTTCCATATTTTTAAACCTTATATGATCATTATTGAGAACCCATCTCTTATAGGACTACTACTCCACCTTCAAAGAAATACATTAGGAAAAGAGGGGAAATATCAGTAAGCATTTTCTTTTCTTTTTGACAG
Seq C2 exon
CAAATCCATGCCCTGTTCCTTTTGTGATTCCCGAGAATGCTCTGCTGTCTGAAAAGGAGTTTTATGTTGATCAGAATGTGTCCATCAAATGTAGGGAAGGTTTTCTGCTGCAGGGCCACGGCATCATTACCTGCAACCCCGACGAGACGTGGACACAGACAAGCGCCAAATGTGAAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000165124-SVEP1:NM_153366:42
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.034 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0008415=Sushi=WD(100=91.5)
A:
NA
C2:
PF0008415=Sushi=WD(100=91.7)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GACCAGGTGTGAAACTCCACT
R:
CACATTTGGCGCTTGTCTGTG
Band lengths:
347-1557
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)