HsaINT0181154 @ hg19
Intron Retention
Gene
ENSG00000165816 | VWA2
Description
von Willebrand factor A domain containing 2 [Source:HGNC Symbol;Acc:24709]
Coordinates
chr10:116013410-116014807:+
Coord C1 exon
chr10:116013410-116013484
Coord A exon
chr10:116013485-116014673
Coord C2 exon
chr10:116014674-116014807
Length
1189 bp
Sequences
Splice sites
5' ss Seq
AAAGTAAGC
5' ss Score
7.31
3' ss Seq
GTCTGTCCCGCTCTCCCTAGTGA
3' ss Score
9.51
Exon sequences
Seq C1 exon
TGCCCCCATCTCTCCCTCTCCAGGAAGTCCATGTAAGCAAAGAAACCATCGGGAAGATTTCAGCTGCCAGCAAAA
Seq A exon
GTAAGCCCAGGTTCTTCTTAACCCTCCAGATGCCCACTCAGACCTCTGTGTGATGGACTGGATGAGAACCATGTTCTTCCAGAGAGTTTCTGCCCCTTTCCCATCTTCCTTTCATGCTCTGGCCAGAGTCATTTTCCCCAAACAGGGACCTGACCAAATCACTTGGTTTAAAAACAAACAAAAGTGGGTGCCTGTAATTCCAGCTACTCGGGAGGCTGAGGCAGGAGAATTGCTTGAACCCAGGAGGTGGAGGTTGCAGTGAGCTGAGATTGCGCCATTGCACTCCAGCCTGGGCAACAAGAGGTACACTCCATCTCAAAAACAAGCAAAACAGCTCAGTAAACCTTTTTTTGTTTTGTTTTAAAGACAGGGTCTTGCTCCTGTCGCCCAGGCTGGAGTGCGATGGCATAATCTCAGTTCACTGCAGCCTCAACCTCCTGGGCTCAAGCAATCCTCCTGCCTCAGCCTCCCAAATAGCTGGGACCATAGGCATGCATCACCACGCCTAGCTAGTTTTTGTGTTTTTAGTAGAGATGGGGTTTCGCCATGTTACCCAGGCTGATCTCGAACTCCTGAACTCAAGCAATCCGCCCGCGTTGGTCTCCCAAAGTGCTGAGATTCCAGGTGTGAGCCACCATGCCCAGCCTCAGTAAATCTTTATTATTGAATTACTTGGCCTGTGCCTCAAGGTTTTCTGTTACCTGCTCACCAGGTAACGGGGTGGCTACTTGCCATGTCCATCTCCCACCATATTCCTTCCTCTTCCACCCTCATCAGTATCCCTCCACATTGCTGCTGTTACTGCTACTGAACTCTTGGGTAACATGGCCTCACATATCAGGGTGCCTGTGTCCACACTAGACTGTGGTCCCCCGAGGCCTGGGACCAAGCCTTTTCAGTGCTGCTCACTAGCCCAGTAGACCCCCTCATAGAACGTAATTGATATTGTTGAACTAGGTTCTTCCATTATTGTAATACAAAGGCTTTCACGTAAGGGCACATTTGTGAGCAGCACACCTGTGGTGCGTGTGCTTCCTGCTTCAGAGGAGGGCTGCTTCTGCAGTTCTCCCCTTTCATGCTAAGAGGGACAGCAGCCTGGCCCACCACAAGGCTGTTTGTGCCTTCACTCTGCTTCAGAAGTGAGACCGACTTGCTCCTGGTTGTCATCTGTCTGTCCCGCTCTCCCTAG
Seq C2 exon
TGATGTGGTGCTCGGCTGCAGTGGACATCATGTTTCTGTTAGATGGGTCTAACAGCGTCGGGAAAGGGAGCTTTGAAAGGTCCAAGCACTTTGCCATCACAGTCTGTGACGGTCTGGACATCAGCCCCGAGAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000165816-VWA2:NM_198496:3
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:
NO
A:
NA
C2:
PF0009223=VWA=PU(20.9=80.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCCCCATCTCTCCCTCTCCAG
R:
CTCTCGGGGCTGATGTCCAG
Band lengths:
206-1395
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)