HsaINT0149331 @ hg19
Intron Retention
Gene
ENSG00000109686 | SH3D19
Description
SH3 domain containing 19 [Source:HGNC Symbol;Acc:30418]
Coordinates
chr4:152053483-152054388:-
Coord C1 exon
chr4:152054186-152054388
Coord A exon
chr4:152053536-152054185
Coord C2 exon
chr4:152053483-152053535
Length
650 bp
Sequences
Splice sites
5' ss Seq
TAAGTGAGT
5' ss Score
6.43
3' ss Seq
TGTTTGTTTTTTTAATGTAGGCA
3' ss Score
8.25
Exon sequences
Seq C1 exon
AGGCTCAAGATGTGTTGCTCGGTTTGAATATATTGGAGAGCAGAAGGATGAGTTGAGTTTCTCAGAGGGAGAAATTATTATTCTTAAAGAGTATGTGAATGAGGAATGGGCCAGAGGAGAAGTTCGAGGCAGAACTGGGATTTTCCCCCTGAACTTTGTGGAGCCTGTTGAGGATTATCCCACCTCTGGTGCAAATGTTTTAA
Seq A exon
GTGAGTATAGAGAATTTTTTTTATTATGTTATGTCCTAATTCAAATAAACCAAATAATATCATTATACTTAAGCTGTATAATAATCCATATTGCCATATTTTTACGGTAGAAGGAAAACTGATTTTAAAATGGGAATTTGTGTGGGATAGACATTATTTGTGGGCATCTCTCAAAGAGCTGGTTTTGGTATTTTAGGTAATTAGCAATAGCTTCATATAAGAAATGGCAAAGAGGCTGGGTATGATGGCTCAGACCTGTAATTCCAACACTTTGAGAGGCCACGGTGGGCGGATTGCCTGAGACCAGGAGTTCAAGGCTGCAGTGAGCTATGATTGTACCACTGCACTCCAGCCTGGGCAACAGAGCCAGACTCTGTATCTAATAAATAAATAGCAAAGACTTTTAAACAGAAATGAACTATAGACTGTTACTAATGTATATAGACTATAAATAGTTGTGTTTACAATTAACTAAACAAGCTCAGTGAAGTTAGTACAGGTTAACGCAACATAGACAATACATGAAGAGACCGGAGTGGAATCCCAGAGTCTTCACTCCCACCTCCCACCTCAACCATTTGTTTTTAATACTATGTGGCCTTCACATCTAATGTTCTGACTTCTTGTGTTTGTTTGTTTTTTTAATGTAG
Seq C2 exon
GCACAAAGGTACCACTGAAAACCAAAAAAGAAGATTCTGGCTCAAACTCTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000109686-SH3D19:NM_001128924:9
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=0.500
Domain overlap (PFAM):
C1:
PF146041=SH3_9=WD(100=71.0)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGGCTCAAGATGTGTTGCTCG
R:
CTGAGAGTTTGAGCCAGAATCT
Band lengths:
256-906
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)