HsaINT0149325 @ hg19
Intron Retention
Gene
ENSG00000109686 | SH3D19
Description
SH3 domain containing 19 [Source:HGNC Symbol;Acc:30418]
Coordinates
chr4:152069074-152070713:-
Coord C1 exon
chr4:152070652-152070713
Coord A exon
chr4:152069339-152070651
Coord C2 exon
chr4:152069074-152069338
Length
1313 bp
Sequences
Splice sites
5' ss Seq
GAGGTAAGT
5' ss Score
11.08
3' ss Seq
GCTACTACATTGACTTTCAGACC
3' ss Score
4.59
Exon sequences
Seq C1 exon
GAATCCAACCACCCAGGTCAAACAGGAGGTTTTGTGCGAGTACCCCCAAGGTTGCCACCGAG
Seq A exon
GTAAGTAAATGTGGGAAAAGTTAGAGAAAAATTAATGACTCAGAGACCCAACTCTTTTTTATCACCAAGATTGAGTGTTGTTGGCCTTGAATCTTTTTTTAGAGATAAAATAATCTCACCGATTTCACGCAGGCCCCTAATCCACTGTCTGCTCCTAATGGTAGGTTGTGGGAATCTCTGCTCCCTTTTTAACACAGTTCAACTCATAGAGCATTTATTTCCTCAAATAAATGAACAAGACTCATTTCTGAACTTAAAACAGCTCCACTTCTAGAATATACGTATACATGCACACAAACACCCTCCTGGTTAAGAAACTGGTTTTTGGCATTTCCGAAGGAGACTGGCTTTGTGAGCTCAGAGGTGACTGCCTTCTGAGTTCCGGAGCTATTCAAATAAAGGGCTGTAATGCTATCAGAAGACATTATTACTATGTTGAAATTTATTTATTTATTTTTTTTTTGAGATGGAGTCTCCCTCTGTCACCAGGCTGGAGTACAGTGGCGCGATCTCAGCTCACTGCAACCTCCGCCTCCCGGGTTCAAGCGATTCTCCTGCCTCAGCCTCCCAAGTAGCTGGGACTTCAGGCATGAGCCACCATGCCCAGCTAATTTTTGTATTTTTAATAGAGATGGGGTTTCACCATGTTGGCCAGGATGTTCTCGATCTCATGACCTCATGATCCGTCCATCTGGGCCTCCCAAAGTGCTGGGATTACAGGCATGAGCCACCACTCCCAGCCGAAAATTATTTCTATCGTAGGGATTAAGGAAAGGCTTTCAAAGTAATAGTTGTCCTATCCTTTCAGAACTAGCTTTCTTTGTATTAATCTAAATTAGACTTTTAATAGTAACACCTATAACATGAATATTAGGGGATTTTGATGTTCCTTTTCTAATCATGTACAAGACCCCAGCACACATACATCGTATCTTATTATAAGCTTTTCATCTCAGACTTTGGTAGAAAGTACTTAGTTTCCAGAAATAGTCATGATGTGTTTAAGAGCAAATGGGACCTTAGAGAGCCCGTGATAGTAAATGCTTGTTTGTCTTGAACTAATGAATCTCTAGCGCAAGATAAGAGGAAACTGGAACATCATGGCATTTCCTCTAATAATGTAATGTTTAATGCAGCAGTCGTTTGCTCAAAAATAGCATACCCTGCATGTTTCAGTAAACTGTATTCCACTAGCAGAAAGCTGTGTCTCTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTAAGACAGGACAGGACAGAATTTAATACTGATCAAAACACTGACTCATGGCTACTACATTGACTTTCAG
Seq C2 exon
ACCTGTGAATGGAAAAACCATTCCAACTCAACAGCCTCCAACCAAGGTGCCCCCTGAGAGACCACCTCCCCCAAAGCTTTCTGCAACCAGAAGATCTAATAAGAAACTGCCTTTTAATCGATCCTCTTCTGACATGGATCTTCAGAAAAAACAAAGTAACTTGGCAACTGGACTCTCAAAAGCCAAGAGTCAAGTTTTTAAAAATCAAGATCCGGTGCTACCCCCTCGTCCCAAACCAGGACACCCTCTCTACAGTAAATACATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000109686-SH3D19:NM_001128924:3
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=0.981
Domain overlap (PFAM):
C1:
NO
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:
CCACCCAGGTCAAACAGGAGG
R:
ATGTATTTACTGTAGAGAGGGTGTCC
Band lengths:
318-1631
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)