HsaINT0149312 @ hg19
Intron Retention
Gene
ENSG00000109686 | SH3D19
Description
SH3 domain containing 19 [Source:HGNC Symbol;Acc:30418]
Coordinates
chr4:152065062-152065440:-
Coord C1 exon
chr4:152065372-152065440
Coord A exon
chr4:152065203-152065371
Coord C2 exon
chr4:152065062-152065202
Length
169 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAAG
5' ss Score
9.06
3' ss Seq
AGTGGTATTGTACCTTGCAGCGT
3' ss Score
6.42
Exon sequences
Seq C1 exon
CTGTCTGTGCCTCATGGAATTGCCAATGAAGATATTGTCTCTCAAAACCCCGGAGAACTCTCTTGTAAG
Seq A exon
GTAAAGTAGAGCTCTTTCCTTACTGGTTAATGTAAAAAAAAAATTACTGGCCTCTGTTACTACCATTACACATTATTAAATGCTTTAGGCTCCAAAGATTAAAATGTGAAAAAGTAATAATGTTTTATTAAATAATAATTGCTTCAGAGAGTGGTATTGTACCTTGCAG
Seq C2 exon
CGTGGGGATGTACTTGTGATGCTGAAGCAGACGGAAAATAATTACTTGGAGTGCCAAAAGGGAGAAGACACTGGCAGAGTTCACCTGTCTCAAATGAAGATTATCACTCCACTTGATGAACATCTTAGAAGCAGACCAAAC
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000109686-SH3D19:NM_001009555:12
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact
No protein impact description available
No structure available
Features
Disorder rate (Iupred):
C1=0.609 A=NA C2=0.518
Domain overlap (PFAM):
C1:
PF0765312=SH3_2=PU(33.3=78.3)
A:
NA
C2:
PF0765312=SH3_2=PD(63.0=72.3)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTGTCTGTGCCTCATGGAATTG
R:
GTTTGGTCTGCTTCTAAGATGTTCA
Band lengths:
210-379
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
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)