HsaINT0149314 @ hg19
Intron Retention
Gene
ENSG00000109686 | SH3D19
Description
SH3 domain containing 19 [Source:HGNC Symbol;Acc:30418]
Coordinates
chr4:152147199-152147660:-
Coord C1 exon
chr4:152147320-152147660
Coord A exon
chr4:152147239-152147319
Coord C2 exon
chr4:152147199-152147238
Length
81 bp
Sequences
Splice sites
5' ss Seq
ATGGTATGG
5' ss Score
6.63
3' ss Seq
ACCATCTTCTTTCTCTACAGATC
3' ss Score
12.92
Exon sequences
Seq C1 exon
TCATTTTTCCCCCTCCCCATTCTGTTAGAAGCTTCTGCCAACCATGATTCATGGAATGATTTTTTTGAGCTGAGTAATCTGTGGCTTTGCAGTTTCCTTGCTTTCTTTCCTTAGCTAAATCTCTTCTAGTGTTAGCAAAGTATTTAGCACAGGAAAGATCTTATAAAATGAAATAATGCATGTAATGATGCATTTTCCAAGTAGATGATTTTAACAAACCGTAAGCTTTTATGCCTGTCCTTCATTGTGTCTTTTCTGCCTCTGTCAGGCGAACTGTGATGAAGAGCCTTATACTTAGGAAGACACAACTACCTTTGAACAGTCCTTTGTGAAATCTAATG
Seq A exon
GTATGGCAGCTGGTATTTAAAAACTTCTTTCCAGAGCTTTTAAAGAACCTTTTGACACGTAACCATCTTCTTTCTCTACAG
Seq C2 exon
ATCGCAACGAACGAAATAAACCAGAACATCGTTCTTCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000109686-SH3D19:NM_001128923:1
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
5' UTR
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=NA
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
NA
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping 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:
CCAAGTAGATGATTTTAACAAACCGT
R:
TGGTTTATTTCGTTCGTTGCGA
Band lengths:
168-249
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)