DreINT0134341 @ danRer10
Intron Retention
Gene
ENSDARG00000088202 | sh3d19
Description
SH3 domain containing 19 [Source:ZFIN;Acc:ZDB-GENE-050522-481]
Coordinates
chr1:23703344-23703812:-
Coord C1 exon
chr1:23703626-23703812
Coord A exon
chr1:23703508-23703625
Coord C2 exon
chr1:23703344-23703507
Length
118 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGA
5' ss Score
9.22
3' ss Seq
TGTTTTTTGTTTATTTACAGATG
3' ss Score
11.04
Exon sequences
Seq C1 exon
GCTGAAAGCAATGGTGCAGAATGGGCTGTAGCACTTTATGACTTCACAGCAGAGACCGAGGAGGATCTGCCCTTCCAGCAGGGAGACAGAATCCTGGTCACAGCTCATGTAGATGATGAATGGTGGAGCGGAAGAATCAATGGCAGAGAGGGCTTCTTCCCTAAAGCGTTTGTGGAGAGTGTAGCAG
Seq A exon
GTGAGATTATAAAGTGACAGCGCCCTCTAGTGGACAGTCACAGGAAATACATCTCGGAACCTGTGCTTTTCATTTTTAGTGATTTTAAATATCTTTCTTGTTTTTTGTTTATTTACAG
Seq C2 exon
ATGTAAGGAAGTGGTAACAGTTATTCATCAAAGGCATCTTCAGAAGCAGTGTTTTTTCTTCTTTAAAGTGTATTTACAGGTTATTTTATTCGTATGTTTGTTGAATGTATTTATAAATGTGAACTCCAAATTCTATTGCAATCTAAAAATATATATTCATGAAC
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000088202:ENSDART00000126950:19
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0001823=SH3_1=WD(100=73.0)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCCAGCAGGGAGACAGAATCC
R:
TTGCAATAGAATTTGGAGTTCACA
Band lengths:
255-373
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]