DreINT0134338 @ danRer10
Intron Retention
Gene
ENSDARG00000088202 | sh3d19
Description
SH3 domain containing 19 [Source:ZFIN;Acc:ZDB-GENE-050522-481]
Coordinates
chr1:23707443-23707894:-
Coord C1 exon
chr1:23707824-23707894
Coord A exon
chr1:23707670-23707823
Coord C2 exon
chr1:23707443-23707669
Length
154 bp
Sequences
Splice sites
5' ss Seq
CAGGTTAGT
5' ss Score
8.02
3' ss Seq
TGTGTGTGTATTTTCCTCAGAGG
3' ss Score
9.01
Exon sequences
Seq C1 exon
AGCAAGCCTAATATATATGCACCAGCATTCAGAAATGAGTGGAAAAACAAACCATCTCCCGAGACTGTCAG
Seq A exon
GTTAGTCATTCTCAGAGGATTTGATTGTGAAAGCCTGAACGCTTGTTAATATAACAATATTTTTTTTAAATCAGTTTTATTGGACAAGCAGACAATCTTATTAACTTTATAGTCATTCAGTCAAATCTGATGTCTGTGTGTGTATTTTCCTCAG
Seq C2 exon
AGGCCCTCGGTGTGTTGCCAGGTTTGACTTTGAGGGAGAGCAAGGTGATGAGCTCTCGTTCTTTGAAGATGATGTTATTCAGCTCAAGGAATATTTAGGAGAGGAATGGGCTCGTGGAGAAGTCAATGGTCACGTCGGCATTTTCCCTCTCAACTTTGTGGAGGTGATTGAGGATCTCCCTTCAGTCCCAGTGCAGAAATCTGCTCCCAATAAAATTGCATTGCCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000088202:ENSDART00000126950:16
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.250 A=NA C2=0.065
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF146041=SH3_9=WD(100=63.6)
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:
GCACCAGCATTCAGAAATGAGTG
R:
ACTGGGACTGAAGGGAGATCC
Band lengths:
245-399
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]