DreINT0140633 @ danRer10
Intron Retention
Gene
ENSDARG00000016464 | si:ch211-89p3.3
Description
si:ch211-89p3.3 [Source:ZFIN;Acc:ZDB-GENE-041014-372]
Coordinates
chr20:35283497-35283807:+
Coord C1 exon
chr20:35283497-35283636
Coord A exon
chr20:35283637-35283725
Coord C2 exon
chr20:35283726-35283807
Length
89 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGC
5' ss Score
8.7
3' ss Seq
CTCTTTTGTATTTTGAACAGGGA
3' ss Score
8.32
Exon sequences
Seq C1 exon
GTGCCGAAGCCCACTGGGGTGAAGAAGGGTTGGCAGAGGGTCTGGGCAGTGGTTTGTGACTTCAAACTTTTTCTGTATGAGCTTGGAGAAGGGAAAGGTGCTCAGCCTGGTGTTGTAGTAAACCAGGTCATTGACATGAG
Seq A exon
GTGAGCGAGGCGGTCATCTGAACGTGACAATTAAATGTCAAAGTCAAATACTTTATACATTATGTTTAACTCTTTTGTATTTTGAACAG
Seq C2 exon
GGATGAAGAGTTTTCCGCCAGTTCGGTTCTGGAGTCTGATGTCATCCATGCTAATAGGAAGGATATACCCTGTATTTTTAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000016464:ENSDART00000040456:25
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0016924=PH=FE(38.3=100)
A:
NA
C2:
PF0016924=PH=FE(22.5=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGTGAAGAAGGGTTGGCAGAG
R:
TGACATCAGACTCCAGAACCGA
Band lengths:
167-256
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]