DreINT0178816 @ danRer10
Intron Retention
Gene
ENSDARG00000056324 | zgc:123295
Description
zgc:123295 [Source:ZFIN;Acc:ZDB-GENE-051127-11]
Coordinates
chr3:21061866-21062142:+
Coord C1 exon
chr3:21061866-21061886
Coord A exon
chr3:21061887-21061973
Coord C2 exon
chr3:21061974-21062142
Length
87 bp
Sequences
Splice sites
5' ss Seq
ATGGTAAGT
5' ss Score
11.01
3' ss Seq
ATTCTTTTTGCTCTCCTCAGTCT
3' ss Score
8.01
Exon sequences
Seq C1 exon
GTTCACTCTGTCAGTTAAATG
Seq A exon
GTAAGTTATCCTACTATTAATCTGCATATCTTTTGTGTTTAAATGTTTTTTTAATGGGCTTTCCCATATTCTTTTTGCTCTCCTCAG
Seq C2 exon
TCTGTGGTCGGGCCCCTCTTAACACTAAAATTGTAGGAGGACAGAATGCAGGAGCGGGATCTTGGCCGTGGCAAGTCAGCCTTCAGAGTCCCACCTATGGAGGCCATTTCTGTGGCGGGAGTCTAATCAATAAAGACTGGGTTCTGTCTGCAGCTCACTGCTTCCAGGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000056324:ENSDART00000078807:2
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:
NO
A:
NA
C2:
PF0008921=Trypsin=PU(20.1=80.7)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]