DreINT0147312 @ danRer10
Intron Retention
Gene
ENSDARG00000094330 | si:dkey-9p24.5
Description
si:dkey-9p24.5 [Source:ZFIN;Acc:ZDB-GENE-090313-371]
Coordinates
chr23:27425531-27425973:+
Coord C1 exon
chr23:27425531-27425664
Coord A exon
chr23:27425665-27425759
Coord C2 exon
chr23:27425760-27425973
Length
95 bp
Sequences
Splice sites
5' ss Seq
AATGTAAGT
5' ss Score
8.62
3' ss Seq
TGTTTTTGTCGATCTCCTAGACA
3' ss Score
6.86
Exon sequences
Seq C1 exon
TAACGTCAGACTGCAGCAAAGCGACATTTCCAAGATGCACCGTAGACTTAAAATTATCTTAATACATGTTGTTGTGGTCGGCTTGATGTTAATTATTTTGGCTGCAAAAAATTACCCTACCCCTCATGAAAAAT
Seq A exon
GTAAGTTAAGTTTATCGTTACATTCGTAAAAAATCAGCTTAGTAACTTAAGGCAATATGCTATACGTTACCTGTGTGTTTTTGTCGATCTCCTAG
Seq C2 exon
ACAGGATTTGCGGCGACAGGCCTTTGAGGCCGGTCCGACATCGAAGTACCCGGATGGTCGGCGGAGTGAACGTCGGCGTGGATGTTTGGCCATGGCAGGTGTCCATCCTGTACCAGCCCAATTCATCTGCCCCGCTTCGTCAGATTTGTGGTGGAGCTATTGTTCATGAAAAATGGGTTATGACAGCTGCCGCATGTGCATTAGAAGATAAAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000094330:ENSDART00000144762:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.010
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0008921=Trypsin=PU(22.3=72.2)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Human
(hg19)
No conservation detected
Mouse
(mm10)
No conservation detected
Mouse
(mm9)
No conservation detected
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACATGTTGTTGTGGTCGGCTT
R:
TACAGGATGGACACCTGCCAT
Band lengths:
183-278
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]