DreINT0144246 @ danRer10
Intron Retention
Gene
ENSDARG00000002295 | si:dkey-21p1.3
Description
si:dkey-21p1.3 [Source:ZFIN;Acc:ZDB-GENE-081105-162]
Coordinates
chr8:14840137-14840312:+
Coord C1 exon
chr8:14840137-14840190
Coord A exon
chr8:14840191-14840258
Coord C2 exon
chr8:14840259-14840312
Length
68 bp
Sequences
Splice sites
5' ss Seq
AAGGTAATT
5' ss Score
8.83
3' ss Seq
TTTAATGACATTCACCACAGGGC
3' ss Score
6.79
Exon sequences
Seq C1 exon
GGAGCCACAGGAATACCAGGTTTGCAAGGGAGTCGAGGTCCTGCTGGACCAAAG
Seq A exon
GTAATTGCCATTCTGACTTTAAAAAAAAAGAAAAGTTTCCTACTGCAGTTTAATGACATTCACCACAG
Seq C2 exon
GGCTCTATTGGACTGAAAGGGAAAACAGGGCCTTCTGGACCAATAGGACCAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000002295:ENSDART00000134775:40
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=1.000
Domain overlap (PFAM):
C1:
PF0139113=Collagen=FE(27.9=100)
A:
NA
C2:
PF0139113=Collagen=FE(27.9=100),PF0139113=Collagen=PU(20.0=77.8)
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:
GGAGCCACAGGAATACCAGGT
R:
GTCCTATTGGTCCAGAAGGCC
Band lengths:
103-171
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]