DreINT0003296 @ danRer10
Intron Retention
Gene
ENSDARG00000019707 | C21H9orf114
Description
chromosome 9 open reading frame 114 [Source:HGNC Symbol;Acc:HGNC:26933]
Coordinates
chr21:3645234-3645511:+
Coord C1 exon
chr21:3645234-3645320
Coord A exon
chr21:3645321-3645471
Coord C2 exon
chr21:3645472-3645511
Length
151 bp
Sequences
Splice sites
5' ss Seq
GAGGTTTGC
5' ss Score
3.52
3' ss Seq
TATAATATTTGCATTTGTAGGGC
3' ss Score
8.09
Exon sequences
Seq C1 exon
GTTCATTGTGAGTGTAACACACGTAACAGCATGGCTGATGAACCCTCAGAGAAGAAAAATAAACCAAACACACTCTCAAATAAAGAG
Seq A exon
GTTTGCGTGATTTTAACGTTCTTCAAATTACTGCACTCGTTATACATTTAAAAACTGTGATAACTAGCTTTAGTAAAACGTTGTTTTATGTTCAACTGATGATGTAAAATGTATGTAATGTTAATGCATGTTATAATATTTGCATTTGTAG
Seq C2 exon
GGCGAAGAGAGAAAAAACTGGAAGAAATGGAAAGAACAAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000019707:ENSDART00000146754:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=1.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion 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:
GTAACACACGTAACAGCATGGC
R:
TTTGTTCTTTCCATTTCTTCCAGT
Band lengths:
114-265
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]