DreINT0127028 @ danRer10
Intron Retention
Gene
ENSDARG00000062650 | rif1
Description
replication timing regulatory factor 1 [Source:ZFIN;Acc:ZDB-GENE-030131-3406]
Coordinates
chr9:22989183-22989468:+
Coord C1 exon
chr9:22989183-22989305
Coord A exon
chr9:22989306-22989378
Coord C2 exon
chr9:22989379-22989468
Length
73 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAAT
5' ss Score
8.88
3' ss Seq
AATATCTTCTTTTGTTGCAGTAT
3' ss Score
8
Exon sequences
Seq C1 exon
TCACGTCGAGTGTCTTTTGCAACTCCAATTTACCAGCAAGAACTGGCTGATGACATTGATCGTCGTAGTCCGGTTATTCGCACAAGTTCACCTAGGTCAAAAGTCTTGAGTGGACAGTCAAAG
Seq A exon
GTAAATTGAGCTTTGAAATTGTTACGTCCGGATCTAAGTGTTTTCTGTTATTAAATATCTTCTTTTGTTGCAG
Seq C2 exon
TATATCACTACACCAACAAAAGGTGGCTATACAAGTCTGAGTCCACGTAACCTCCGTAGCCCTGGATCCAAAAGCTCTAAAAAATGTCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000062650:ENSDART00000143972:31
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.805 A=NA C2=0.933
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACGTCGAGTGTCTTTTGCAACT
R:
CGGAGGTTACGTGGACTCAGA
Band lengths:
177-250
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]