DreINT0127029 @ danRer10
Intron Retention
Gene
ENSDARG00000062650 | rif1
Description
replication timing regulatory factor 1 [Source:ZFIN;Acc:ZDB-GENE-030131-3406]
Coordinates
chr9:22989379-22989730:+
Coord C1 exon
chr9:22989379-22989468
Coord A exon
chr9:22989469-22989614
Coord C2 exon
chr9:22989615-22989730
Length
146 bp
Sequences
Splice sites
5' ss Seq
CTGGTGAGT
5' ss Score
10.1
3' ss Seq
GATGTTCCTCTGTATTGCAGATT
3' ss Score
10.05
Exon sequences
Seq C1 exon
TATATCACTACACCAACAAAAGGTGGCTATACAAGTCTGAGTCCACGTAACCTCCGTAGCCCTGGATCCAAAAGCTCTAAAAAATGTCTG
Seq A exon
GTGAGTACTTTTTTTTTTAGTCATAGATTTGAGACATGAAGACAATGCAGAAAATGTTAAAGTGAATAGTTAAATATTATCCAGTTGCTTTATTTAATCTGTATCTCCAAATGGAAATGGCATTCAGATGTTCCTCTGTATTGCAG
Seq C2 exon
ATTTCAGAGATGAGCCAGGAGCCACGTCCTATTCCTAAAGATTGTGTTTATCCAGCACTTGTTGGCTGCTCTACTCCAGTAGAAGCTGTTCTGCCACAGATTTCCTCCAACATGTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000062650:ENSDART00000143972:32
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.933 A=NA C2=0.256
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:
ACCAACAAAAGGTGGCTATACAAGT
R:
ACATGTTGGAGGAAATCTGTGGC
Band lengths:
194-340
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]