DreINT0127011 @ danRer10
Intron Retention
Gene
ENSDARG00000062650 | rif1
Description
replication timing regulatory factor 1 [Source:ZFIN;Acc:ZDB-GENE-030131-3406]
Coordinates
chr9:22980768-22981010:+
Coord C1 exon
chr9:22980768-22980854
Coord A exon
chr9:22980855-22980936
Coord C2 exon
chr9:22980937-22981010
Length
82 bp
Sequences
Splice sites
5' ss Seq
AACGTAAGT
5' ss Score
10.74
3' ss Seq
AAATCCCACATCCTTTCCAGGGT
3' ss Score
6.13
Exon sequences
Seq C1 exon
CTTCTGTTGGAAGCCACTGTAAAGGGAATACCTCAGAAGGTGCTTGGTTCTGCAGCTTATCAAGTGGCAAACATGGACGTGTTAAAC
Seq A exon
GTAAGTATCTTTTGTCATTTTATCTCCATTTAAATTCATGCTCGTATTTTGAATGTACAAATAAATCCCACATCCTTTCCAG
Seq C2 exon
GGTACTCCTGCACTTTTCCTAATACTGCTGTTCTATAAAAGTAACCAGCTCTCATCATTTCTTGAAGACGAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000062650:ENSDART00000143972:16
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
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:
CTTCTGTTGGAAGCCACTGTA
R:
TTCGTCTTCAAGAAATGATGAGAGCT
Band lengths:
159-241
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]