RnoINT0127087 @ rn6
Intron Retention
Gene
ENSRNOG00000054901 | Rif1
Description
replication timing regulatory factor 1 [Source:RGD Symbol;Acc:1562474]
Coordinates
chr3:37642160-37642659:+
Coord C1 exon
chr3:37642160-37642306
Coord A exon
chr3:37642307-37642581
Coord C2 exon
chr3:37642582-37642659
Length
275 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAGC
5' ss Score
10.22
3' ss Seq
TTTTCTCCACTTCTATCCAGCAT
3' ss Score
5.95
Exon sequences
Seq C1 exon
GTTAGACGTGTCTCATTTGCAGATCCAATATACCAAGCAGGATTGGCAGATGACATTGATAGGCGCTGCTCTGTTGTTAGGTCTCATTCTTCAAATAGCTCTCCTGTAATAAAAAGTGTTAAAACTTCACCTACTTCACACTCTAAG
Seq A exon
GTAAGCTATAGTCTTCAAAATATGCATATGTCTTTATATATAAACTTGTATTTGAAGATAAGAAACAGTCTGCTTTGGATAGATTGCTTTTTATGGAGAAGGTTGAGGCCAGTCAGTCAGCTATATCTCACAGGTAAATTAATAGTTTATCCTATTCTATTTTTATTTCCTAAATTTTTACAAAGGTAATTTTAGTTGTACAATTTAACTTGTAACATTATAGTTGTCTGGGGTTCTGAGTGCCTTTTTTTTTTTTTTTCTCCACTTCTATCCAG
Seq C2 exon
CATAATACCACTTCAGCCAAAGGATTTCTGTCCCCAGGATCACAGAGCTCTAAATTTAAGAGCTCAAAGAAGTGTTTA
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000054901:ENSRNOT00000090575:40
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.367 A=NA C2=0.462
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACGTGTCTCATTTGCAGATCCA
R:
TTCTTTGAGCTCTTAAATTTAGAGCT
Band lengths:
213-488
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]