RnoINT0127086 @ rn6
Intron Retention
Gene
ENSRNOG00000054901 | Rif1
Description
replication timing regulatory factor 1 [Source:RGD Symbol;Acc:1562474]
Coordinates
chr3:37603735-37604041:+
Coord C1 exon
chr3:37603735-37603862
Coord A exon
chr3:37603863-37603946
Coord C2 exon
chr3:37603947-37604041
Length
84 bp
Sequences
Splice sites
5' ss Seq
ATGGTGAGT
5' ss Score
10.13
3' ss Seq
TGTTTGCTTTTGTCATTTAGGTA
3' ss Score
9.53
Exon sequences
Seq C1 exon
AGACAAATATTCAAGAACTGCTATTAACCTTGAATGGTATCATTAAGAGTTCAGACAAAAATGTGTGTACCAGGGCACTGTGGGTAATATCCAAACAGACATTTCCTACTGAACTTGTTAGCAAAATG
Seq A exon
GTGAGTCTAGTTTTGGGACGTCTGAATTATATGTCCAAAAGACAGTTGTGGCTCGTCTGATTTGTGTTTGCTTTTGTCATTTAG
Seq C2 exon
GTATCCAGTATTATTGATTCGTTGGAAGTGATACTAAGTAAAGGAGAGATACATTCTGCTGTTGTTGATTTTGAAGCATTAAATGTTATTATAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000054901:ENSRNOT00000090575:4
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:
PF122313=Rif1_N=FE(11.5=100)
A:
NA
C2:
PF122313=Rif1_N=FE(8.5=100)
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:
AGAACTGCTATTAACCTTGAATGGT
R:
ACAACAGCAGAATGTATCTCTCCT
Band lengths:
180-264
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]