RnoINT0127071 @ rn6
Intron Retention
Gene
ENSRNOG00000054901 | Rif1
Description
replication timing regulatory factor 1 [Source:RGD Symbol;Acc:1562474]
Coordinates
chr3:37600857-37602999:+
Coord C1 exon
chr3:37600857-37600935
Coord A exon
chr3:37600936-37602902
Coord C2 exon
chr3:37602903-37602999
Length
1967 bp
Sequences
Splice sites
5' ss Seq
AAGGTCAGT
5' ss Score
8.68
3' ss Seq
CATGTGATTTTGTTTTGTAGGCT
3' ss Score
9.68
Exon sequences
Seq C1 exon
TCGTATGACAGGAGAAGAAGGAAAAGAAGTTATTGCAGAAATCGAGAAAAACCTTCCTCGGTTGTACACGGTTTTAAAG
Seq A exon
GTCAGTTTCTTAATGACACCATACTGCCTCAGTCTGAGCCCTTTGAAATCTTTTCCTTAGTTTTCCAAATCTGGGCTTCCAGGGGCAACTCTAATGAGCTTTCTAATAAAATGGTTTTTCGCTGTGGATATAGCATTACGCAGTGCATTATTAATGCCCTGAAGACAAAATAGCATCAGTTATATTGATGGAACTATTACCTCATTTCTGATTACATATGGTTCTTCAGATGATTAGTTACCTTATATGTGTCTCTCACTTCAGTTCATGTCTGAACCACTAAGCTACATCTACAGTCTGCTCTTTAAAGCTCCACTTTGCAGGTTAGGAAATTGGTTAATTTGCCTGAAGTGTCCAGGGTTGTCAGTTCAAAGCTTGTCTTTTATATAAAAACAGTTGTCTGGAATATAAAATCTGTTTATTTTGGAGCTGAGTATTTATTTTATTTATATATGTACACTGTAGCTGTCTTCAGACACCAGAAGAGGGCATCAGATCTCATTACAGATGGTTGTGAGCCACCATGTGGTTGCTGGGATTTGAAGGGAAGAAGCTCAGGACCTTGGGAAGAGCAGTCGGTGCTCTTAACCACTGAGCCATCTCTCCAGCCCCCAAATCTGTTTATTTTGAAAGTATAGTTCTGGGTAAGTTGTCCTAAAATGGCAACTGTCTTTGATCTGCTCTTTATATAGACAGTATTCATACACATCCTTTTTTTGGGGGGAGGGGGGTGATTTTTCCCTTGGTTCCCTGGGAACCAAGTAGCTTAGCTAGGTGACAATCCTGCGTCTGCTTTCCAAGTATTGGGATTATAGGCTGGCACTGGCATACCCCACAATACATGTTATTTATTTCTATTTACATTAATTTTTTGCTAATTTTGCTTGTTTGGAAATTGTTAACACTTTAGAAAATTATAGTTAACTTGTTTTCCTTGTTTAATGATAATAAATAGTTAATATCAGACTGAGTGTATTCTTAACCTCATCTGACCACTTAGTGAGATCATAATCTGCCATCAACACTTTTTAATCTTGTTTTTAGAATGAAAAGATTGAACTGAATATCCCGACCTTATTGAAATTCTTACTATCTTTTTTGACAGGGTCTCTAGTCCAGGCTTGCCTTGGACTTCCTAGATAGCTGAGGATGACCTTGAACTTCTGATCCTCCTGCCTCCCAAGTGCTGGGATCACAGGCATGTGCCACCACTTTGCATTTATGCAGTGCTGGAGATTGAACCCAGGGCTTCATGCATGCTAGGCAAGCACTGTACCCACCAAAGTACATCCCCAGTCCCAAATTTCTTAAGCATTTTTTAAGACAGAGAAAAAGTGCCTAATACATAGTACCCTTGAGAATTGCTGCATTGCAGCGGCTGCTTCCCTTTCCTAGTCTTAGAGGAAGAAGGCAGCACTCCCTTCTAAAGCTAGCGTCAGTTTTGCTTTTGAGACTTCACTTATTCCTTGTGGAAGAGCCATGTTGCCTGTTTTCTGTCTAATAATTTTAGCATTTTTCATCTGTTGGCCTTTTCTTTGTTTTTGCATGGATATGGGAGATGTTATTTTGTCTTTTCTTAAAAATGTTCTTCGAGTTGATTTTTTTTTTTGTTTTGTTTATTTTTTATGTGTGTGGGTATTAACCAGCATGTATGTATGTATGTATGTGTACCACGTGTGCAGTGACCACAGAACAGAAGAGGGTGTCAGATGGTAGAGATTGGAGTTGTGTTGTGAGCCACCGTGTGTGTGCGCACTGGGAACCAAATGTAGATGTTCTGCTCTCTCCAGTCCCTTTAGTTCGTTCTTTTTCTAGTTCTCCTCCTTTGCCAGGCTTCCCTATCTTTTTTTCACCACTCCCAAAAGGTTGGTTGATTGATTGGATTAAAATGCAATGAATTTGGGTTGCAGCTGGTTTTAACTCTAGAAACTCTGTTTCTTTGCTGTCCATGTGATTTTGTTTTGTAG
Seq C2 exon
GCTCACATTTGCAGTCAGAGCTCAGAACTGAGTAGTGCTGCTCTACAAGCCTTGGGATTTTGTTTATATAATCCCAGAATTACCTCAGGATTATCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000054901:ENSRNOT00000090575:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.259 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF122313=Rif1_N=FE(7.1=100)
A:
NA
C2:
PF122313=Rif1_N=FE(8.8=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:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]