BtaINT0125042 @ bosTau6
Intron Retention
Gene
ENSBTAG00000021020 | RIF1
Description
replication timing regulatory factor 1 [Source:HGNC Symbol;Acc:HGNC:23207]
Coordinates
chr2:44778440-44779573:-
Coord C1 exon
chr2:44779531-44779573
Coord A exon
chr2:44778643-44779530
Coord C2 exon
chr2:44778440-44778642
Length
888 bp
Sequences
Splice sites
5' ss Seq
AAGGTACAA
5' ss Score
6.82
3' ss Seq
GAACTTTTTCTTTTTCCTAGTTA
3' ss Score
7.07
Exon sequences
Seq C1 exon
GCTTGATGAAGTTCCTAAAGTGTATAGTTGTATGAACAACAAG
Seq A exon
GTACAAATAGACATTGTTCATAAAACATACTTTCATGAAGAAAAGTTTTAGAATTTAAATGTCTCCCTTCAATATAATTCTGCTGATTATTTTAAAGGGATATCATTATGCTTTAATTTTAATGAACTTTTGATATGAAATGGGTATAATCCAAGGATCATTCATGATTTAATAATATTGCCTTAAATTCATATAACTCAACTACTCCTGTCTCATTCTTTTATGTGTGAAGGTAATTGGCTCCAAGGTTAGGCAACTATTAATCTCATAATTTATGTGAAAACAAATTTCTTCTGTTAATGTAAAATAAGCTTGAATTCAAGCTGTTCTATCAATAAAGTAAGTTCTTGTCAGCTTATAAAGAGTATTATATATTGAAGGTGATGAGAGCTTTTAAAAAGCCATTTGAGGACTTCCTGGTGGCTCAGTGGTAAAAAATCTGTCTGCCAATGCAGACGACATAGGTTCTGTCCCTTATCTGGGAAGATCCTGCATCCTGCAGAACATACAAGCCTGCATGCCACAGCTACTGAGCCAGTGCTCTAGAGCCCTGGAGCTCAATTACTGAGCCTACGTGCTGCAGCAGCTGAAGCCTGTGTGCCCTAGAGCTCATGCTCCACAACAGAAGTCACCCCAATGAGAAACCCAAGCATCACAACTAGAGAGTAGCCCCCACCCATTCTGTGCAGCTAGAGAAAAGCCTGTGCAGCAACAAAGACGAAGCACAGCCAAAAATAAATCAATAAAAATTGTTTTAAAGTCATTTGAGTTTTAAAAATTGAAATAACGTACTCTGTGAGTTGTTTAGTATGCTTTGTGCTTTTGTTTTTTCTCTCTGAAAAGTAACATTTCTAAGTGTTACCCTAATGAACTTTTTCTTTTTCCTAG
Seq C2 exon
TTAGAAAAGCTACTAGGAGATATAATTGCTTGTCTACATGTCAGCTACACTGGAACTTACGACAGTGAACTTCTTGAACAGATCTCACCATTATTATGCATAATATTTTCACACAAGAACAAACAGATAAGAAAACAAAGTGCTCAGTTCTGGAATGCCACATTTGCTAAAGTGACGATGTTGATTTATCCTGAGGAGTTAAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000021020:ENSBTAT00000027997:23
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
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCTTGATGAAGTTCCTAAAGTGT
R:
CCTCAGGATAAATCAACATCGTCACT
Band lengths:
239-1127
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]