BtaINT0125033 @ bosTau6
Intron Retention
Gene
ENSBTAG00000021020 | RIF1
Description
replication timing regulatory factor 1 [Source:HGNC Symbol;Acc:HGNC:23207]
Coordinates
chr2:44794560-44796408:-
Coord C1 exon
chr2:44796322-44796408
Coord A exon
chr2:44794634-44796321
Coord C2 exon
chr2:44794560-44794633
Length
1688 bp
Sequences
Splice sites
5' ss Seq
AATGCAAGT
5' ss Score
0.87
3' ss Seq
CATCTCCCATCTTTCTTCAGGGA
3' ss Score
11.36
Exon sequences
Seq C1 exon
GTTCTCATGGAAATTACAATTAAAGGACTTCCTCAGAAAGTATTAGGTTCTCCAGCATATCAGGTTGCTAATATGGATATTCTTAAT
Seq A exon
GCAAGTATCTTAGATGTAATGATATGATTAAATTAGCTAAAAATCCATGTTTTTTTAAGTTAGAGAAACTTAGATTGCAAAATTCGAAAAGAATTGAATTTGAATATACTGATTATACTAAAGGAAAAAAATCATAGACAAAGTATAGGTGTGGCTCAGAAATAATTACAAGTTCAGTTCCAGACCACTGCTAAGAAAGTGAGTATCAGAATAAAGCAAGTCACATGAAATTTTTGGTTACCCAGGGTATGTAAAAGTTATGTTTACACTATATTATAGTCTACTGAGTGTAAGTAAATAGCATTATGGCTTAAAAAAACAATGTACATACCTTAATTTAAAAGTACTTGATGGCTAAAATTGTTGCTTAATCATTTGAGTCTTCAGTGAGTCATAATCTTTTACTGCTTGGGGGTTTCTCCTCTGTATTGATGGCTGCTGACTGATCAGAATGATGGTTGCTGAAGGTTGGGGTGGCCATGGCAATTTCTTAAGACAACAGTGATGTTTTCTGTGATTGATTCTTTCATAAATGATTTATCTGTAGCATATAATGCTGTTGGATAGTGTTTTACCCACAGTAGAACTTCTTTCAGAATTGGAGCTAGTTCTGTCAAATATTGATGCTGCTTTTTCAGTTAAGTTTATCTTGTCATTTCAGCAGTCTTTACAACATCTTCACGAGGAGTAGATTCCGTCTTAAGAAACCATTTTCTTTCCTCATCCATAAGGAGCAATTCCACATCTGTTTACATTTTATCTTAAAATTGCAACAATTCAATCACGTTTTCAGGCTCCACTCCTAATTCTAGTTCTTTGCTATTTCTACCACATCTGTAATTACTTCCCCTGGTCTTGACTTTAAGCATGCCTTCACTATTAAGTTTAATCATTTCTAGCTTTTGGTTGAAAGTGAGATATGTGCAGCTCCTTTCACTTCAATGTTTAGAGGCCACTTGAGCATTGTTAATTAGTCTAAATTTAATATTGTGTCTCAGGGAATGCGGAGGCCAGAGGAGAGGGAAGGAGACAAAATAATAGCTGGTCCATCGAGCAGTCAGGACACATACTAAAAATCGTGGAAATTACCCAAAATGTGACAAAGTAAACAAATACCATTTAGAAAAAGGGTTCCAGTAGACTTGTTTAAAACAGGGTTGCCACAAATCTTCAATATGTAAAATATGCCGTATTTGCAAAGCACAATACAATCAAGTGTGCTTGTGAGGCATTAACTAATGGCATATTGATGGAACTATTTTCCTGGATTAAAGGCTTCTAGAATAAAAGGTTTCTCTTTGCTTTTATGTAAATGTAGTTTTGGTTACTGTTACAAGTTTTGGAAGCTTTGTAACACTGGCTTAGTTATAGTGAAATATATTTAATATCTGCTGGATGGTAGGTATTGTTGATCCAGCAAGTTTTAAGTCAGTGTTTATATCTGGAATCTCTTAATATTCTTCAATTGCTTGACTAGATGGAACAGCTATAATTAAAATAAAGAACTTGATTTTTGTGTGTAGTTTATGGAAGTACATTTGCTATCATTTTTGTTGTATCCTAAGTAGTTTCAAAAGTCCTCAAACTTAAAAGGGTCATATTTCAAATAATTGTAGAAAACAAGTGTAACAAGAAGAGTGTACTGTTGGTAACAAGAAAATTGATTGCCATCTCCCATCTTTCTTCAG
Seq C2 exon
GGAACCCCTGCTTTGTTCTTAATTCAGTTAACTTTCAATAATAATCTATTGGAATGTGGTGTGGAAGACGAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000021020:ENSBTAT00000027997:15
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:
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]