BtaINT0125051 @ bosTau6
Intron Retention
Gene
ENSBTAG00000021020 | RIF1
Description
replication timing regulatory factor 1 [Source:HGNC Symbol;Acc:HGNC:23207]
Coordinates
chr2:44768300-44768822:-
Coord C1 exon
chr2:44768676-44768822
Coord A exon
chr2:44768378-44768675
Coord C2 exon
chr2:44768300-44768377
Length
298 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAGC
5' ss Score
10.22
3' ss Seq
TTCTCCTTTCTTCTGTCTAGCAT
3' ss Score
8.24
Exon sequences
Seq C1 exon
GTTCGCCGTGTCTCCTTTGCAGATCCTATATACCAAGCAGGATTGGCAGATGACATTGATAGGCGATGCTCTATTGTTAGGTGCCATTCTTCAAATAGTTCTCTCATGGTAAAAAGTGTTAAAACTTCACCTACTGTGCAATCTAAG
Seq A exon
GTAAGCTGTAGGCTTTAAAAAATACATATGCAAACACAGAATTGCATCGGGTAATTTGTCTTTTTAAGAAACAAAGCATACTTCGTTTGGATATATTTTTCTTTTGTCTGCTTAAAGCAGACATGAAGAGAAGAGGTGGTAAGAAGCATTGATGAGCCAGCCAGTAATTGATCCAGTAGTATTATTATTACATTTTACATTTTCTGAAAATTGTAAGATATGACTACAGTCTGTCAGTTGTAAAAATAAACTTGTAAATCTAGGGTTCTGAGATTTTTTTCTCCTTTCTTCTGTCTAG
Seq C2 exon
CATAATACCACTTCAGCCAAAGGATTTCTGTCCCCAGGATCACGTAGCTCTAAATTTAAGAGCTCAAAGAAGTGTTTA
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000021020:ENSBTAT00000027997:31
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.214 A=NA C2=0.365
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:
TTCGCCGTGTCTCCTTTGC
R:
TGAGCTCTTAAATTTAGAGCTACGTG
Band lengths:
212-510
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]