BtaINT0064447 @ bosTau6
Intron Retention
Gene
ENSBTAG00000013072 | FUBP3
Description
Bos taurus far upstream element (FUSE) binding protein 3 (FUBP3), mRNA. [Source:RefSeq mRNA;Acc:NM_001101217]
Coordinates
chr11:100929031-100929487:+
Coord C1 exon
chr11:100929031-100929080
Coord A exon
chr11:100929081-100929415
Coord C2 exon
chr11:100929416-100929487
Length
335 bp
Sequences
Splice sites
5' ss Seq
TTAGTAAGT
5' ss Score
7.79
3' ss Seq
CCCGGTTTCATTTGTTTCAGTTA
3' ss Score
8.23
Exon sequences
Seq C1 exon
GGCAGTAATAACAGAAGAATTCAAAGTGCCTGATAAAATGGTTGGATTTA
Seq A exon
GTAAGTACCCACGTCATTTCCTCTTTCCCTGATTCCTGTCCCTCGTGTTCCCTGTAATCCCCTTCGCGTGTCTGTCACGTGTAGTACAGTGCTTTGCACACTGCTTTCTCCAGAGCCCCGAAGCGGGCTCCACGCGGGGTGCTGGGCCGTGGGCTCCCCACTGACGTCAGCTGGGGTACCTGTCTTGTCTGCTGTGTTTCACGCACAAGTCCTGTGGCTCGCTGGTTTGCTGTGCCACGAGCCGAGTATAAATGTTTGTTGAGTTAATGAAGTCGTCCGTGCAGGGTTAACTGTGGAGTAAGGGGCGCATCCTCACCCGGTTTCATTTGTTTCAG
Seq C2 exon
TTATCGGCCGGGGAGGTGAGCAGATCTCGCGGATTCAAGCAGAATCTGGTTGCAAAATTCAGATTGCGTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000013072:ENSBTAT00000017383:4
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=0.040
Domain overlap (PFAM):
C1:
PF0001324=KH_1=PU(20.6=72.2)
A:
NA
C2:
PF0001324=KH_1=FE(38.1=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]
SPECIAL DATASETS
- Pre-implantation embryo development