BtaINT0064420 @ bosTau6
Intron Retention
Gene
ENSBTAG00000008926 | FUBP1
Description
Bos taurus far upstream element (FUSE) binding protein 1 (FUBP1), mRNA. [Source:RefSeq mRNA;Acc:NM_001076846]
Coordinates
chr3:66975414-66975869:+
Coord C1 exon
chr3:66975414-66975515
Coord A exon
chr3:66975516-66975766
Coord C2 exon
chr3:66975767-66975869
Length
251 bp
Sequences
Splice sites
5' ss Seq
GATGTAAGT
5' ss Score
9.11
3' ss Seq
CTTAGTTTTCTTTGCATAAGGTC
3' ss Score
3.55
Exon sequences
Seq C1 exon
CAAGCCAAGGAGATGGTGTTAGAGTTAATTCGTGATCAAGGTGGTTTCAGAGAAGTTCGGAATGAGTATGGGTCAAGAATAGGAGGAAATGAAGGAATAGAT
Seq A exon
GTAAGTAAAAATACCAATTCAGAAATGATTGAATGCTAGTCCATAAATAAACTAGGATTTTCCCTGTTTTGTGTTACATAGCCTTCTCTAACATGGTATTGTCCTCCCCACCCCCGCAACTTTTCAACTTAGAATACAGTGTATTTTGTATCTTTTTAACCTCTTCTATATAAATATAGTGCTTCTGTGGTTTGAGGCAGATACATTTTTCAGGAAATGGCTTTCCTGATACTTAGTTTTCTTTGCATAAG
Seq C2 exon
GTCCCCATTCCAAGATTTGCTGTTGGCATTGTAATAGGAAGAAATGGAGAGATGATTAAAAAAATACAAAATGATGCTGGTGTTCGAATTCAGTTTAAGCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000008926:ENSBTAT00000011751:13
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.324 A=NA C2=0.343
Domain overlap (PFAM):
C1:
PF0001324=KH_1=PD(7.8=14.7),PF0001324=KH_1=PU(3.2=5.9)
A:
NA
C2:
PF0001324=KH_1=FE(54.0=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:
CAAGCCAAGGAGATGGTGTTAGA
R:
TGGCTTAAACTGAATTCGAACACC
Band lengths:
204-455
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]