BtaINT0064423 @ 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
chr3:66976452-66977404:+
Coord C1 exon
chr3:66976452-66976593
Coord A exon
chr3:66976594-66977243
Coord C2 exon
chr3:66977244-66977404
Length
650 bp
Sequences
Splice sites
5' ss Seq
AAGGCAATG
5' ss Score
1.24
3' ss Seq
TTACTGTGTTTTGATTTTAGGGG
3' ss Score
10.08
Exon sequences
Seq C1 exon
GCTGGTAATCCTGGTGGACCTGGACCTGGTGGTCGAGGAAGAGGTAGAGGTCAAGGCAACTGGAACATGGGACCACCTGGTGGACTACAGGAATTTAATTTCATTGTCCCAACTGGGAAAACTGGATTAATAATAGGAAAAG
Seq A exon
GCAATGTATTTAAAACTATTAATGTGTGGTTAATAATTTAATGCTTTATCTGATTTTCTGGATGCTATTTCTGTTGTTGTTGTAGATGAATAGCAGTGATTTTTCTTTGGCTGTATTTTAGTAGGAAAGTGTTCTTATGCTGATATGTAACAGCTAAAGCCTAAATGAAGGGCCTTATATGTATTTAAATCTAGAGTGGGATTTGAATCACATTGGTTTCTAGAGAAGAGGATCAGCAGTTTAATTATTAGTGTAAAAAACTTTTCTTCTCACCTGGAAAATGGTTTGAGTGTTTTTGTTTATTTTGCTGTTTCCTGACACATGTTTTTAAGTTTTTGAATTCTTAAGTCATTGTGTTAGCTTCTCATTGCTTATAAAAGCAATTTCTTTGAACCAAGTGTTGATACGATAATTCATTTTAAGGTTGGGTACAGACATATTAAACTATGTCTTAAAACTTTAAAGTGTATGATTATGATTGATTGTATATTATATAAATTGATTTAAAATGTAGAATAAATGGAAACTCCTAATAGCATATTGGCAGATGGGATACTATTCAAAACTTCCTTAATTATAATCAGTTCCTTTTGAATAGCTCCACTTGTATCCTATGAATCTTTAAAGAAATTACTGTGTTTTGATTTTAG
Seq C2 exon
GGGGTGAAACCATAAAAAGCATAAGCCAACAGTCTGGTGCAAGAATAGAACTTCAGAGAAATCCTCCACCTAATGCAGATCCTAATATGAAGTTATTTACAATTCGTGGCACTCCACAGCAAATAGACTATGCTCGGCAACTCATAGAAGAAAAGATTGGT
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000008926:ENSBTAT00000011751:16
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.875 A=NA C2=1.000
Domain overlap (PFAM):
C1:
PF0001324=KH_1=PU(25.8=35.4)
A:
NA
C2:
PF0001324=KH_1=PD(72.7=88.9)
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:
GCTGGTAATCCTGGTGGACCT
R:
CCAATCTTTTCTTCTATGAGTTGCCG
Band lengths:
302-952
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]