BtaINT0064430 @ 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
chr3:66992613-66993523:+
Coord C1 exon
chr3:66992613-66992758
Coord A exon
chr3:66992759-66993131
Coord C2 exon
chr3:66993132-66993523
Length
373 bp
Sequences
Splice sites
5' ss Seq
CAGGTATAA
5' ss Score
7.46
3' ss Seq
TATGTATCTCTTCTGCACAGGGC
3' ss Score
8.31
Exon sequences
Seq C1 exon
GTCAAGCAGTTCCTGCTCCTACTGGTGCTCCACCAGGTGGTCAGCCAGATTATAGTGCAGCCTGGGCTGAGTACTATAGACAACAAGCAGCCTACTATGCCCAGACAAGTCCCCAGGGAATGCCACAGCATCCTCCAGCACCTCAG
Seq A exon
GTATAATAAATTTGCTAATGTGCTGATTTCAACTTCAGTCATGTTCTATGCATGTTTACTTTTGTCTGGGATTCTGTTTGCCTTGTAAATTTTTATCTGGCAAAACTATAAATGAAGTACTGTGGTATATTGTTTTGGGTTTTTTGTTTGTTTTTTTATAATGCTTCCTGGCATCTGAGTGCTGAATATTTCTATAATGCCTTTGATTTTAAAAATAAACTTTTTTCCCCCAGGGATTTGCAAATCATGCAAGAAGCCACCACCATTTATATTAACCAGTTTTTCTTTCTTAGAGGATTCACTCCTGAGTTAGCTCCATTTAAAGGATTTTCTTTAACTTTTTGTGTATTTCTTATGTATCTCTTCTGCACAG
Seq C2 exon
GGCCAATAATAAGAAGTGGACAATACAGTATTTGCTTCATTGTGTGGGGGAAAAAAACCTTTGTTAAATATATGGATGCAGACGGCTTGATGAAGATCTTAATTTTGTTTTTGGTTTAAATAGTGTTTTTCCTTTCTTTCTTTCTTCCTTTCTTTTTTCTTTTTTTTGAAAATGTACAAAATATCTATCACTACTGATAGGAGGTTAATATTTCTGTGTAGAAATGAAAATTGGTTTGTTTTTAGTATTTAGTGTAGATGTACACATTCCAGCAAATGTATTTGCAACTATTATGTGGTTAATGCTTTGTGATATAAATGTACTTTTTTCAATGTATACTTTCACTTTTAAAATGCCTGTTTTGTGCTTTACAATAAATGATATGAAACCTC
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000008926:ENSBTAT00000011751:22
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.796 A=NA C2=1.000
Domain overlap (PFAM):
C1:
PF090055=DUF1897=PD(17.9=10.2),PF090055=DUF1897=WD(100=67.3)
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:
CAAGCAGCCTACTATGCCCAG
R:
ACATTTGCTGGAATGTGTACATCT
Band lengths:
342-715
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]