BtaINT0064428 @ 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
chr3:66984062-66986173:+
Coord C1 exon
chr3:66984062-66984190
Coord A exon
chr3:66984191-66986095
Coord C2 exon
chr3:66986096-66986173
Length
1905 bp
Sequences
Splice sites
5' ss Seq
AAGGTAACT
5' ss Score
9.01
3' ss Seq
TTTTTTTGTTTTTCTTGAATAAG
3' ss Score
-2.22
Exon sequences
Seq C1 exon
CTAAAACAGGAACGGATCCAAATTCAGCAGCTTGGGCTGCTTATTATGCTCACTATTACCAGCAACAAGCACAGCCACCACCTGCAGCTCCTGCTGGTGCACCAACTACAACCCAAACCAATGGACAAG
Seq A exon
GTAACTATGGTAACTAAAGAATTTATTTTTTATATAGAAGTGAAAACTTGTGTTTGGAAATATATATGAAGTACATCAGTGTATAATACCCCCATATTTATAATACTTAGTTAATAATAGCTTAAGTAGCCTTCAGTTTTTAAAAACAAGTTACTTTGAGTTAACTGTTAAACCAATAAAAGTTGTAAGATACATTACCAAGAATACCCAGATAATCTAGCTGTTAAATGTGTATCTCCCCCATCTGTTCCATTACCCTATCTTATGTGTCCATATCTGTTGTCATTAGTCTTTTTCAGAATCATTAAGACCAAAGTGTAGACTTAATGGCCCATTACTCTTAAGTACTCCTTTCTGTGTTTCTCAAAAAATATATATAACCATCACACAGCATTCAAAATCAGTTAATCAACACTGATTGTTTTTACTATCCCAAGGCATAGCCCTTACCCCATTTTACCAGTTGTTCCAACAATTTCTCACCAGTCAAAAATAATTCCTGTCTTTTTCTTTCAAAAGAGTACAGACCTTTTGTGAGATGCTTATGGGTCAACCATAGGTCCCTTCAACCTTTTCTCATGAAGATGAGGTCATGATCAAGGTTCCTGCTTACATACAATATGGCAAGAATACTGCAAAAAAATGAATGAGGTCTGCCAAGGTTCTATAAAAACACCATTTTTCTCTTTGAAATTAATACTGTCTGCAGAGTTACAGCAGCAGCAGGAAAGTTATACAGTGATTATACCACTGTTCTATTCTCTTTTTGGCAGGACAAGTGGGATAATTTTATTGTTTCCTTAAAGACACAGTAGAAGTTTTACAGTTCAGTTTGATTAGACGTGATTTATAATTTTAACTTTTTTAAAAAAAATGAGAACAAAAATAAAGAACTAGTACAAATTATAAAACTGCTAGAGCAAAGAGAAATTACCTTTCTGATCAAAACATAACACTACAGCTAAACTTCCTTAGAAAAAAGATTTCTCAGCTGAACTTAGGATTCTGTTCCTCATTGAAGGCCTTAGCCTTCATTGATAGTACCTACCTAATTCAATTACAAATATGATAATTTCTGCTTCCATCATTTTTCTACATTTATTAGGTGGTATTTTACTATAAGAAAGAGGTTTCCTTTTCTTTCTATTTATTTATGTCAGTATGGATTTAATAGGTTTTATTTTAAACTTAGCCAGATTGGCCAGTCAGGAGCACCTTCACGATGGCTCCTGTATTCTTTTGACATGCCTGTCAGTTCTTTCAGCACTTTCCTGCTTTCTTGGACAATAAGATGCTTACTTTGTGTTTTTGGAGCTTCAGCCCTTGAATTAACTGTTTTTCCAAGGAGCCCTAATTTTTTTTAGTAGATAATGATATTTAGAAGCTAAATAGTTGTGTTTGTTGCCACTGAGGTGTTATTGCTACTAGCTCCATTCAGTGTGCAGAGCTAGGAAATGAATTTACATGCATGCATACCTACATATGTATAAAAATACATAAATATCCATATGTGTATATAATTTTTAAACTGTATGTTCATATAACCTGCAATTCTATTCTAAGACTTGAAAGTTTTTTCCTAGCTTTTCTGTTTTCCATGCTTATACATGGTGAAAGACCTGGTATCTTCAGTGTGTTTTCTTATTTGACCAATGAATTTACTTATGCTCACTGTAACTACTATTCTAAATAGATGAAGCATCTTTCTGCCCACTCTGTCTCTTCCCCCAGAATCCTGGGTGGGTCTTTGGCACCAGCAAGGATGCCACTACCACACAGCATTTCCCTCCCCTCATTCCCCATGACAGACTACTCCCAACTCCTCTCACACGTACACAAAAACACCCCAGCGGCCAAAATTGCTTTCTAAAAACCTTAATCATAATTTTTTTGTTTTTCTTGAAT
Seq C2 exon
AAGGAGATCAGCAGAATCCAGCTCCAGCTGGACAGGTTGATTATACCAAGGCTTGGGAAGAGTACTACAAGAAAATGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000008926:ENSBTAT00000011751:20
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.894 A=NA C2=0.864
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF090055=DUF1897=PU(78.6=81.5)
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:
GAACGGATCCAAATTCAGCAGC
R:
CCATTTTCTTGTAGTACTCTTCCCA
Band lengths:
198-2103
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]