BtaINT0064444 @ 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
chr11:100950411-100952801:+
Coord C1 exon
chr11:100950411-100950538
Coord A exon
chr11:100950539-100951435
Coord C2 exon
chr11:100951436-100952801
Length
897 bp
Sequences
Splice sites
5' ss Seq
CAGGTCTGT
5' ss Score
6.84
3' ss Seq
TGTCCCCCTTCCTTCCACAGGAG
3' ss Score
13.43
Exon sequences
Seq C1 exon
GTCACGCCGCCAGCGCCGCGCCCCAGGCCAGCACCCCACCGGACTACACCATGGCCTGGGCGGAGTACTACCGGCAGCAGGTCGCCTTCTACGGGCAGACGTTAGGGCAGGCGCAGGCCCCTAGCCAG
Seq A exon
GTCTGTAGCCAATCGCCCGCGACGCCGGGACCACCCAGGCCTCCACTCCCCCACCCCAAGCCTTCTGTGTGTGCCTGACCTCGGGCCCCAGTGGTACAGAGCCACCACCCTGGCCCCCTCCTCGCCCCTGCTGGAACAAATTGGAGCCTCTTAGGGAAAGAATAGGTTAGGCAGACTGCCGGGCTGAGCGGCCTCGGTGTCTTCCTCTGGACCCAGGCTCCCAGTTGTAAGTGAGCCTGCCAGGCTGAGCCGGCCCTGGGCAGGCATGGCACTGCCCCTGGGGACTGGTGGCCACTGCCCAGTGCTGTTCTTGAAGAGGGTGGGGTGGCCAGGCTGTCACTTTTGTCCCCAGTCAGCAGTGAGGGGCAGCAGGCGGAGAGCAAGTCCCCCCCTTCCAAGGCTGGAAACCAGAGGGCTCTGTCCAGAAAGTTTTCTTCCAAATGTGGGGAAGACGGGGGACCAAGTACTCCTGCAAGCCGCATTCTAGGTGACCTGATGCCAGTCAGGTCCCTGTGCACAGTCCCTTGGTGACCACAGGCCCTGAACCCCCAGACCAGTCTGTCATCTCACTGGGAAACTGGGCCCTGTGGGGACAGGAGTTGAGGGGGGGAGGCGGTAGGTGACCAAGGAGAAGTGTCACTCACTCCCCTCTCCCCGCCCAGGATCCCCTGTGGAAGGAGGCGCCCAAGGCCTCATGTGTGAGAGCTTGTCTGGGCCAGATCCCGGGTGCGAGGGCAAGAAGGCGCTGAGACATTGGCGCTCACACACGTGTGTGTGTGTGCACGCCCAAGCACGCGTGTGCCAGTGCCCATTACCTCTCTGCAGACAGAGCCCCAGACGGCACATCAGCACCTGAGACTGTGCCCTCAGACTAACCTGTCCCCCTTCCTTCCACAG
Seq C2 exon
GAGCAGTAGGACCCGCGGCTCCCCTCCCTCAAAAGCATTGTGAGCAAAGACCTGTTTGTAACAGAGGTTTTTGGATTTGCAAACCCTTTGATGAAGAACCTTTGTTTTGTTCTGTGAAACACTATATTTAGATTAACAGAATTTTTCTAAAAATCAGGAGAATTAGTTACTAAAAATTGCTGACAATTTTTGTTTCATTATCGTTGTTCGTTACTTCAAATGCGTAAGCTCTGGGAATCTTTTTGGAGCAATACCTGCAGATTCTGGTACCAGAATGTGCCTCAGAGCGGTGACATTTCAACGTGGTGTGTTCTGGTTTTGTTTTGTTTTGTTCGTGTGTCTCTTTATTTACAGTTTTTTCTGTTGCAACAGAAAAAAGTGGCTTGGAAGTCTTAGGTGGTTTGTAACAAATTCTTTAAAAAAATTTTTAAACAGTATTTAAATATTCTTAAATGTGTAAATTCATTAAATGTTTTACTTCTAATTTCTTGTATCTTGGCTGTCTGGTTTTATTGCATTTTTTAAAAAACTGAACTATTATGTATTGTAATTAATTATGTGAATTCTGAATTGAGACAGATAATTGTATTGCTGTCCAACAGGGATCGGGAGGGGGCATTTTTTAGGGTTTGTATAATTTCTAGAGTTCTAAGGGGGTTAATAATATAAAAATGTTTTTGTGTGTTTAGCAGATGTTTTTTCATGTCTCCATTATCTACCGGTTGCAATTGTGTATCTAAGACCTCCAAGCTTGTTTTAAAAACAAAACAAAAAAACCTTTCTCTATTCTCTCAGAAATATAAATACTGTTATTTTTAATATTAAAAATAAATTCAATATAACTTTTAACAAACACTGTGGAACATTAAACCGCATAAAAATGTAGTAACTATTTTTTAATTCCAAGGTGTTTTTTGCTTTTTTCTTTTAAATATTTTCTTAATATTTGTCAAATTAACTAGATGAATAAATAAATCTAGCATTAACCGCAATATGAATTAAATAATTTTGATTTAATAAAAGGGATAATATGGTTTCCAATGTTTACTGTAGTGTATCTTGTACAGGTAACATGTATTTTTAAAGGAAAGAAAAACGGAATTGAAGCTATTTTTTTTTTCTTGCATTTTTCAATTGACCTGGGGGACATTCCGTTTGAGATGTACTGAAGTTACAGTGTCTGGGAGGTATTCTCCTTTTTTTCCTTATAATGCTTGAAATGTCTAACTATTAAAAAAGGCAATTGGAAAATGTTATGCATGTTGTTTTTTTTAAAAAAAAAAAAGACGTGTTCTTTTTATTTGACTGACAATTCATTTTACACTCTACATAATAAAATTTCCACAAGACATCTTGTGGGCAAAGT
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000013072:ENSBTAT00000017383:18
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.581 A=NA C2=1.000
Domain overlap (PFAM):
C1:
PF090055=DUF1897=PD(34.3=27.9),PF090055=DUF1897=WD(100=74.4)
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:
TTCTACGGGCAGACGTTAGGG
R:
ACGTTGAAATGTCACCGCTCT
Band lengths:
346-1243
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development