BtaINT0064452 @ 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
chr11:100936566-100937774:+
Coord C1 exon
chr11:100936566-100936670
Coord A exon
chr11:100936671-100937671
Coord C2 exon
chr11:100937672-100937774
Length
1001 bp
Sequences
Splice sites
5' ss Seq
GAGGTATGC
5' ss Score
9.12
3' ss Seq
TTTTGTTTCTCTGTGCTCAGGTG
3' ss Score
10.57
Exon sequences
Seq C1 exon
CAAGCGAGAGAAATGGTCTTAGAAATCATCCGAGAGAAAGACCAAGCTGACTTTCGAGGTGTGCGCGGTGATTTCAGCTCTCGAATGGGAGGAGGCAGTATAGAG
Seq A exon
GTATGCTTGAGTTACAGGTTAGTAGGCAAGCTTAAGGTTGAAGGTCATGTTCTATTAGCATTCAACCTTGAGCAAGTTATTTAACGCCTATCTCATCTGCAAAACCCGACAAGTATGCTTGCTTCCCTGGGGGTGTATGGAACGAGTGTCAGGTGTAGTGAGGGATGCCAGCTGCGTGCATTTCAGGGACTGGGGTCTTTCCCCCTGGCTTGGGGTTGTGCTTCAAAGCTTACCCCACTGCCCAGATAAAGACCAAAGTCCAGGTTTTCGCGGTGACCTGTGTTGTGATGGTATCTAACCGCTAAACCTATTTTGCTGATGAGGTGGAATGGGATTGTAATATATCCTTGATGTTGCTACAGCATGAGTGGATCTTGCAAACATGATGCTTGATAAACTCAGCCCAAATGCAGAAGGTCAGATATCATATGGTTCCACCTACATGAAGCGTTAGACTAGGCAGAGAGACAGAAAATAGAATAGAGGTTACCAGGGCAGTGTGGTTTCACAGATACTGACTGCTTATTGGGGTGATGAAAAGGCTTGGGGCATAGGCGTCGGACACTGTGATGGGGTTTAGTGCCATTGAAACGCCGCGTTTACATCGGTTAAGGTGATAAGCACTGTGTTACGTGTGTTACCACAAAAGAGTGAAGGACCATGTACCAATGTGTGTGGTGCATTTATGCTTATTTCATAGAATTTGGAAGATAAAGTTTTAATCTTAAATATTTTTTAAACTCTTTATCAGGTTTATTCTTGCTTTACTTCATTTTTGTAACTATTTTTGATCAAGTCTCATACCTGCTAGATGCATTTAATGGACAGGAATACAGTCATCAACCACAACATTTTTCCTAAGAGGAAAAAAAATATGCTTTATGTATCATTTCCAGGAATATGTTGTAATAAAAATGGTATGCATACACACTTACACCAGACTTGCAGAAAAGACAGGTTTGCAGGGAAATGCTGATGAGGTTTTGTTTCTCTGTGCTCAG
Seq C2 exon
GTGTCTGTGCCTAGGTTTGCTGTCGGGATTGTAATAGGAAGAAACGGGGAAATGATCAAAAAGATCCAGAACGATGCCGGTGTGAGAATTCAGTTCAAACCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000013072:ENSBTAT00000017383:9
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.171 A=NA C2=0.171
Domain overlap (PFAM):
C1:
PF0001324=KH_1=PD(7.7=14.3),PF0001324=KH_1=PU(3.2=5.7)
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:
CAAGCGAGAGAAATGGTCTTAGA
R:
GGTTTGAACTGAATTCTCACACCG
Band lengths:
206-1207
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development