BtaINT0064436 @ 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
chr11:100937672-100938902:+
Coord C1 exon
chr11:100937672-100937774
Coord A exon
chr11:100937775-100938801
Coord C2 exon
chr11:100938802-100938902
Length
1027 bp
Sequences
Splice sites
5' ss Seq
CAGGTTGGT
5' ss Score
8.08
3' ss Seq
TCTCCCATCTTGTTCCACAGATG
3' ss Score
11.66
Exon sequences
Seq C1 exon
GTGTCTGTGCCTAGGTTTGCTGTCGGGATTGTAATAGGAAGAAACGGGGAAATGATCAAAAAGATCCAGAACGATGCCGGTGTGAGAATTCAGTTCAAACCAG
Seq A exon
GTTGGTTTTGATGATTCTCGAAATCTTCAGCATTATGAAGTAGAGAACACCTCACAGAACAAGGACTTTGTTTTGTTAGCCCGCTGTGTGTTCTTTGCTCTCTCTCTCACCTTTTCTCTCGTTAGCAACGTTCTGTTACCAGATTTCCAATCCAGTTTCTCCTCCGGCCCTCATTTCTTTCTGTGGATTTGCTGGCAGGGTCACCCTTCATGTACCAGAACACGCTAGCCCAGGAGTGTCCAGGCCTTTTTCTTTTTTTCTTTAGACCAGTAAAAGTTAAGGGAGTGGGGTTCAACATTAGCATTTCCAGCTTTTAATTTGCCAATTAAAGATTTAAAAGCAAACACCTTATTTTTTATTTCATAACATTAAAGATAAAACCATTTAAAAAAAAATCTTGGCCTTCCCTGGTGGTCTAGTGGTTAAGGCTCTGTGCAGGGGGTCCCAGGTTCTATCCCTGGTCAGGGAACTAAGATCACACAAAGCCCCGTGGCATGGCCAAAAAAAAAAATCTTAAGGACAGTTCTTTAAGTGTTACAAATTTACTTTTATGAGCAAAGTTATCTACAGTGTCTTTATTTTCCTCATCGCATGAGGAAAATCTTTGGAAAATATTGCCATAGCTCAAGTCTATTTTCAAGTTTAGTTTCTGTAACTTTTTTTTTTTAACATTTATTTATCTGGCTGTGCTGTGTCTTAGTTGTGGCATATGAGATCCAGTTCCCTGACCGGGGATCCAGCCTGGGCCCTCCGCACTGGGAGCATGGAGCCCTAACCACTGGACCACCAGGGAAGTTCTATGATGCCCCTTTTAAATGGCTGTAATTGCGTAATGAGGTTTGACAGAGACCGTGCAGAAAGACGTAGCTGTACATGTTTCCCTACCTAAAACGTGTCCTAAATGTAGAGGTGTGTTCTTATCATCCCTTCAGTGGTGGTAGGAACACTGACTGCAAATCAGATTGATGTTTGTTTCCTTCTGAAGCAGGGCTTTTCCTAATCCCATCTCTCCCATCTTGTTCCACAG
Seq C2 exon
ATGACGGTATTAGTCCGGAGAGAGCTGCACAGGTGATGGGACCCCCGGATCGATGCCAGCATGCAGCACATGTCATCAGCGAGCTTATTCTTACAGCACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000013072:ENSBTAT00000017383:10
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=0.529
Domain overlap (PFAM):
C1:
PF0001324=KH_1=FE(54.0=100)
A:
NA
C2:
PF0001324=KH_1=PD(39.7=73.5)
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:
GTCTGTGCCTAGGTTTGCTGT
R:
TGTGCTGTAAGAATAAGCTCGCT
Band lengths:
201-1228
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development