BtaINT0128787 @ bosTau6
Intron Retention
Gene
ENSBTAG00000043981 | SBF2
Description
Bos taurus SET binding factor 2 (SBF2), mRNA. [Source:RefSeq mRNA;Acc:NM_001103237]
Coordinates
chr15:43252550-43253857:+
Coord C1 exon
chr15:43252550-43252627
Coord A exon
chr15:43252628-43253743
Coord C2 exon
chr15:43253744-43253857
Length
1116 bp
Sequences
Splice sites
5' ss Seq
CTGGTAAGA
5' ss Score
9.45
3' ss Seq
GTTTCTTCTTATATTTTCAGGAT
3' ss Score
10.34
Exon sequences
Seq C1 exon
ATTCTACACCCAGATTTGGAAGTAGCAGATCATGCTTTTCCCCCTCCACGAACAGCTTTATCCCACTCAAAAATGCTG
Seq A exon
GTAAGAAGTTTAATATTTAAGATTGATGTTTTTAAAAAGAGTTTCTTTTCTTTGTATATTTTTCAAAGAAGCTGAGTATAGTGAGAGTTAGATGGACAGCCTAGTAAATGTGTGCCAAATTAGAAATTAGGAGAATTGCCACTGATTGACCTTGTGACCTCCTGAAGGGGAAGCCACAGGCAGTACATTGATTGGGAGAGGAGTAGGCTAAGACTGTTTCTCTGAGGAGGCATGACTAAGTATGGGACAAAAAAATCAGAACTTAGATTAGAGCCTGAAAAGTTGTGCCAAGCATCAAATCGAAAGGGTCAGGCAAGGATAAATAAGAGAAGCTTATAAAAAATGGAAACAGAGGTCGTTGGTCACAGGAGAAAATCAAGTTTGAGTGAGTGGATAAATGTAGCTCCAATTGAAAGTCATAAAAGAGTGACTATACAGCAGAGACCCCTTTTTTATTTTGATCAGTGCATTTCTTAGTGATGAACTTTGCGGCCAGTATGGAAAGTTATAGAACTGCATACCTTTGATGAGTTATGAAGCATTTTCAACTATTTCTTCATCTATTAAATAAGGGATTGACTAAATCTGAGAGTTTCCTTAGAGTTCTAAAACTATGATTTTTTTAAAATCTGAATTATCAAAACAGACTTTTAAGTTATATTTTATATTAATGTAAGAATAGATTTTTAGAACTAGTATAAACTTTGGAATAATATCATAAGCTTTTAAAATAGTCTTGAGTTTTTTCTTTTGTATTGTAACAGTAATTCTTTTGATGGAGATAAAAATCAAATGTCTTGGGAAATATGCCCTTCTCTAACATGGTGAAAGCAGAGCCTCTCTGATTTATGTTTTTTTCTGAGAGGAAAATTGGATGTACTAGAGGAAAGTTTTACTAGGTTCAGTTTTTAAAGGAACTATTTAACGGCCTACACTGTCCAACCGTGGCACAGACTAGATGCCCACTACTTAGTTCTGCTACAAATGAGACTTCTGCATAGGAAGCACAGATTTATTAAATAATCTCTTAGGTTCTTTACAACTTTCTAATTTGTGATTTTTCTTTTCTTTTTTAAGAAATTCAGTTATCTAACATGTTTCTTCTTATATTTTCAG
Seq C2 exon
GATAAGGAAGTGCGTGCAGTTTTTCTTAGATTATTTGCACAACTTTTCCAAGGATATAGATCATGCTTACAGCTTATAAGAATTCACGCAGAACCAGTAATACATTTTCACAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000043981:ENSBTAT00000039913:10
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0345514=dDENN=PU(0.1=0.0)
A:
NA
C2:
PF0345514=dDENN=FE(52.9=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CAGATTTGGAAGTAGCAGATCATG
R:
CTTGTGAAAATGTATTACTGGTTCTG
Band lengths:
182-1298
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development