BtaINT0128788 @ bosTau6
Intron Retention
Gene
ENSBTAG00000043981 | SBF2
Description
Bos taurus SET binding factor 2 (SBF2), mRNA. [Source:RefSeq mRNA;Acc:NM_001103237]
Coordinates
chr15:43253744-43254516:+
Coord C1 exon
chr15:43253744-43253857
Coord A exon
chr15:43253858-43254387
Coord C2 exon
chr15:43254388-43254516
Length
530 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAGA
5' ss Score
10.57
3' ss Seq
CACCTTGTTTTTCTTTACAGACA
3' ss Score
10.54
Exon sequences
Seq C1 exon
GATAAGGAAGTGCGTGCAGTTTTTCTTAGATTATTTGCACAACTTTTCCAAGGATATAGATCATGCTTACAGCTTATAAGAATTCACGCAGAACCAGTAATACATTTTCACAAG
Seq A exon
GTAAGATCTAATACCATACTGTATCTGTCCAAAATGTAAACTCTAATTTAATTAAAAGAACTTGGCAGTCTTTTTCTAGCCATGTATTTTGAGTTTAATCTATCACATTTGTTTATTTAATATCTCTGCTTTGTGTGGCTAGTTGATAATTTTTTTCTTTTTTAATTATTTTTCTTGGAATGTAGTTGATTTACAGTGTTGTGTTGGTGTCAGGTGTCTGATAATTTTTAATAATACTGTGGAACTGATATATTTTCCTTTAGAATATGTTAACTTTAAATTGATTTTTTTTTAAATTGAGGTTATTTCTGATTTCCACTCCTGCTTTACAGACAGGTTCATTTTTATTCAATACATGTAGTATTTCAGGTATCAAAGCCCTTCTAGAGAGAAATTTATTTTATGACAGCATACTTATGCATGAAGACGTTTATTCAGGCTTTGATCTTTCAAGTATGTTTCTGTTTTGACCATTCATTCATCCATTGCTAAGTGATAAGTTATTCATTTCACCTTGTTTTTCTTTACAG
Seq C2 exon
ACAGCTTTCTTGGGACAGCGTGGTCTAGTTGAGAATGATTTCCTCACTAAAGTTCTCAATGGAATGGCATTTGCAGGTTTTGTTTCAGAAAGAGGTCCTCCCTATAGATCCTGTGATCTCTTTGATGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000043981:ENSBTAT00000039913:11
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=FE(52.9=100)
A:
NA
C2:
PF0345514=dDENN=PD(42.9=69.8)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GATAAGGAAGTGCGTGCAGTT
R:
TCACAGGATCTATAGGGAGGACC
Band lengths:
230-760
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development