BtaINT0128797 @ bosTau6
Intron Retention
Gene
ENSBTAG00000043981 | SBF2
Description
Bos taurus SET binding factor 2 (SBF2), mRNA. [Source:RefSeq mRNA;Acc:NM_001103237]
Coordinates
chr15:43216036-43218000:+
Coord C1 exon
chr15:43216036-43216146
Coord A exon
chr15:43216147-43217894
Coord C2 exon
chr15:43217895-43218000
Length
1748 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAAC
5' ss Score
7.82
3' ss Seq
CTCTTCCGCCCAATCTGCAGAAG
3' ss Score
6.84
Exon sequences
Seq C1 exon
GCTTGCCTGGGTTTGATCTACACTGTATATGTGGACAGTCTGAATGTCTCCTTGGAAAGTCTCATTGCAAACTTGTGTGCGTGTCTTGTCCCAGCGGCTGGAGGGTCTCAG
Seq A exon
GTAAACAGAATAAAAAAGAAGATGAAGAGGGCCTGCTTCTCTTCTCCTCTCCTCCAGTTAATTTAATTTATGAAGAAAAGGAAAAAAACGAATTCTTTAAATATTTTCTTTTTAAAGTGGGTCTTAGGGGACTTCCCTGGCAGTCCAGTGGTTAAGACTCCGCCCTTCCAATGCAGGGGGCGAGAGTTCAATCCCTGGGAAAAAAAAAAAGGTCTTAGTTTAGTTAAGCATTGTCCCTGTGGTCTTCCTTCTAGAAACACAAGATTCCATTCTTTTCTTAGGTCATGGGGTTAATTTTAACGCAGGGTTCACCTTTCACATTGCATAGTTAGAAGTTATATTCTGTGTAACTTGAAATCTAGCTTACATTTTCTTGGGAATGCACTTTTTAAAATTGAATTTCAGATGTGTTCTTTATACCATGCTTATTCCTCTATATGATTACACCTCATTAAAATTTTTTTCAGTGACACAAATTCAGAGATAACATTAAGAAAACTGTCAGTATAATTTTTTGTAGCATTGTAACTACCGCTGGATAGGTTAATTCATTTCTTCATCTCCTTGGATAAAATCACTTACATGTGGTCCTGAAAACCATTTTGTGTGTTGTGTGTAATGTTTAGTAGAATAGCTTGCACTTAAGCTTCAGGAGAAGAGGGCTTATTTTTCTCATCTCAGTTGTCTGCCTTTAATAATAATAATGATGATATTGACCATTGTCCAAAATCACAGATCTTCTTTGGAAAGTATAATCTATACCTTAAAGAATTTCATCATACGTAGATTGAGCACATGAGGACATTAAACTCTTACACTGAAATAAAGCTTTCCCAAAGTGACATGTCTTTCATCTTCTCTGTGTCTTGAAATTTTTATCTTCTTCTCTGAAGTAGAAAAATGAGAACCTCAGCTTCTAAGACTAAATGTTCCTAGGTAACTTAAAAAAACTACTTAAGTCCTAAAATTGATTAGTTGACCACTTACTATGCTTATTCTTATGAAATATCAATATCAAGGGAAAGAACAGCCCTCTAAAAATTACATTTTTTAAACTCTGATCGATTAAAAAAAAGTCTGATAGAGATGTTACTTATGGTAAAATTGACAACTTTTTCCCTTGCCCTTTGCCTTTTTAACTATCTACTATCTTTCCTAATGCCTTTTGGTTACTCTTAAGCTTATTTTCCTTCTGTACTCCCCTCCCTCACTCTCCTGTTTGTACTCCAAGGGCAGAATATGAAATGTGAGTTTAGTCACAACTGAACCTACACTGTAAAGCAGATGAGTTACTTTATGAGACTTTATTATGATGAAATTTTTGTTGACACGATTTTATGTATTTTTAAATTTAAAAAGGATTATTATTGTGACTATTAGAAGTTTTTAAATTATGTGTTTCATATTACATTTTATTTTTCCAGTTTTATTCACATGTAACTTGCATATAAATGTTAACTTTAATATTTTATTATTTTTAAGTTACATGTTACTGTCACTGATTTGTGTGTTTCATTATTACTAAATTTTCACCTTCCAACTACTGAATTTTCTTGTATCATATTCATTTGGGCACAAAGTAGCTTTAGTGTTTTGAGCTGCCTTGTTGCCCTTCGCATCTGTTAGTTGGGTCTTATAAGACCATCATCTGCTCTCAATTTGAACTTCAAAGAGATTTTTTTTATCTTGAGAAAATGTGTGAAAAGAAATCATTTGTTGTGTGTATATCTCTTCCGCCCAATCTGCAG
Seq C2 exon
AAGCTGTTTTCCTTGGGTGCAGGAGACAGACAGCTGATCCAGACTCCCTTGCATGACAGTCTTCCTGTCACAGGAACTAGTGTGGCTCTCCTGTTCCAGCAGTTAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000043981:ENSBTAT00000039913:5
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:
PF0214116=DENN=FE(19.7=100)
A:
NA
C2:
PF0214116=DENN=FE(19.1=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:
GCTTGCCTGGGTTTGATCTACA
R:
TGGAACAGGAGAGCCACACTA
Band lengths:
209-1957
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development