BtaINT0128843 @ bosTau6
Intron Retention
Gene
ENSBTAG00000020780 | SBNO2
Description
Bos taurus strawberry notch homolog 2 (Drosophila) (SBNO2), mRNA. [Source:RefSeq mRNA;Acc:NM_001077911]
Coordinates
chr7:45215593-45216119:-
Coord C1 exon
chr7:45215943-45216119
Coord A exon
chr7:45215691-45215942
Coord C2 exon
chr7:45215593-45215690
Length
252 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAAC
5' ss Score
5.54
3' ss Seq
ACACACACCCACCCCCGCAGTGT
3' ss Score
5.38
Exon sequences
Seq C1 exon
TGGGCCGAGGCCCTGGGCGTGTTCCAGCAGGCAGCCGACTGGATCGGCCTGGAGTCGCGCAAGTCCCTGTGGGGCCAGTTCTGGTCAGCCCATCAGCGCTTCTTCAAGTACCTGTGTGTGGCTGCCAAGGTGCACCGGCTGGTGGAGCTGGCCCAGGAGGAGCTGGCCCAGGACAAG
Seq A exon
GTGAACTGGGCTGGGCTGAGTCCCTAGAAAGAAGCAGGCACAGGCTTATGTGGAGATCGGGGTTGTCTGGGAGCTGAGGCCAGCCATTGGTGCCAGGTTAACATCCCAGGGGATATGGGCTTGTTGGGGTCTGGCAGCCTGAGTAACACAGGGGAGGGGAACGGAGTAACAGGTCAGCCCCAGGTTCCCAGCTGCAGGGGCAGGTGTGGGGGCAGGGGTGCCAAGCCTGCTCACACACACCCACCCCCGCAG
Seq C2 exon
TGTGTGGTCATCGGGCTGCAGTCTACAGGTGAGGCGCGGACCCGGGAGGTGCTGGGCGAGAAGGAGGGACAGCTCGATGGCTTCGTGTCCGCTGCCGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000020780:ENSBTAT00000027693:15
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=0.030
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
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:
CTGGGCGTGTTCCAGCAG
R:
TCGGCAGCGGACACGAAG
Band lengths:
263-515
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]