BtaINT0128857 @ bosTau6
Intron Retention
Gene
ENSBTAG00000020780 | SBNO2
Description
Bos taurus strawberry notch homolog 2 (Drosophila) (SBNO2), mRNA. [Source:RefSeq mRNA;Acc:NM_001077911]
Coordinates
chr7:45210606-45210969:-
Coord C1 exon
chr7:45210877-45210969
Coord A exon
chr7:45210738-45210876
Coord C2 exon
chr7:45210606-45210737
Length
139 bp
Sequences
Splice sites
5' ss Seq
AAGGTGGGC
5' ss Score
7.93
3' ss Seq
TGGTGCACTGCCCCATCCAGGTC
3' ss Score
6.45
Exon sequences
Seq C1 exon
ATCAGTGTGGACCGTGGCCTGAAGTGGGAAGAGGCCTACGCCCGGTCACTTGAGCTGACGGGCACCCACGACGGCTTCTACCTCTCCTACAAG
Seq A exon
GTGGGCCCTACAGCAAACCCCCAACGCTCTCCCAGGGGCAGGAGCCAGGCTGGTGGGTTGGCAGGGGAGGGCGGTGGCCATCCTCATGCCGTCTCGCTTGACATGCCTTCTCGTATATGTGGTGCACTGCCCCATCCAG
Seq C2 exon
GTCCGCGGCAACAAGCCCAGCTGCCTGCTGGCCCAGCAGAACCGCGGCAAGCTCTTCACCGTGTACAAGCCCAATATAGGGCGGCAGAGCCAGCTGGAGTCCTTGGATAGCTTGAGCCGGAGGTTCCGCCGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000020780:ENSBTAT00000027693:28
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:
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:
ATCAGTGTGGACCGTGGCC
R:
GAACCTCCGGCTCAAGCTATC
Band lengths:
219-358
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]