BtaINT0128850 @ bosTau6
Intron Retention
Gene
ENSBTAG00000020780 | SBNO2
Description
Bos taurus strawberry notch homolog 2 (Drosophila) (SBNO2), mRNA. [Source:RefSeq mRNA;Acc:NM_001077911]
Coordinates
chr7:45212078-45212399:-
Coord C1 exon
chr7:45212264-45212399
Coord A exon
chr7:45212191-45212263
Coord C2 exon
chr7:45212078-45212190
Length
73 bp
Sequences
Splice sites
5' ss Seq
TTGGTGAGC
5' ss Score
7.43
3' ss Seq
AACACCTCTTCTGCCTCCAGGCC
3' ss Score
9.9
Exon sequences
Seq C1 exon
CTTGTGGCCATCATCTCAGAGGCCTCCAGCTCCGGTGTCTCCCTCCAAGCTGACCGCCGGGTGCAGAACCAGCGGCGCCGGGTGCACATGACGCTGGAGCTGCCCTGGAGCGCTGACCGAGCCATCCAGCAGTTTG
Seq A exon
GTGAGCCCTGCTCCCGACCCAGGCCACGCCCCAGGGGGCCCACCTGGTCCCTAAACACCTCTTCTGCCTCCAG
Seq C2 exon
GCCGGACCCACCGCTCCAACCAGGTCTCTGCGCCGGAGTATATCTTCCTCATTTCAGAGCTGGCAGGGGAGCGCAGGTTTGCTTCCATCGTGGCCAAGCGGCTGGAGAGCCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000020780:ENSBTAT00000027693:21
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.109 A=NA C2=0.079
Domain overlap (PFAM):
C1:
PF138711=Helicase_C_4=FE(16.1=100)
A:
NA
C2:
PF138711=Helicase_C_4=FE(13.3=100)
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:
CCATCATCTCAGAGGCCTCCA
R:
AGGAAGATATACTCCGGCGCA
Band lengths:
178-251
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]