BtaINT0128856 @ bosTau6
Intron Retention
Gene
ENSBTAG00000020780 | SBNO2
Description
Bos taurus strawberry notch homolog 2 (Drosophila) (SBNO2), mRNA. [Source:RefSeq mRNA;Acc:NM_001077911]
Coordinates
chr7:45210877-45211155:-
Coord C1 exon
chr7:45211061-45211155
Coord A exon
chr7:45210970-45211060
Coord C2 exon
chr7:45210877-45210969
Length
91 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGC
5' ss Score
9.6
3' ss Seq
TGACACCTGCGTGCCCGCAGATC
3' ss Score
11.09
Exon sequences
Seq C1 exon
ACCTGGCCCCTGGCATTGATGAGATCTATGAGGAAAGCCAGCAGGTGTTCCTGGCGCCTGGACACCCGCAGGATGGACAGGTGGTCTTCTACAAG
Seq A exon
GTGAGCAGCCCTGCCCCTCCCCGCCCCACTCACTGTCCCTTCCCGCCCTGTTCACTGCCCCTCCCATCACCTGACACCTGCGTGCCCGCAG
Seq C2 exon
ATCAGTGTGGACCGTGGCCTGAAGTGGGAAGAGGCCTACGCCCGGTCACTTGAGCTGACGGGCACCCACGACGGCTTCTACCTCTCCTACAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000020780:ENSBTAT00000027693:27
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:
PF138711=Helicase_C_4=PD(0.1=0.0)
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:
CCCCTGGCATTGATGAGATCT
R:
TAGGAGAGGTAGAAGCCGTCG
Band lengths:
178-269
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]