BtaINT0128853 @ bosTau6
Intron Retention
Gene
ENSBTAG00000020780 | SBNO2
Description
Bos taurus strawberry notch homolog 2 (Drosophila) (SBNO2), mRNA. [Source:RefSeq mRNA;Acc:NM_001077911]
Coordinates
chr7:45211511-45211809:-
Coord C1 exon
chr7:45211701-45211809
Coord A exon
chr7:45211586-45211700
Coord C2 exon
chr7:45211511-45211585
Length
115 bp
Sequences
Splice sites
5' ss Seq
GTGGTGAGC
5' ss Score
6.64
3' ss Seq
GAGGCTCCCCCTCCCCACAGACA
3' ss Score
10.35
Exon sequences
Seq C1 exon
TATGGTGCCCGGGCGCTCAGCTGTGTCCTCACCACCATCCTAAGCCAGACGGAGAGCAAAGTGCCACTGCCCCAGGGCTACCCTGGAGGGGATGCCGCCTTCTTCCGTG
Seq A exon
GTGAGCTGGTAGACCCCCCCACACATACACACCAGGGGCACAGGAGACACTGGTGGTGAGGGGGAGCCCTGGTAGGCTGTGGCCAGCAGTCGTGCGAGGCTCCCCCTCCCCACAG
Seq C2 exon
ACATGAAGCAGGGGCTGCTGTCAGTGGGCATTGGCGGGCGCGAGTCCCGGTCCGGCTGCCTGGACGTGGAGAAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000020780:ENSBTAT00000027693:24
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.027 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF138711=Helicase_C_4=FE(12.9=100)
A:
NA
C2:
PF138711=Helicase_C_4=FE(9.0=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:
GCTCAGCTGTGTCCTCACCA
R:
CCTTCTCCACGTCCAGGCAG
Band lengths:
170-285
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]