BtaINT0128846 @ bosTau6
Intron Retention
Gene
ENSBTAG00000020780 | SBNO2
Description
Bos taurus strawberry notch homolog 2 (Drosophila) (SBNO2), mRNA. [Source:RefSeq mRNA;Acc:NM_001077911]
Coordinates
chr7:45213394-45213963:-
Coord C1 exon
chr7:45213772-45213963
Coord A exon
chr7:45213564-45213771
Coord C2 exon
chr7:45213394-45213563
Length
208 bp
Sequences
Splice sites
5' ss Seq
GCGGTGAGG
5' ss Score
7.93
3' ss Seq
CTGACCCTCTGGCCCCACAGGCC
3' ss Score
10.67
Exon sequences
Seq C1 exon
GGCGGCCACGGGGCCGTGGGGCCAAGGCACCCAGGCTGGTGTATGAGGCAGCAGGTGTGATCCGCATTAGTGACGACAGCAGCACAGAGTCGGACGGTGGCCTGGACAGTGACTTCCACTCCTCCCCCGAGTCCCTGTTGGACGACGATGTGGTCATCGTGGATGCCATCGGGCTCCCAGCCGATGACCGCG
Seq A exon
GTGAGGCCCAATGCCGCCTTCCCCATCCTTGCTTCTCATGCTCTGAGCAGGAAGTCAGGGGCACATGAGCAGGAGCAGCCAGGGGTTCGGGGAAAGATTCTAGACCCCCACTACCCAGGGACTCCCTCACCCTTGAGGGCCCAGGGAGGGGAGCAGGGCTGTGGACAGGCAGCCTGGCCCAGTTCCCCCTGACCCTCTGGCCCCACAG
Seq C2 exon
GCCCCTTGTGCCCCCCACAGCGGGACCTGCATGGCCCCGGAGTCCTGGAGCGGGTTGAGCGGCTGAAGCAGGACCTGCTGGCCAAGGTGCAGGCGCTGGGCCGGGAGCTGCCAGTCAACACCCTGGATGAGCTCATTGACCAGCTAGGGGGCCCAGAGTGCGTGGCTGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000020780:ENSBTAT00000027693:18
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.431 A=NA C2=0.316
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF138711=Helicase_C_4=PU(6.1=29.8)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTGTATGAGGCAGCAGGTGTG
R:
GGTCAATGAGCTCATCCAGGG
Band lengths:
295-503
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]