BtaINT0128865 @ bosTau6
Intron Retention
Gene
ENSBTAG00000020780 | SBNO2
Description
Bos taurus strawberry notch homolog 2 (Drosophila) (SBNO2), mRNA. [Source:RefSeq mRNA;Acc:NM_001077911]
Coordinates
chr7:45219690-45220345:-
Coord C1 exon
chr7:45220249-45220345
Coord A exon
chr7:45219845-45220248
Coord C2 exon
chr7:45219690-45219844
Length
404 bp
Sequences
Splice sites
5' ss Seq
AGTGTGAGT
5' ss Score
6.96
3' ss Seq
CCCTCTGCACATCCCTACAGCCA
3' ss Score
8
Exon sequences
Seq C1 exon
GCTCAGAGTCAGCCTGAGGAGGACGACGAGGCTGAGGAGGATGAGGCGGAGGAGCTGGGTCACGCGGAGACGTACGCTGACTACGTGCCATCCAAGT
Seq A exon
GTGAGTATCCTGCTATGGAGACTCCTAGCTGCACAGCGCCCAGGGCCTGGGTCCTCTGGCCTGGGGCGCCCATTTCGGGGGTCTCTGAAGGTCCCAGGGAACCTTAAACTGCCAGAGCAGGTGTGGGTGGGCTCCTGAGGGACTCTTCTGTAATCAGGGTTGTTTGTGGTCCTCACCTGGCACAAAACCAGCCGCAGGCCAATGTTGCAATGGAGAGGCAGGCCGCCTTCCTCTGCACCTGGGAGGGTTTTAGGAATCTGCCACTAGCTGGCACTATGCTGATGGGCCCTCCCTTCCACTTCGTGGGGCGTGCCCCACCCATCCTGGCCCCAGGTGGACCTCCCTAGTGCCCTGGTCACATCCGGGCCACACCCCTGACCTGCCCCCTCTGCACATCCCTACAG
Seq C2 exon
CCAAGATTGGGAGGCAGCACCCGGACCGTGTGGTGGAGACCAGCACGCTGTCTAGCGTCCCGCCGCCAGACATCACCTACACCCTCGCCCTGCCCTCCTCAGACAGCGGGGCCCTGTCTGCCCTGCAGCTGGAGGCCATCACCTATGCCTGTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000020780:ENSBTAT00000027693:7
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.848 A=NA C2=0.365
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF138721=AAA_34=PU(16.3=92.3)
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:
CTCAGAGTCAGCCTGAGGAGG
R:
CTGACAGGCATAGGTGATGG
Band lengths:
251-655
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]