BtaINT0128849 @ bosTau6
Intron Retention
Gene
ENSBTAG00000020780 | SBNO2
Description
Bos taurus strawberry notch homolog 2 (Drosophila) (SBNO2), mRNA. [Source:RefSeq mRNA;Acc:NM_001077911]
Coordinates
chr7:45212264-45212963:-
Coord C1 exon
chr7:45212832-45212963
Coord A exon
chr7:45212400-45212831
Coord C2 exon
chr7:45212264-45212399
Length
432 bp
Sequences
Splice sites
5' ss Seq
AAGGTGGGG
5' ss Score
5.87
3' ss Seq
TCCCCGACCCTGCGTCCCAGCTT
3' ss Score
4.33
Exon sequences
Seq C1 exon
ATGACCGGCAGGAAGGGCCGTGTAGTGTCCAGACCTGACGGGACGGTGGCGTTTGAGTCACGAGCGGAGCAGGGTCTCTCCATTGATCACGTGAACCTCAGGGAGAAGGAACGCTTCATGAGTGGGGAGAAG
Seq A exon
GTGGGGGCCCTGGGGCACCCCGGGTGTGGCTGCATGTGGGCTGAGAGGCGCAGGGCTCTTGATAGACTGGCTGGAGGACCACCAGCTGTGTATAGGGGTGTGTGCTGTGCTTGTGTGCCTGAGTGGGCCCCCAGCCCTCACCAGTCCCACTTTCAGTTTGAATCGTCCAGGCCCTCTGTCAGTGCCTAGCCCGCTGATGCTGAGCCACCCCATGGGAGCTGATGTCTGCAGGGCCAGCAGACTCTAGGGGTGCCTCAGGATGGTCCTGACTCTAAGCCCACAGAGGCCCCTCAGGGACACACATACCTGACCTTCTTGTGTGGGTCACCCTGAATGCTTCCAGTTAACCCAGGGCACATGGGGTGTGGGGCAAGGTGGAGCAGGCTGCCCGCCCTGCCACCCCTCTGATCCATCCCCGACCCTGCGTCCCAG
Seq C2 exon
CTTGTGGCCATCATCTCAGAGGCCTCCAGCTCCGGTGTCTCCCTCCAAGCTGACCGCCGGGTGCAGAACCAGCGGCGCCGGGTGCACATGACGCTGGAGCTGCCCTGGAGCGCTGACCGAGCCATCCAGCAGTTTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000020780:ENSBTAT00000027693:20
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.318 A=NA C2=0.109
Domain overlap (PFAM):
C1:
PF138711=Helicase_C_4=FE(15.4=100)
A:
NA
C2:
PF138711=Helicase_C_4=FE(16.1=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:
GGCAGGAAGGGCCGTGTAG
R:
CAAACTGCTGGATGGCTCGG
Band lengths:
262-694
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]