BtaINT0103027 @ bosTau6
Intron Retention
Gene
ENSBTAG00000012121 | NOXA1
Description
Bos taurus NADPH oxidase activator 1 (NOXA1), mRNA. [Source:RefSeq mRNA;Acc:NM_001102075]
Coordinates
chr11:105702993-105703422:-
Coord C1 exon
chr11:105703268-105703422
Coord A exon
chr11:105703105-105703267
Coord C2 exon
chr11:105702993-105703104
Length
163 bp
Sequences
Splice sites
5' ss Seq
CAGGTGGGC
5' ss Score
8.07
3' ss Seq
TCTGAGGCATCTCTTTGCAGTTA
3' ss Score
5.02
Exon sequences
Seq C1 exon
GGAGCGGCTCCGGGGCGCTCTGAGTCCTTGGCGACCGTCACCGTGCAGTGTGCCCTCACCCTGAGCCTGACGGCCCCGAGAGGAGCTGACCTGTCCAGTCTGCGGGCCCTGATGAGCCAGGCCCTGCCCCCCCACGCCCAGCGTGCCCAGCTCAG
Seq A exon
GTGGGCTGGGACGATGTGCAGGGCGGGAAGGGGGCTCCGGGCTGGCCACCTCTTGGCCTTGCCCTGCAGGAGGGCCCGGCCCGTCAGAGGCTTTCGAGGTCAGAGCTCAGCACCCTCTGAAGCCCCTCGCCTGCGCGGCCCCCTCTGAGGCATCTCTTTGCAG
Seq C2 exon
TTACCAAGACCCCAGCGAGGATGGGCGCTGGGTGCCCCTCTCTGGGGAGGAGGCACTGCAGAGAGCCTGGCGGGACGCGGCCGGCCCTGGGGGTCTGCAGCTGCAGTGCCGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000012121:ENSBTAT00000066207:10
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.462 A=NA C2=0.553
Domain overlap (PFAM):
C1:
PF0056419=PB1=PU(49.4=75.0)
A:
NA
C2:
PF0056419=PB1=FE(46.8=100)
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:
GCTCTGAGTCCTTGGCGAC
R:
CAGCTGCAGACCCCCAGG
Band lengths:
242-405
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development