BtaINT0103031 @ bosTau6
Intron Retention
Gene
ENSBTAG00000012121 | NOXA1
Description
Bos taurus NADPH oxidase activator 1 (NOXA1), mRNA. [Source:RefSeq mRNA;Acc:NM_001102075]
Coordinates
chr11:105708237-105709255:-
Coord C1 exon
chr11:105709173-105709255
Coord A exon
chr11:105708346-105709172
Coord C2 exon
chr11:105708237-105708345
Length
827 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAAC
5' ss Score
4.07
3' ss Seq
GGCTCCCCTACTGCCCACAGGTT
3' ss Score
7.96
Exon sequences
Seq C1 exon
GCATTTGACCAGGCGGTGACCAAGGATGCCTGCTTGGCTGTCGGCTTCCTCCAGCGCGGAGTGGCCAACTTCCAGCTGGAGAG
Seq A exon
GTGAACACAGACGTCCCCTCTTCCTTTTCTGACGGCCCTTTGTCTCTGCAGAGTCCTTCCTGTGCTCCTCTCTGCCTATGGTCACCTCCTCTGGCCAGCTCCCCCTGGGCTGTTCCCTGGAGCCCGGGGACAGGATTGTGTCACGTGGGGGCGTGTCTCTCTGTCCCCACACCCGGCTGCACAGTGACCCTGGGCTCTGTGCGGAAGAGGGTCACAGAGCACTTCTGCTGGCTCCCCTCCTCTGTTCCTACACCCTGGACTGCAGGGACGGCATGATTCTGCCCATTCTGCCTTCGGGAAACCCAGGAAAGGGATGGAGGAATGGCACATCCCAGGACTCGGCGGTGTTGGGGGAGGGTCCTCTGCCCACCCGGCTCTCTGCGCCAGGCCCTTCCCAGAGAAGGAATCAGAGCTGCAGGGCAGGCCTGGCGCCCATAGAAGGCCCTACACAGGGTGGCTGGGCTCCAGGGTGACCTCCTTCTCATCAGCCCGGAAGCCTCCCCAGGGGCGATGAGAATCCTGGTCGGGGCTGGGGCTTCCAGCCAGGGTCTGGGTGGGGAGGCCTGCGAGACAGAGACCCCGGAAGCAGGCAGGACACGCCTAGGGCACTCTGCACCCTGAGGTTCGGGAGAGGGCCTGGGGTGCAGGCGGAGGAGCCCACGGGCTGCACAGCCCGTCTGTGTGGACCCTGTGTGCTGAGGCCTGCCGACCATCGCTGCCTCCGCGCTGCAGGAGGGGCTGGGGCGGGGGGCGAGTCCGGGCCAAGGTGGAGCCCTCGCCCTGGGGCCACCCGGGGCCCCCATGCCAGGCTCCCCTACTGCCCACAG
Seq C2 exon
GTTCATGGAGGCCCTGTCCGACTTTCAGCGCACCCTGGCCCAGCTGAGGGACAACACCGCCATCGACTACACCCAGCTGGGCCTGCGGTTCAAGCTGCAAGCCTGGGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000012121:ENSBTAT00000066207:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF134141=TPR_11=FE(45.8=100)
A:
NA
C2:
PF134141=TPR_11=PD(28.8=45.9)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CAGGCGGTGACCAAGGATG
R:
CTCCCAGGCTTGCAGCTT
Band lengths:
183-1010
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development