BtaINT0100309 @ bosTau6
Intron Retention
Gene
ENSBTAG00000047061 | NDOR1
Description
Bos taurus NADPH dependent diflavin oxidoreductase 1 (NDOR1), mRNA. [Source:RefSeq mRNA;Acc:NM_001046158]
Coordinates
chr11:105891791-105892426:-
Coord C1 exon
chr11:105892201-105892426
Coord A exon
chr11:105891869-105892200
Coord C2 exon
chr11:105891791-105891868
Length
332 bp
Sequences
Splice sites
5' ss Seq
GTGGTGAGG
5' ss Score
6.13
3' ss Seq
ATATGTGTCTTTTTGTTGAGGTG
3' ss Score
2.85
Exon sequences
Seq C1 exon
AAGCCGGAAGTCGGAGCCTGTCGCGGGGGTCAGGGCTGGCGGCGAGTGCGGCGGGTCACGTCAGGAGCGCGGGGTTCCCCGGGGTCAGCCCATGCCGAGCGCACGGCTCCTGGTGCTCTTCGGCAGCCAAACGGGCACAGCCCAGGATGTGTCGGAGAGGCTGGGCCGCGAGGCCCGACGCCGGCAGCTCAGCTGCCGAGTGGAAGAACTGGACTCCTACCCCGTG
Seq A exon
GTGAGGGCTCCTCGGACCTCGGCGGGGGTACCCGGCGGGCTTGGGGCGCCGGCCCCCAAAGTGCTCGACCCCAGGGGGCTGCGTTTCGTCTGAGAGCGGGCCCTTCCATTACGGCAGATTTAGGGGCCGGGAACGCTTGGGAGCAGCGGCCAGTTTAGCGCATGGAGACAGGGGAGCGGTTGCCGGGGAGCCTGAAAGAGAAGGCCGGCCGGCCGCTCGCGAGCGCTGAGTCCCTTTGCCCCATTCCTCTGAGAGAAGGCGGGGAGCCAGGCTGCTGGGAGGATGCCTGGCCATTACAGCCCGAGGCCTTACATATGTGTCTTTTTGTTGAG
Seq C2 exon
GTGAATCTGATTAATGAGCCCCTGGTGATATTTGTTTGTGCAACTACAGGCCAAGGAGACCCCCCGGACAACATGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000047061:ENSBTAT00000066145:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.100 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0025820=Flavodoxin_1=PU(26.8=82.2)
A:
NA
C2:
PF0025820=Flavodoxin_1=FE(18.1=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:
GAAGTCGGAGCCTGTCGC
R:
CTTCATGTTGTCCGGGGG
Band lengths:
298-630
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development