DreINT0109268 @ danRer10
Intron Retention
Gene
ENSDARG00000062664 | oxnad1
Description
oxidoreductase NAD-binding domain containing 1 [Source:ZFIN;Acc:ZDB-GENE-060503-199]
Coordinates
chr19:20690517-20690889:+
Coord C1 exon
chr19:20690517-20690643
Coord A exon
chr19:20690644-20690825
Coord C2 exon
chr19:20690826-20690889
Length
182 bp
Sequences
Splice sites
5' ss Seq
ACGGTGAGT
5' ss Score
11.45
3' ss Seq
CGACCCTAAATGTGTTTCAGAAA
3' ss Score
7.16
Exon sequences
Seq C1 exon
AGTTCCTCCCGTCACATCTGACCATGAGTGCCCCGTGCTTTGTACGAACGGTGGCCAGAGGTTTCTCCGGTGGATCAGGACTGTTCAGACCTGCTGTGTTGTGTTCAGACAAAGTCACAGTCACACG
Seq A exon
GTGAGTATCGTCCAGAATCCACTGCTGTTTCTAGAGGCTTTGGACACTAAGGTTGTGTCCTAAAACCTGGTAAGCAGCCTACCTAGTCGGCATGCTACAAAACATCCACAAAAAAGTATGTAGTATATGAGACAAAGTCATTGTTTTAGTGTATAAACTATACGACCCTAAATGTGTTTCAG
Seq C2 exon
AAAAATGACATCCAGGAGACGGACTGACCATCTAGAGAGAACTGCTAGTGTTCATCGACAAATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000062664:ENSDART00000151693:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.516
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGTTCCTCCCGTCACATCTGA
R:
TGTCGATGAACACTAGCAGTTCT
Band lengths:
187-369
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]