DreINT0123115 @ danRer10
Intron Retention
Gene
ENSDARG00000014101 | pyroxd2
Description
pyridine nucleotide-disulphide oxidoreductase domain 2 [Source:ZFIN;Acc:ZDB-GENE-050506-147]
Coordinates
chr13:40174038-40174424:-
Coord C1 exon
chr13:40174283-40174424
Coord A exon
chr13:40174173-40174282
Coord C2 exon
chr13:40174038-40174172
Length
110 bp
Sequences
Splice sites
5' ss Seq
ACAGTTAGT
5' ss Score
2.03
3' ss Seq
GATATTAAATATGTTCTTAGGAT
3' ss Score
5.68
Exon sequences
Seq C1 exon
GTATGTCCTGCTGCACCATGTCATGGGTGAGCTGGAGAAAGAAAAAGGCTCCTGGGGTTACGTGGAGGGAGGAATGGGTGGAGTGCCTCAATCCATCGCCCGCTCCGCCCGCTCTCTTGGAGCAGATATTTTCACAAACACA
Seq A exon
GTTAGTATTCAGGAAGAAGGTGTAACCATTTTTCTCCAGCCATTGTTTCCAAACCTGTCACGTTCATTCAATACAAACAATTGTCTTATAGATATTAAATATGTTCTTAG
Seq C2 exon
GATGTCGAACAAGTCCTTATTGGTCCGGATGGTTCTGCTAAGGGTGTAGTGTTGACAGATGGAACTGAAGTCCATAGTAAAGTGGTTTTGTCCAACGCAACTCCTCATGTCACCTTCAAACGTCTCACACCGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000014101:ENSDART00000144360:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.021 A=NA C2=0.078
Domain overlap (PFAM):
C1:
PF0159319=Amino_oxidase=FE(33.6=100)
A:
NA
C2:
PF0159319=Amino_oxidase=FE(31.4=100)
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:
ATGTCATGGGTGAGCTGGAGA
R:
CGGTGTGAGACGTTTGAAGGT
Band lengths:
257-367
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]