DreINT0054240 @ danRer10
Intron Retention
Gene
ENSDARG00000094057 | cyp2j20
Description
cytochrome P450, family 2, subfamily J, polypeptide 20 [Source:ZFIN;Acc:ZDB-GENE-041210-324]
Coordinates
chr20:25711926-25712553:+
Coord C1 exon
chr20:25711926-25712088
Coord A exon
chr20:25712089-25712403
Coord C2 exon
chr20:25712404-25712553
Length
315 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGT
5' ss Score
10.47
3' ss Seq
AGTGTCCGTTTTGTAAACAGGTT
3' ss Score
9.01
Exon sequences
Seq C1 exon
TTTGCAGAAAAATATGGCAAGATTTTCAGCCTTAGACTTTTTGGACCAAGAATTGTTGTGTTAAATGGATATAACTTAGTGAAGGAAGTGTATACTCAAGAGGGTGACAACCTCGCTGATCGAGCCATTTTACCCTTATTTCACGACATTATTGGAGACAAAG
Seq A exon
GTGAGTCTGAAAACTTTAAAGTAATTTGTCTCAACGCCTATTTAAACATTTATATAAAGAGTTATTTGTGTGAACACAATGGATAACCTAATATCAGAATGTTAAATCTGCAGTTTACCTAGTGATGGGTTGTAACTGGAAAGGTATCCACTGTGTAAAACATATGCTGAATAAGTTGGCAATTCATTCCTCTGTGGTGACCCCAGATTAATAAGGGAACTAAGCCAAAAAGAAAATGATTGAATAAATCTGCAGAATGACTAAAAACAACAATAATTAATTACTTTTCTAATTAAGTGTCCGTTTTGTAAACAG
Seq C2 exon
GTTTAGTGGCTTCCAGTGGATATAAATGGAAGCAGCAGAGGAGATTTGCACTCTCGACTCTTCGAAACTTCGGATTGGGAAAGAAAAACTTGGAGCCATCCATCAATCTCGAAAGTGGCTTTCTGAATGAGGCCATTTCAAATGAACAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000094057:ENSDART00000130242:2
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:
PF0006717=p450=FE(11.8=100)
A:
NA
C2:
PF0006717=p450=FE(11.0=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGCAGAAAAATATGGCAAGATTTTCA
R:
CCTGTTCATTTGAAATGGCCTCA
Band lengths:
311-626
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]