DreINT0054241 @ danRer10
Intron Retention
Gene
ENSDARG00000094057 | cyp2j20
Description
cytochrome P450, family 2, subfamily J, polypeptide 20 [Source:ZFIN;Acc:ZDB-GENE-041210-324]
Coordinates
chr20:25712404-25712801:+
Coord C1 exon
chr20:25712404-25712553
Coord A exon
chr20:25712554-25712640
Coord C2 exon
chr20:25712641-25712801
Length
87 bp
Sequences
Splice sites
5' ss Seq
AGGGTATTT
5' ss Score
4.53
3' ss Seq
TTTATCTCTTTTTGCTGTAGGTC
3' ss Score
11.64
Exon sequences
Seq C1 exon
GTTTAGTGGCTTCCAGTGGATATAAATGGAAGCAGCAGAGGAGATTTGCACTCTCGACTCTTCGAAACTTCGGATTGGGAAAGAAAAACTTGGAGCCATCCATCAATCTCGAAAGTGGCTTTCTGAATGAGGCCATTTCAAATGAACAGG
Seq A exon
GTATTTTCTAAGATTTGTTGGTTGAAAATAACGGAAAATGACGTTTTAATTTGAAATTATGGTGTGATTTATCTCTTTTTGCTGTAG
Seq C2 exon
GTCAACCCTTTGACCCTCGCTTACTTCTGAACAACGCTGTATCAAATGTGATCTGTGCACTTGTGTTTGGTAATCGCTTTGACTACAGTGACCATAAATTTCAGACTCTGCTGAAGAACATCAACGAGACTGTGCATCTGGAAGGAGGCATCTGCGCTCAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000094057:ENSDART00000130242:3
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:
PF0006717=p450=FE(11.0=100)
A:
NA
C2:
PF0006717=p450=FE(11.8=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTGGCTTTCTGAATGAGGCCA
R:
CCTTCCAGATGCACAGTCTCG
Band lengths:
181-268
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]