DreINT0054244 @ danRer10
Intron Retention
Gene
ENSDARG00000094057 | cyp2j20
Description
cytochrome P450, family 2, subfamily J, polypeptide 20 [Source:ZFIN;Acc:ZDB-GENE-041210-324]
Coordinates
chr20:25715635-25716367:+
Coord C1 exon
chr20:25715635-25715822
Coord A exon
chr20:25715823-25716225
Coord C2 exon
chr20:25716226-25716367
Length
403 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGC
5' ss Score
9.6
3' ss Seq
AGCATCTTGTTGTTCTTCAGGGC
3' ss Score
8.6
Exon sequences
Seq C1 exon
CTAAAGTTCAGCAGGAGATTGATGTCATTGTTGGAGGCTCAAGGCAGCCATCTGTATCAGACAGAGACAACATGCCCTACACCAATGCTGTCATTCATGAGATACAGAGGATGGGAAATATTATCCCCATAAATCTGGCCAGGACTACTTCAGAAGATACTCAGATAGAAAAATACTCTATTCCAAAG
Seq A exon
GTGAGCATAGTGGTGTTTAGGCGCAGTTAGTGAATAGTATTTCTAATTGAATTTGCTGTTAACTTACTTTCAGGCCATCTGAGATGCAGGTAAGCCTTTTACTTCAGTCGAACATTAACGAAACACTGCTACTTGGTGATTCATATTGTGCAGGTCAACAGCTACTGGCAAAACACATATACAGGCAATATTAAATTAATACTTGTGGCTCCTGGTAATTTATTAAAGTGTTATGAAGAGGAAAGATTGGCCTAAAAAATATTTACAACATTATTACTTTTAATCAGCAGCCTTAGCAATGGTTGGTCTAATGCACAAACTGTATTTTATGGGTCACCTAGGACCATGTCTTGAAAACTAAAGTCACCTATATCTTCAGTTTAAGCATCTTGTTGTTCTTCAG
Seq C2 exon
GGCACAATGGTGACCAGTAATTTGACATCAGTGCTGTTTGATGAGTCTGAGTGGGAGACGCCTCACTCTTTTAACCCGGGTCACTTCCTGGATGCTGAGGGCAAATTCAGGAGGAGAGATGCCTTTTTACCTTTTTCTCTAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000094057:ENSDART00000130242:7
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.109 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0006717=p450=FE(13.8=100)
A:
NA
C2:
PF0006717=p450=FE(10.3=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:
AAAGTTCAGCAGGAGATTGATGTCA
R:
AGAGAAAAAGGTAAAAAGGCATCTCT
Band lengths:
326-729
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]