DreINT0054415 @ danRer10
Intron Retention
Gene
ENSDARG00000053530 | cyp4f3
Description
cytochrome P450, family 4, subfamily F, polypeptide 3 [Source:ZFIN;Acc:ZDB-GENE-070410-108]
Coordinates
chr12:48572372-48574111:-
Coord C1 exon
chr12:48574055-48574111
Coord A exon
chr12:48572502-48574054
Coord C2 exon
chr12:48572372-48572501
Length
1553 bp
Sequences
Splice sites
5' ss Seq
CAGGTATAA
5' ss Score
7.46
3' ss Seq
GTGTGTGTGTTCTCCTGCAGGTC
3' ss Score
13.26
Exon sequences
Seq C1 exon
GTGAAGGCCTGACGAATGAGGAAATCAAAGCCCATGCAGATATGTTCATGTTTGCAG
Seq A exon
GTATAATCTATGTGTGTGTGTGTTTATGTGTGTGCATCTATTTGTCTGAGTGTCTGTGTGTGCATGTGTGTGTTTTTGCGCGAGTGTAGTGTGTGTGTGGTTGTGTGTTTATTTATTTATTTTTTTAAGATTTATTTTTGGCCTTTTTTAGATAGGACAGTATTTAGACCGGAAGCAAAGTTGGAGAGAGAGTGAGGGGGTGGGGAAATGTCCTCGAGCCGGGATTCGAACACGGGACGCCCTGACGTGCTACTGCACCATATGTCTATGCGCTAACCACTACTGCACCGACGTGGTTGTGTGTTTATGTGTGAGTGTGTCGGTCTGTCTGTCATTAACACTCAAACAGCTTAACATAGGCGTCTCTGAAACTCTGAATATTTCAGTTTAATTTTATTTAGGCTAGATTATTATTTTATTTAACAAACCAGATCGCGTTTTGGCGCTGAAGCATATAGCAGACTTGTTTTGAAGCATTTCACCTCAAGTGTTATACGTTCTTCTTTTTTATATAGTAGATAACTGACCAATAATTTATATTTAAATTAAAACACAAATTATACCAAACGAAATTCATTTCAAAAAGATATTTTTTCCCAAGAAAAATATACGAATTATATACATTTTTGAGCCGTCCACTACTCAGCTGTGCAGTGANNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNTGTGTGTGTGTGTTTATGTGTGTGCATCTATTTGTCTGAGTGTCTGTGTGTGCATGTGTGTGTTTTTGCGCGAGTGTAGTGTGTGTGTGTTTGTGTGTTTATTTATTTATTTTTGGCCTTTTTTAGATAGGACAGTATTTAGACCGGAAGCAAAGTTGGAGAGAGAGTGAGGGGGTGGGGAAATGTCCTCGAGCCGGGATTCGAACACGGGACGCCCTGACGTGCTACTGCACCATATGTCTATGCGCTAACCACTAGGCTACTGCACCGATGGGGTTGTGTGTTTATGTGTGAGTGTGTCGGTCTGTCTGTCATTAACACTCAAACAGCTTAACATAGGCGTCTCTGAAACGCTGAATATTTCACTTTAATTTTATTTAGGCTAGATTATTATTTTATTTAACAAACCAGATCGCGTTTTGGCGCTAATATGTCATAATTTTAAAGATCACGTCTTGAGCATCTGATTTTTCCAAGGTGCTGATGTGCTTTCATTTTCTCCGTCCCACTCTCAGCAAGTTCAGGTGAAGGAGTGTTTAATAAGCAGCCCTGGCTGGAAAATATACATTTAGATTTCAAGAAAATATATTAGTATTAAAAAGGAATCATCAAGTTTGATCCTATCAATGTCGTAGCGAATGCCCTTAAATAATGTGGCCTTTACAGCAAGCATCAGCGTTTCTTGAGATTGAAATAAGAATAAGATGTGATGGGGCAGGCGGTGCTGGATATGTGCATACCGTAGAATAAAATCCTGCAGGTTTGCGTATGAGTCTGTGTGTGTGTTCTCCTGCAG
Seq C2 exon
GTCATGACACCACCGCCAGCGCTCTCTCCTGGATCTTCTACAATCTGGCCATGAATCAGGATTATCAGGAGCGCTGCCGAGCTGAAGTCAGAGATCTGCTGGCAGACAGAGACACACACACCATCGGGTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000053530:ENSDART00000063442:9
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.200 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0006717=p450=FE(4.0=100)
A:
NA
C2:
PF0006717=p450=FE(9.1=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:
GTGAAGGCCTGACGAATGAGG
R:
CCGATGGTGTGTGTGTCTCTG
Band lengths:
184-1737
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]