DreINT0054414 @ danRer10
Intron Retention
Gene
ENSDARG00000053530 | cyp4f3
Description
cytochrome P450, family 4, subfamily F, polypeptide 3 [Source:ZFIN;Acc:ZDB-GENE-070410-108]
Coordinates
chr12:48574055-48575593:-
Coord C1 exon
chr12:48575283-48575593
Coord A exon
chr12:48574112-48575282
Coord C2 exon
chr12:48574055-48574111
Length
1171 bp
Sequences
Splice sites
5' ss Seq
CTCGTCACG
5' ss Score
-11.98
3' ss Seq
CTTCTTCCAGGATGATAAAGGTG
3' ss Score
-2.21
Exon sequences
Seq C1 exon
GAAGCCCCGTCAGTATATCTCTGCTATCCTGGATCTGTCTCGTCTGCTGGTCCAGCGTCAGCACTATCTGCCGTATCACTGGGACTGGCTGTACTGGCGCTCTGCTCAGGGTCGTCGCTTCCAGCAGGCCTGCGCCGTCGTCCACCAGTTCACCGCAGACATCGTGCAGGAGCGCCGAACGCAACTCGACCAGCAGAGCGACCCAGAATCACATCCAGAAAACACTGGACGATACAGGAAGAGGAAGAACACAGACCTCATAGACCTGCTGCTGCTGGCCAAGGCAAGAACACACTCATCACTAAACACTC
Seq A exon
GTCACGTCTCTGCTGCAATCATTTCAGCAAAAATACTCAAAAAATATGAAAATATATTGTAATTCAATATGGCTGGTTACTATGGGGATATATAATAATGTGCAATTTATATTTGTGAGGTAATGCTGAATTTCTTAGCATCGATACTGTGGTCTGTAGTGTCACCTGATCCTACAGAAATCAGTATAATGTGCACAAAAATACAGGAAAGATTGTGATATATTATTAGAATTGAAATTAACTGGTTTCTGTGGGAATATATAGATATGTGTAATTTGAATTTGTGATGTAAAGCTGAATTTTTAGCATCATTACTGCAGTCTGCAGTGTAAAAATAATCCTTCAGAAATCAGTAGGCCTATATGATGACAAATTAAAAACATAAGGTACAACATAACATATAAACAAACTATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATAGNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNCAAATAATTAAATAAATGAAAAAAAGTGCGACTGCTGCATTCTCCGTTGGCCATGCTGGAGAGGAACAGTCTGCGCAAATAGAGCGCAGAGTGGGTGTCCTTGACTACAGCTCTCCTCTGATTGGCTGAAAGGTACGAGTTGCCTTGACTCTGGCAGGAAAGTCTCAATAATACACACACACGTATCCAGGGGGAGCCGTACGTGAAAGAGGATTTGCACATTCTCATTCATGATGAACTCGCAAGTTTTAAACATTTAAAACTTTTTGTACACTCCTATACATTTGCAAATGGTATTTTGCATTTGTGAAACATATTTTATGAAAATGTATTTTAATTTTGAGCACGTGAACATTTTTTGTGAATATAAATAAATATTTTACGCACGTGAATTTGGTTTTATGCGTGTGAATTTGGCTACGCATGTGTACATCGTGTCTTTTGCGTGAATTACTTTTGAGTCTTATCTGTCTCCATAGCCTACAGTGTGTGTATATATATATATCTTCAGTTTCACTCTGATTCTCAGAGCTGACAGAACTATGAGCAGTGTGTGTGTGTGTGTGTGTGTGTGTGCTCTTCTTCCAGGATGATAAAG
Seq C2 exon
GTGAAGGCCTGACGAATGAGGAAATCAAAGCCCATGCAGATATGTTCATGTTTGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000053530:ENSDART00000063442:8
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=0.200
Domain overlap (PFAM):
C1:
PF0006717=p450=FE(22.0=100)
A:
NA
C2:
PF0006717=p450=FE(4.0=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCCCCGTCAGTATATCTCTGC
R:
TGCATGGGCTTTGATTTCCTCA
Band lengths:
346-1517
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]