DreINT0054289 @ danRer10
Intron Retention
Gene
ENSDARG00000026548 | cyp2u1
Description
cytochrome P450, family 2, subfamily U, polypeptide 1 [Source:ZFIN;Acc:ZDB-GENE-070730-1]
Coordinates
chr1:49285725-49288214:-
Coord C1 exon
chr1:49287684-49288214
Coord A exon
chr1:49286379-49287683
Coord C2 exon
chr1:49285725-49286378
Length
1305 bp
Sequences
Splice sites
5' ss Seq
AAGGTACGT
5' ss Score
10.75
3' ss Seq
TATAAGTTTGTTGTGTGCAGGGA
3' ss Score
6.13
Exon sequences
Seq C1 exon
AAGATGTGTTTGATCAGCAGATAGCGGTTATTGATTAGGAGGAACTATGCGTCTGTTTTAATCCATCAGTGGATTTGAGAAGTGCGCCAGTCATGGACGTATCAGCGGGTCTGTTGTTAGAGTATGTTTTCTCGCCTGCAAACATAGCAGGTTTGATAGCGTTCGTACTGGTTTTCTATGTGCTGCAAGAGTACCAGTGGCATCAGACATACGCCAACATCCCTCCGGGTCCAAAGCCATGGCCCATCGTGGGCAACTTCGGGGGCTTCCTCGTGCCACCTTTCATTTTAAAACGCTTCGTGAAGAACAGCAAAGAGTTCGCGAAGGTGGTGTCGAACCCGCTTTCTCCTCAGGCTGGACTCATAGAGATGTCCAAACTGTACGGGAACATATTCAGCATTTTCGTCGGGCCTCAGCTCATGGTGGTGCTGACGGGATACGACGCGGTGCGGGACGCGATGCTCAACCACACGGAGACGTTTTCTGACAGACCGCACATACCGCTCGTTACTATTATCACCAAGAGGAAAG
Seq A exon
GTACGTTACCATAAACAGTTTAGTTAATGATAATAGATCACAGTAGATTAGATTAGAATGGATTGGTACAAAAAAAAAAAAATCACACTTAACAATATGGTACAATCTGCAAATGTATTTGCTAACACAAACCAATACAGAAGAATACAATATTAAGGTAAAGTTGGTTTTATATTTGCACATTCATTCATTTTTGAACAGTGACAACTTGTGACATGCTTCCTATTTTATTAACCAAGCTGCTTCTAATATTCAGTCTAAAAATTGCATGCAAGTATGACTTCAAAACAATAATAGCGTTATTTAATAGACTGTGAACAATGTTGTAGGCTACTTTGGTAGTCAATAGCTGCTAATGTGATTTCACAGTGCTTTTCTGAAATTATATTATTAAGGAGAAACTCAGAACGTGTACATATGAAACCTCATTTACCTCAGTGAATACATTTAGTGTTTACACAGCTTTGTTAACCTCAGTTATTCATAACAAATGAAGAGTTCAGATGCAAAACCTACCTTCATACCCTTACAGTTTATATTTTACTAAGTAAATATAAATCTGACTTTACCTTAATGTGCTGTCCCTTTATTTATAGTTTAACATTTTCTTATGCATTATTAAAATCCAATGTTGCGCTTGTTAACAGCACACACATCTTAAGTCAGCTTAACGCAAGCGCTTTAATAGTCAAATAGGTGTCCAATTGCTGTGTTAAGGGATTATTCATATTGTTGACACCAAATTCTGACCCTACCATCTGAATGTCTCATTAGACCTCCAATCCAATCTTCTGTTGTGCAATTTTGGTGAGCCTGAGTGAATTAAAGCCTGAGTTTCCTGTTCTTAGCTGACAGGAGTGGCACCCGGTGTGGTCTTCTGCTGCTGTAGCCCATCCGCCTCAGGGTTGGATGTGTTGTGTGTTCAGAGATGCTCTTCTGCAGACCTCGGTTGTAACGAGTGCTTATTTGAGTTACTGTTGCCTTTCTATCGAAGCAGGTCAAAGTCATTTAAGTCATCTTTCTTCCTCATTCTGACCATGTCTACATGCCTAAATGCATTGACTTGCTGCCATGTGATTGGCTGATTAGAAATTTGCATTAATGAGCGGTTGGACAGATGTACCTAATAAAGTGGCCGTTCTGTGTATATATCATAGTTTGACTTGGCTGAACGTATTTACACTTAAAAATGGTGCTTAAAAATCTAGATTGGAACCCTAGTTATAGTATGAATTATACGCTAAATAAAAAGTGACCCAAAATTGTTTACATAATAATGTTAAAATATAAGTTTGTTGTGTGCAG
Seq C2 exon
GGATTGTATTTGCGCCGTACGGCCCGCTGTGGCGAACCAACCGCCGGTTCTGTCACAGCACTCTGCGCAGCTTCGGCTTCGGCAGGATGAGTCTGGAGCCCTGCATCCATGAAGGCCTGGCCATCATCAAAACCGAGCTCCAGAGCCTCATCGAGACAGCAGGCCCTTCTGGCATTGATCTGACTCCGCTCATCAGCAATGCGGTCTCCAACATCATCTCCTTAATGAGTCTGGGTCAGCGCTTCCACCATGAGGACAAGGAGTTTCGAAACATGCGGGATCTCATGTCCCACGGCCTGGAGATCAGCGTCAACACCTCCATTCTGCTGGTCAATGTGTTCCCCTGGCTCTACTATCTGCCATTCGGTGTCTTCAAGGAGCTGCGACGAGCCGAGCTTGACATTACAGCCTTCCTGAAGAGGATCATCGCGAGGCACCGAGCCACACTGGATCCGGAGAATCCCAGGGACTTCATCGATATGTATCTGGTGGAGATGCTGGCCAAGCAGAAAGAAGGCAGTTCAGAGGAAAACCTGTTCTCCGAGGATGATCTCTTCTACATTATTGGAGATCTCTTCATTGCAGGAACCGACACGACGACTAATAGCATGCTGTGGAGCATTCTCTATATGTCTTTGTATCCTGATGTGCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000026548:ENSDART00000048281:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0006717=p450=PU(14.1=42.9)
A:
NA
C2:
PF0006717=p450=FE(48.8=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:
AAAGAGTTCGCGAAGGTGGTG
R:
TCGGTTTTGATGATGGCCAGG
Band lengths:
356-1661
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]