DreINT0054104 @ danRer10
Intron Retention
Gene
ENSDARG00000033566 | cyp17a1
Description
cytochrome P450, family 17, subfamily A, polypeptide 1 [Source:ZFIN;Acc:ZDB-GENE-040213-2]
Coordinates
chr13:28478921-28480515:-
Coord C1 exon
chr13:28479839-28480515
Coord A exon
chr13:28479060-28479838
Coord C2 exon
chr13:28478921-28479059
Length
779 bp
Sequences
Splice sites
5' ss Seq
ACTGTAAGT
5' ss Score
8.59
3' ss Seq
TTTCTACGATTGTCTTCTAGGTT
3' ss Score
11.12
Exon sequences
Seq C1 exon
GTGGCAGTGTGCTGATTTTTTTAAAATTTTATTTAGCCATATATAGACCCACCACAGACCTTTACAAGGATTTAAAGCAAAACATTGATGATATCATTCTAATACAGGGTCTGCAGAGTTTAAGTGGCCGATTGTGCTCACACAAGCATCTCTGAATATGAGGAAACGATCAACAGCTCTGTTGAAAACAGCCTCCCTGACACTTAGATAGTTGAAGCTGAACTGTTTCAGGGTCAAGGAGGTGGCATTGAAGGATCTGCATAAAAGTCTCCTGTCGGCTCGCTAACACAGGCAGTGCTGTTCAGAAGAGCTGGAGGACACTCAGTTGAATATAGCTGACAATGGCTGAAGCACTCATCCTGCCCTGGCTGCTCTGTTTAAGCCTGTTCTCCGCAGTGACTCTGGCAGCTCTGTATCTCAAACAGAAGATGAATGGATTTGTGCCAGCAGGAAATAGATCTCCTCCAAGTCTCCCTTCACTGCCCATCATCGGGAGTCTGATGAGCCTGGTGAGCGACAGTCCTCCGCACATCTTCTTTCAGGACCTGCAGAAGAAATACGGAGATCTGTATTCCCTCATGATGGGCTCCCACAAACTGCTCATTGTGAACAACCACCATCATGCGAAGGAGATCCTGATCAAAAAAGGAAAAATATTTGCAGGGAGGCCACGGACT
Seq A exon
GTAAGTACATACAATCACATTCAGTTTAATTAGCCATTTTTAGCTGTTTAAATTTTGTTAATTTAAATATGGCCCATCTGCATATGGTTAAACTAAATTTACATATTCATTCATTCATTCATTTCTTTTTGGCTTAGTCCCTTTATTAATCAGAGGTCGTCAGAGCAGAATGAACTGCCTAAATCTGTATATTAAATACCATTAAACATATCATTCAATTGTAAGAATATTTCACATTAATGTGATTTGTTTTTTTTACTAAATATGAACTTAGTGTAAACTCACCCAAAAATAAAAGATTTACTTATCCTGAATTGGTGCCAAACCTTAATGAGTTTCTTTCTTCTATTGAACATAAAGGAAGATATTTTGAAAGAAGCTGAAAAAGGATCTCCATAGTAAATCCAGTTTCTAACATGCGTCACATTTTTTGTGTGTTAAAAAGATGAAAGAAACTGGTCAATCAGGTTTGGAGCAATGTAAAAAATGCTGAGTTCCACACAATTCCTTCATGTTTTGCCAACACATATCGATTAGGTTAACCCAATAGTTTTTACAAATTTAGGTAGATTGAACATAAGAGCTAAGTTGCCCCCAAAATAAACCCTTAAGAATTGTGATGTTTCAACTCATTTTAATAAGTAGTTTAAACAAGCAGCAACATTTATTTTTTAAGTGAATGAGGGGAGGAAGAGTACATGATTTTTGGGTCAACATTACCTTTAATTTTCAATGAAAATGTATTTTCTTTACTGAGACTTTCTACGATTGTCTTCTAG
Seq C2 exon
GTTACAACAGACTTGTTAACTCGAGATGGGAAAGATATAGCGTTTGCTGACTACAGTTCCACATGGAAGTTTCACCGCAAAATGGTTCATGGAGCTCTTTGCATGTTTGGAGAAGGTTCAGTTTCTATTGAGAAGATAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000033566:ENSDART00000043156:1
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(15.3=63.4)
A:
NA
C2:
PF0006717=p450=FE(9.9=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGGATTTGTGCCAGCAGGAAA
R:
TGCAAAGAGCTCCATGAACCA
Band lengths:
347-1126
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]