GgaINT0117953 @ galGal4
Intron Retention
Gene
ENSGALG00000011894 | CYP2D6
Description
cytochrome P450 2D3-like [Source:RefSeq peptide;Acc:NP_001182486]
Coordinates
chr1:49271206-49272240:+
Coord C1 exon
chr1:49271206-49271393
Coord A exon
chr1:49271394-49272098
Coord C2 exon
chr1:49272099-49272240
Length
705 bp
Sequences
Splice sites
5' ss Seq
AAAGTGAGT
5' ss Score
8.4
3' ss Seq
CCTCTTGTGAATGAGTGCAGGGG
3' ss Score
-0.21
Exon sequences
Seq C1 exon
GTAAAGTCCACAAAGAGATTGATAAGGTGATTGGAAGAAACCGACCGCCCACCATGGCAGACCAAGTGAACATGCCCTACACCAATGCCGTCATCCATGAAGTACAACGCTTTGGGGACGTTGTTCCTATGGGACTACCTCACATGACATACCGGGACACTGAGCTTCAAGGTTTCTTCATTCCCAAA
Seq A exon
GTGAGTGTGCCAGGACAGCCAATGCAGCAACATTGCTCCAGGAAGAGTCCAGGCCTGGTGTGACCCCACACAACTCTGCAGCTTTGTCCCTCCTGCCTCAAAGCACAGTCGTGGTGAACACTGAAGCAGGAATTTTGAAATACTAAGATTACACAGATGGTCCCACTTGCACTCTGGTATACACTGCTTATGCCGGAATCAACTGCAGAGGCATCTCAGGAGCTCTCTCCCCTGGCAGTGCTGGCTGTAATGCAGGCCTGAGATGTTTTTTAAGTCATGCAATGATTCCCTGAAGTTTAAAATATAAGCTTTGAGGTTTTCCATATCCCATGCAAAGGTTGGGCTTTGAAGTCTGTTAGCTTTTTCTTTCCAGCTATAAAATAAGTCCAGGGGGATCTAAGAAGCAGAGGCTGTTTGCACTCTGTAACCATGAAATTGGCATTTGCATGGAGCAGCCTTTGTAAGAATACAAAATTACCAACGCTGTGTGAGCATAGGCAGGCAGCATGTGTTACTGGAAAAGTGCGACTGCTTCACCTCTGTTTTCAGTAAGATCAAGAAGAGCTTGGTGCCTTATTCTGAAGCACCTAATAATGACTGCATTAGGTGGGAGAGACTGACTGAAGAGGGACCAGCACTTATCTGTCATGCTAAGATAATTCTGTGGTTCTCACATAAGTTGTTTCCTCTTGTGAATGAGTGCAG
Seq C2 exon
GGGACGACAATCATCACCAACTTGACTTCAGTACTTAAGGATGAGACGGCCTGGAAGAAGCCAAATGAATTTTACCCTGAACACTTTCTGAATGAGAATGGGCAATTTGTGAGACCAGAGGCCTTCTTGCCCTTCTCTGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000011894:ENSGALT00000019412:7
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.095 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0006717=p450=FE(13.5=100)
A:
NA
C2:
PF0006717=p450=FE(10.2=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Human
(hg19)
No conservation detected
Mouse
(mm9)
No conservation detected
Cow
(bosTau6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGTCCACAAAGAGATTGATAAGGTGA
R:
CTGCAGAGAAGGGCAAGAAGG
Band lengths:
326-1031
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]