GgaINT0030092 @ galGal3
Intron Retention
Gene
ENSGALG00000003014 | F1NWY0_CHICK
Description
NA
Coordinates
chr10:4565046-4565300:+
Coord C1 exon
chr10:4565046-4565185
Coord A exon
chr10:4565186-4565255
Coord C2 exon
chr10:4565256-4565300
Length
70 bp
Sequences
Splice sites
5' ss Seq
GTGGTGAGT
5' ss Score
8.95
3' ss Seq
GACACGCCTCTGTTTTACAGGAC
3' ss Score
8.89
Exon sequences
Seq C1 exon
GCTGCGGCGGCTCCGAGCCCGAGCACCGGCTGTACGCGGCCCTCTTCAAGAACTACAACCAGTTCGTCCGCCCGGTAAAGAACGCCTCGGACCCCGTCATCATCCAGTTCGAGGTGTCCATGTCCCAGCTGGTCAAAGTG
Seq A exon
GTGAGTGCTCGGCCCCAAGGGGCGCCCGCGGGAGGCCCGGCGCCGCGCCCGACACGCCTCTGTTTTACAG
Seq C2 exon
GACGAAGTCAACCAGATCATGGAGACCAACCTGTGGCTGAAGCAC
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000003014:ENSGALT00000004759:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0293118=Neur_chan_LBD=PU(18.8=83.0)
A:
NA
C2:
PF0293118=Neur_chan_LBD=FE(6.8=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CGCGGCCCTCTTCAAGAACTA
R:
GTGCTTCAGCCACAGGTTG
Band lengths:
151-221
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]