GgaINT0022365 @ galGal3
Intron Retention
Gene
ENSGALG00000002521 | F1P543_CHICK
Description
NA
Coordinates
chr12:2270486-2270833:-
Coord C1 exon
chr12:2270657-2270833
Coord A exon
chr12:2270593-2270656
Coord C2 exon
chr12:2270486-2270592
Length
64 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGT
5' ss Score
10.67
3' ss Seq
CCACTGACAGCCCTGCGCAGGTG
3' ss Score
0.86
Exon sequences
Seq C1 exon
CCCCATCGGTGCCCCCAGGCCACGAGTGCCGCTGCCCCACAGTTCCTCCAGGGGGAGCGCGGTGTGGGCCGGAACCGTGCTGAGGTGTCCCAGCAGCTGCTGGCCGCACTGAACCCTGATGTGGAGGTGTCGGTGCACCCCGGGGAGCTGTCGGAGGAGTTCCTCGCTGCATTCCAG
Seq A exon
GTGAGTCTGGCCCCCAGCCCAGGAGTGCCGTGGGGCTCCAGTGCCCACTGACAGCCCTGCGCAG
Seq C2 exon
GTGGTGCTGCTGACCGAGTCCCCGCTGGAGGAGCAACTCCGTATCGGGGACATCTGCCATGCCAAGGGTATCTGCTTCATCGTGGCCGATGCCAAAGGGCTGGCAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000002521:ENSGALT00000003973:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.085 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0089916=ThiF=PU(54.3=86.4)
A:
NA
C2:
PF0089916=ThiF=FE(37.2=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGAACCCTGATGTGGAGGTGT
R:
CAGATACCCTTGGCATGGCAG
Band lengths:
142-206
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]