GgaINT0020661 @ galGal3
Intron Retention
Gene
ENSGALG00000002722 | E1C8A1_CHICK
Description
NA
Coordinates
chr12:2306397-2306734:+
Coord C1 exon
chr12:2306397-2306467
Coord A exon
chr12:2306468-2306592
Coord C2 exon
chr12:2306593-2306734
Length
125 bp
Sequences
Splice sites
5' ss Seq
CAGGTAGGA
5' ss Score
9.79
3' ss Seq
TGACCCTGGCTTCACCTTAGGCC
3' ss Score
7.51
Exon sequences
Seq C1 exon
GACCGCCAGCACCTCCACCATGCCGGCCCGGCTGGGCCTGCTGCTCTCCCTGGCTGTGGCCCTGAGCGCAG
Seq A exon
GTAGGACGCGGGCAGGCAGCGTGGGGCCGGAGGGCGTAGGACGGTATGGGGGGGCCCGGGACGGGGGTGCTCAGGAAGCTGTGGCCGTGTGGGTGTGGGACACGCTGACCCTGGCTTCACCTTAG
Seq C2 exon
GCCACCGCTCGCCCCTCAACGACTTCCAGCGCCTGCGCGGCACCGAGCTGCGGGCAGCGCCCAACGAGCCCCCACCGTCTGCACCGGCGCACGGCGCGGCCCAGCAGTGCGCCCAGCGCTGTGCCAACAGGCCGGACTGCCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000002722:ENSGALT00000004292:1
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=0.583
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0002421=PAN_1=PU(51.2=87.5)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CAGCACCTCCACCATGCC
R:
CTGTTGGCACAGCGCTGG
Band lengths:
195-320
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]