GgaINT0138212 @ galGal3
Intron Retention
Gene
ENSGALG00000007340 | F1NC10_CHICK
Description
NA
Coordinates
chr24:5618006-5618288:-
Coord C1 exon
chr24:5618245-5618288
Coord A exon
chr24:5618172-5618244
Coord C2 exon
chr24:5618006-5618171
Length
73 bp
Sequences
Splice sites
5' ss Seq
CAGGTGGGT
5' ss Score
8.56
3' ss Seq
GAGCCCCGGCCCTCCTGCAGCCT
3' ss Score
5.08
Exon sequences
Seq C1 exon
GAGCAGCTGCGAGTCGGGCCGTGTTGTGGCCCTGCAGTGCTCAG
Seq A exon
GTGGGTGGCCCCCTCTTTGCATACCCTGCGGCCTCCAGACCCTCGTGCCCACTGAGCCCCGGCCCTCCTGCAG
Seq C2 exon
CCTGCGGGCAGCAAACGGCACCGGGGGGCCGCGTGGTGGGGGGCGTGGATGCTGCCCCGGGGCGCTGGCCATGGCAGGTGAGTGTCCGCCACGGCTCCCGGCACCGCTGCGGTGGCTCCGTGCTGGCACCGCGCTGGATCGTCACCGCCGCCCATTGCGTGCACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000007340:ENSGALT00000011874:5
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=0.036
Domain overlap (PFAM):
C1:
PF154941=SRCR_2=FE(16.0=100)
A:
NA
C2:
PF154941=SRCR_2=PD(5.3=8.9),PF0008921=Trypsin=PU(23.8=78.6)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Human
(hg38)
No conservation detected
Rat
(rn6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTGTTGTGGCCCTGCAGTG
R:
TGACGATCCAGCGCGGTG
Band lengths:
168-241
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]