GgaINT0022367 @ galGal3
Intron Retention
Gene
ENSGALG00000002521 | F1P543_CHICK
Description
NA
Coordinates
chr12:2270010-2270360:-
Coord C1 exon
chr12:2270270-2270360
Coord A exon
chr12:2270152-2270269
Coord C2 exon
chr12:2270010-2270151
Length
118 bp
Sequences
Splice sites
5' ss Seq
CAGGTAGGA
5' ss Score
9.79
3' ss Seq
CCCGCGCGCTCACATCTCAGGGC
3' ss Score
8.1
Exon sequences
Seq C1 exon
GCAGCTCTTCTGTGACTTCGGGGAGCACTTTGTTGTCCGTGACCCGGTGGAAGGGGACCCGCTCTGTGCCACCGTGCAGCACGTCTCCCAG
Seq A exon
GTAGGAAGCTCTGCGGTTGTCCCTGCCAAGCGTGGTGGCTTTCCAGCTCCATGTCTCTGACCCAAACTGCTTTGATGCCTCGTGCTGCCTGGATTGAACCCGCGCGCTCACATCTCAG
Seq C2 exon
GGCAACCCGGGGATCGTAACCTGCGCAGGGGCAGACAAGAACCGCGGCCACCGCTTCAGTGACGGTGACCTGGTGGTGTTCTCTGGTGTGGAGGGCATGGTGGAGCTGAACAGCAGCGAGCCCTGCCCTGTACACGTGCTGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000002521:ENSGALT00000003973:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.065 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0089916=ThiF=PD(6.4=19.4)
A:
NA
C2:
NO
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:
GCAGCTCTTCTGTGACTTCGG
R:
CAGCACGTGTACAGGGCAG
Band lengths:
232-350
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]