GgaINT0022373 @ galGal3
Intron Retention
Gene
ENSGALG00000002521 | F1P543_CHICK
Description
NA
Coordinates
chr12:2268733-2269036:-
Coord C1 exon
chr12:2268956-2269036
Coord A exon
chr12:2268889-2268955
Coord C2 exon
chr12:2268733-2268888
Length
67 bp
Sequences
Splice sites
5' ss Seq
GTGGTGAGC
5' ss Score
6.64
3' ss Seq
GCAGCGGCTGTGCCTCGCAGGTG
3' ss Score
5.47
Exon sequences
Seq C1 exon
AGGGGGTCCCGCTACGACGGGCAGATTGCCGTGTTCGGGGCCGACTTCCAGGAGGAGCTGGGCCGCCAGAAGTACTTCGTG
Seq A exon
GTGAGCAGCGTGCGGGCGGTGGCGTGGCACAGCTGGGGCGTTGGGGTGCAGCGGCTGTGCCTCGCAG
Seq C2 exon
GTGGGAGCCGGCGCCATCGGCTGCGAGCTGCTGAAGAACTTTGCCATGATGGGGCTGGCAGCGGGGCCGGGCGGGGACATCACCGTCACCGACATGGACACGATCGCACGCTCCAACCTGCACCGGCAGCTTCTGTTCCGTGAGGCTGACGTGGGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000002521:ENSGALT00000003973:9
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:
PF0089916=ThiF=PU(4.1=22.2)
A:
NA
C2:
PF0089916=ThiF=FE(35.2=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:
GCCGCCAGAAGTACTTCGTG
R:
GTCAGCCTCACGGAACAGAAG
Band lengths:
170-237
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]