GgaINT0022374 @ galGal3
Intron Retention
Gene
ENSGALG00000002521 | F1P543_CHICK
Description
NA
Coordinates
chr12:2268487-2268888:-
Coord C1 exon
chr12:2268733-2268888
Coord A exon
chr12:2268653-2268732
Coord C2 exon
chr12:2268487-2268652
Length
80 bp
Sequences
Splice sites
5' ss Seq
GGGGTGAGC
5' ss Score
5.97
3' ss Seq
CCCGGCTCTGTGCCCCGCAGAAG
3' ss Score
9.16
Exon sequences
Seq C1 exon
GTGGGAGCCGGCGCCATCGGCTGCGAGCTGCTGAAGAACTTTGCCATGATGGGGCTGGCAGCGGGGCCGGGCGGGGACATCACCGTCACCGACATGGACACGATCGCACGCTCCAACCTGCACCGGCAGCTTCTGTTCCGTGAGGCTGACGTGGGG
Seq A exon
GTGAGCTCCCAGCAGGGGGAGACCTGGGCAGTGCGGGGATGTGAGACAGGAGAGAGCCGTCCCGGCTCTGTGCCCCGCAG
Seq C2 exon
AAGCCGAAGGCGGAGGTGGCTGCAGCCGCTGTGCGGCTCATCAACCCGGACATCAAAGTGACAGCGCACCAGGCTCAGCTGGGCCCCGGCACCGAGAAGCTCTTTGGGAGCACCTTCTTTCGGCGGCTGGACGGCGCTGTCAGTGCCCTGGACACGCTGACGGCCC
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000002521:ENSGALT00000003973:10
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=FE(35.2=100)
A:
NA
C2:
PF0089916=ThiF=FE(37.9=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:
GTCACCGACATGGACACGATC
R:
CTCCCAAAGAGCTTCTCGGTG
Band lengths:
182-262
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]