GgaINT0020663 @ galGal3
Intron Retention
Gene
ENSGALG00000002722 | E1C8A1_CHICK
Description
NA
Coordinates
chr12:2306805-2307108:+
Coord C1 exon
chr12:2306805-2306917
Coord A exon
chr12:2306918-2306993
Coord C2 exon
chr12:2306994-2307108
Length
76 bp
Sequences
Splice sites
5' ss Seq
AAGGTGGGG
5' ss Score
5.87
3' ss Seq
CGGTGCCGGGTGCTCCCCAGACT
3' ss Score
5.69
Exon sequences
Seq C1 exon
GGCCTTCCACCACGAGCGGCAGAGCCAGCTGTGCCAGCTGCTGCCCTGGAGCCAACGCTCGCCCGGCGCCCGGCTGCAGAAGAACATCCACTACGACCTGTACCAGAAGAAAG
Seq A exon
GTGGGGCTGGCACCGTGCCCGGGCGCGGGGCTCGCACTGCCCGCACGGCTCTGACGCGGTGCCGGGTGCTCCCCAG
Seq C2 exon
ACTTCCTGCGGGAGTGCATCGTGGCCAATGGCACCAGTTATCGTGGCACGCGGGACACGACGGAGCGTGGCCTGCGCTGCCAGCACTGGCAGGCCACCACGCCCCACGACCACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000002722:ENSGALT00000004292:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.026 A=NA C2=0.205
Domain overlap (PFAM):
C1:
PF0002421=PAN_1=FE(46.3=100)
A:
NA
C2:
PF0002421=PAN_1=PD(1.2=2.6),PF0005113=Kringle=PU(42.9=84.6)
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:
CTTCCACCACGAGCGGCA
R:
GTGCCACGATAACTGGTGCC
Band lengths:
159-235
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]