GgaINT0043515 @ galGal3
Intron Retention
Description
NA
Coordinates
chr6:24519041-24519237:-
Coord C1 exon
chr6:24519211-24519237
Coord A exon
chr6:24519140-24519210
Coord C2 exon
chr6:24519041-24519139
Length
71 bp
Sequences
Splice sites
5' ss Seq
AAGGTACGG
5' ss Score
10.26
3' ss Seq
GTGCATCCTGTCCACCACAGACC
3' ss Score
8.18
Exon sequences
Seq C1 exon
TGCCTGCAGAAGGGCAAGAACAACAAG
Seq A exon
GTACGGCCATCACCGGGCAGTGAGGGCCCCGTGGTGTTCCCAGGCACTAATGTGCATCCTGTCCACCACAG
Seq C2 exon
ACCGAGTGCTTCAACCACGTGCGGTTCCTGCAGAGGCTGAACACCACGCACCTCTACGCCTGTGGCACCTATGCCTTCCACCCGCTCTGCGCTTCCATT
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000007852:ENSGALT00000012749:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0140314=Sema=PU(7.1=88.9)
A:
NA
C2:
PF0140314=Sema=FE(28.6=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:
CCTGCAGAAGGGCAAGAACAA
R:
AGAGCGGGTGGAAGGCATAG
Band lengths:
113-184
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]