GgaINT0016676 @ galGal3
Intron Retention
Gene
ENSGALG00000003075 | SLC34A1
Description
NA
Coordinates
chr13:10213284-10213762:+
Coord C1 exon
chr13:10213284-10213466
Coord A exon
chr13:10213467-10213633
Coord C2 exon
chr13:10213634-10213762
Length
167 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGG
5' ss Score
10.07
3' ss Seq
CTCTCTCTTGTCTTGCGCAGAGC
3' ss Score
10.85
Exon sequences
Seq C1 exon
CTCTGCACAGGCTGCCGGGTGCCCACGCCTGCCCCTTCGCCGTGGGAGCAGTGAGCTGCCCTGACCATGGCTTCCTGTGCCCTGGCTCCCCGGGGCGACTGGTGGAGAGCCGGGAGCGCTACGAGCTGGATGCACTGCCCTGGCAGGGGCCCCGCCTGGGCTTGGAGGAGCTGCAGAAGCCAG
Seq A exon
GTGAGGTCCTCAAGCACTGCACCAAGCAAGGAGGGCAGCGGGTGTGGAAGATGCTCAGTGCCCCGTGGTGCTGCAGGGAGAGCAGAAGGAGGTGGAGGGGACCCACGGACATGGCCGGGCATGCGGACACGTGCCCGGCGTGTAACACTCTCTCTTGTCTTGCGCAG
Seq C2 exon
AGCTGGGCTGCTGGGTGAGGGTCCAGTCCATCTGTGTCTCCCTTCTCAAGGTGCCTCTGATGTTTGGCTTCCTGTACCTCTTCGTCTGCTCCCTGGACGTGCTCAGCTCTGCTTTCCAGCTGGCCGGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000003075:ENSGALT00000004859:2
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:
NO
A:
NA
C2:
PF0269010=Na_Pi_cotrans=PU(11.8=38.6)
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:
CTGACCATGGCTTCCTGTGC
R:
CAGCTGGAAAGCAGAGCTGAG
Band lengths:
245-412
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]