GgaINT1024322 @ galGal4
Intron Retention
Gene
ENSGALG00000009060 | SAPCD2
Description
suppressor APC domain containing 2 [Source:HGNC Symbol;Acc:HGNC:28055]
Coordinates
chr17:382056-382828:+
Coord C1 exon
chr17:382056-382123
Coord A exon
chr17:382124-382694
Coord C2 exon
chr17:382695-382828
Length
571 bp
Sequences
Splice sites
5' ss Seq
AAGGAAAGT
5' ss Score
2.81
3' ss Seq
TATGCTTTCTTCTGTTGCAGGTA
3' ss Score
12.81
Exon sequences
Seq C1 exon
ACCACAGGCATGGAGCTTCTGGTGTGCGTCATCTCCTCGGACAACGGACACACATCTGGGTGGGGAAG
Seq A exon
GAAAGTGTTTGCTCTGAAATGAGCTGGTCTGCTCTTCTTGGCCACCTCCGGAGCAGGCTCCTTGTGAGAGCTGCCGTGTGTCCAGAGATGGAGCTGACTCCTGAAGTTCTCTGTTGCTTCCAGGCTGCCACTGCTGGTGTAAATGGGCCGTGGGAACACCTGTGTGGCTGAGGCCACCACCAAACAGACTGCCTTCAGGAGGAGATGAGTGCCTGGCAGAGCCTGTGCTGCCTGAGTGGGAGCCAGGCGTCCTGCGAGGACAGAGCCAGAGCAGGCAGTGCCACTGGTGGTTTGGTTGTGCTGAGACTGGATCAGCACTGCCTGGAGGCTGCCTGCGTTATTCAGAAGATGACCACAGGGGGCACTTGCTCGCCTGGCACAACGGAGTGAGATATTACTGAGGTCTGTCTTGCCTGTACAAAGATTTTTAGCAGATGCCAGGGCTGGTGCATGCTCAGCTGCCCCCTTCCTGGCTGGCTTGCAGGAGTGCCTTGCAGATAGCCCCATGGAGGGGCGGTGGAGAGGTTTCTGTTGTAAGCAGGTGGTGCCCTTATGCTTTCTTCTGTTGCAG
Seq C2 exon
GTACTGATGTTAAGTCTGCTGGGCAGTCCCAGGGAGATGGTGGCCATGCAGGCCCTGGGGACGTTCGGAGACATCAGAGGGGGCGTGCAGAACACCGGAGACACACTATTGCCAACGGTGTGGACTTTGGCATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000009060:ENSGALT00000014746:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.500 A=NA C2=0.956
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF114143=Suppressor_APC=PU(4.8=8.9)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CAGGCATGGAGCTTCTGGTG
R:
CATGCCAAAGTCCACACCGTT
Band lengths:
198-769
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]