GgaINT1024320 @ galGal4
Intron Retention
Gene
ENSGALG00000009060 | SAPCD2
Description
suppressor APC domain containing 2 [Source:HGNC Symbol;Acc:HGNC:28055]
Coordinates
chr17:377513-379508:+
Coord C1 exon
chr17:377513-377831
Coord A exon
chr17:377832-379461
Coord C2 exon
chr17:379462-379508
Length
1630 bp
Sequences
Splice sites
5' ss Seq
CGGGTAAGG
5' ss Score
10.17
3' ss Seq
GCCTCAGCCCTTGCTGCCAGCTT
3' ss Score
3.06
Exon sequences
Seq C1 exon
GCGGCGGCGGCTGCCATGGCCCCGGAGCGCGGCTCCCGCCCGTCCCCTCCGGGGCCGTCCCCCGCCGGTACCGAGGGGCTGCCCAGGGCCTTCCTGCAGAGCCTGCGCACCCTCTTCGACATCCTGGACGACCGGCGGCGGGGGTACGTGCACCTCCGGGAGATCGAGTCCCGCTGGCAGGGTGCGGAGGCCCGCGAGCTGCCCGCCGGCGTGTTGGACGGGCTGCGGCGGGCGGCGCCGCCCAGCGGGTATCTCACCTTCGAGCGCTTCGTCCTGGGGCTGCGCGCCGCGCTGCCCGGCGCCGACGGCGGAGTCCCGG
Seq A exon
GTAAGGGCAGAGCCCCGGGGCGCGGGCGCGGGGAGCCGCGGGACAGGGAGCGGGACAAGGAGCGGGACAAGGAACGGGGCCGCGGCACCGCCGTCAGCGCCTCGCGGAGCCTGGAGAAGCTGCCGAGCCCGCACGGCAACGAGGAGCGGCGCGGGCAGAACGGCGGACACCGCGAGCCGGAGCCGGGCCAGGGGCAGCCCCGCGGCAGAGGTGAGCGGGGCGGGACGGACCCCCCGTCGGGCGGGTCGGGCTCCCGGAGCGGCGGGTCGGGTCGGGCGGGGCGGGCCGGTTCCCAGGCGGCACCGACCTGTTCCTCCTTTGGCATTTAAAACAACGGCAAATTCTTCCCCCGGACCTGGTGTGGAACTCTGAGGAGTCGCCGCCGCTTTTTATTTTGGCTTCCGTGGGCTTTGTTTCAGGCTCCAGATAAACCGGAATGGAGAGCGTGCTGCTTGCAAATCCTGCTCTTTTCCCAGGCTCGTTCTTCCCTTTGCACTTCTCGTGTGGGTGCTTGTCTGTTTATAGTGGTGACAAGAAGAATTAAGGGCTTTGCAGTAACATGTCCGGAGTTGTCCTCCGGCACCGCGTCTGTAGGTGACCTCCCCGTGGGGTGGATCCGATCCTCGGCAGGAGCTGCTGGGCGCTGCGATGGAGAAGCAAACTGCTGCCGGCCCGGTGCTGCGGTCAGCAGCAGAGCCCAGCAGCACTCAGCGCCGCCCCCGGGCCCTTTCCCCGGATCCGGGGCCACTGTGCCAATCTGCTCCCCTATGGCTCAGTGAGCGGTCTGCAGGTCGTGCTGTCCGTCCTGCGTGGCTGCAGGCTGGTGTGGAACCCACCGCGGGACATCCGCCTCCTTCCTTGCCTTAGCACAGCGGCTGGGAGGCTTGTGTTGAGAGCTGTTCAGCCAGCTGGATGGGCGGAGAGTAGAAGCATATAAGGACGGCATGTGTTCCTTCCCCCTATGTATTGGGGGGCTGACAAAGGCAGGAGAGGGAGAGCACTGCTCCCAGCACCTCCCTCCTCCACTGGGAAGACTCCATCACTGGCCTCTTGACTTGCTGCTAGCACTAAGGAAATGCCATGAGGAATATGGGACCTCCTGGCAGCTCCTGTACAGTGCTTTGAGATCTCCTGACACAGAGCTCTGTGTGAAAACTTGGTGCTTTGCTGTTTCAACACTTGAGCACAATGCCTTCCTTTACCTCGGAGAGGTGCCCGAGCTGGTTTGCATTCCCTTCCCCACCCTTTCCTTCCCAGTCCCTTCTGCAGGGTGGAGAAGAAATGTTAAATGTCCCAGAGATTCCCTGCTTTCCATTCTGCCTCCAGGTTAACCGCAGGAGCTTCTCCCAAGGGAATGTTATTAAGCAGGCTGGGTTTTGTTTTTATTTGTTTGTTTTTTAGAATTAAGAGTCTAAATCCAGAAAAACCTGGGGGGGGGGGGGGGGGGAGAGTAAAATCCTCCTTGATAAGTAATCATCAAATTGAATGCTCTCCACTAGCTGAGACTGAGCAGATGAGTACTGCAGAGCATATGACTTTCTGGTTCCTGAGGATCATTGCACTGTAGGCTGATGTTGTGCTGATGTCCTGGGGCTGCAGGTGGGTTTAAAGCCTCAGCCCTTGCTGCCAG
Seq C2 exon
CTTCCCAAAAAGCAGGACCACATTCTGGCAACAGGCCCGAATTCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000009060:ENSGALT00000014746:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.393 A=NA C2=1.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
No conservation detected
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCCTTCCTGCAGAGCCTG
R:
CTGGAATTCGGGCCTGTTGC
Band lengths:
279-1909
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]