RnoINT0130674 @ rn6
Intron Retention
Gene
ENSRNOG00000013069 | Sapcd2
Description
suppressor APC domain containing 2 [Source:RGD Symbol;Acc:1590629]
Coordinates
chr3:2594766-2595630:+
Coord C1 exon
chr3:2594766-2594878
Coord A exon
chr3:2594879-2595483
Coord C2 exon
chr3:2595484-2595630
Length
605 bp
Sequences
Splice sites
5' ss Seq
CTGGTGAGA
5' ss Score
7.54
3' ss Seq
CATGTGCGCGTGTGTTACAGTTG
3' ss Score
8.9
Exon sequences
Seq C1 exon
GTACAACAGCCTGCAAGACCCTGGACTTGGGCACAGGTGAAGCCCGGCAGACTCCGAGGGCCCGAGGCGAGCGTCGAAGGCATACCATTACCAACGGTGTGGACTGCAGCCTG
Seq A exon
GTGAGAGGGGCCAGGACTCTGAGGGACTCTGTTGTCCAGAAGGTTGGAAACCAGGGAGAAACCATGAGCCTGGTTTCTTGTGGAATCTCTGTAGGAGAACCAGTCAGCTATGAATGTCTTTCTCCCATCCTGGGCTTAAGGGAAGACAGACAAAGTCAGGCAGAAGGAGGAGAGGCTCCTTAGAGTTGCCTGGAGACAGAGTGTGGGACCCTGCTCTTCCTACTGCATGAGGCTCACCTCTGCAGGCTGGCTTAGTGCATAAATAAATAGCATGATTATTTCAAGTGCTGAGTTTGCTCAGTCACTGCCCTGGGGTAGCCTCAGTAGGAGGGCTGAGAGGCCAGTCTCACCATCCTCGAAAGAGGAGGAACGGGGCTATGCTCTCCATGGCATAAGTTCGAATGTTCCCCGGGTAAGCTGGAGCTTTCCGTGCGTGCATTTGCAGACTGCACGTGTGCTGATGCAGTTGCCTGTGCGCTGGTTTGCAAGCGCACAGGTCTCAGCTTCCGCACCTGCAGCTCCCGGAACACACGGGTGTGCAGATGCGGGTGCCAGTCTTCTTGTTGGCATGTGCACATGTGATCCCATGTGCGCGTGTGTTACAG
Seq C2 exon
TTGAAGCAAATGAAGGAATTAGACCAGGAACAGGAGGTGCTGCTGCAGGGTCTGGAGATGATAGCCCGGGGCCGAGAGTGGTACCAGCAGCAGCTGCAACGTGTACAGGAACGTCAGCGCCGCCTGAGCCAGAGCAGAGCTGCCGCC
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000013069:ENSRNOT00000017466:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.947 A=NA C2=0.408
Domain overlap (PFAM):
C1:
PF114143=Suppressor_APC=PU(4.8=10.5)
A:
NA
C2:
PF114143=Suppressor_APC=FE(57.1=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTACAACAGCCTGCAAGACCC
R:
AGCTCTGCTCTGGCTCAGG
Band lengths:
254-859
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]