RnoINT0130677 @ rn6
Intron Retention
Gene
ENSRNOG00000013069 | Sapcd2
Description
suppressor APC domain containing 2 [Source:RGD Symbol;Acc:1590629]
Coordinates
chr3:2595973-2596583:+
Coord C1 exon
chr3:2595973-2596071
Coord A exon
chr3:2596072-2596148
Coord C2 exon
chr3:2596149-2596583
Length
77 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGG
5' ss Score
10.07
3' ss Seq
CTGCCTGCCCGCCCGCCCAGGAG
3' ss Score
6.89
Exon sequences
Seq C1 exon
GTTCCACCCTCGTCCTCCCCCTCAACCTCCCCCTCAACTCCAGTCTGGCAGCAGCAGACCATCCTCATGCTGAAAGAACAGAACCGGCTTCTCACTCAG
Seq A exon
GTGAGGTGTGGGAAGATGGGGCTGGGGCTGGAGGCCCAACAAGTCCTGATGGCCTGCCTGCCTGCCCGCCCGCCCAG
Seq C2 exon
GAGGTGACTGATAAGAGCGAACGCATCACGCAGCTGGAGCAGGAGAAGTCTGCACTCATCAAGCAGCTGTTTGAGGCCCGAGCTCTCAGCCAGCAGGATGCGGGGCCTCTGGACTCCACTTTCATCTAGTTGGTTGTACCTCTCTAGAACGAGTGCGCGCAGACTTAGCTCAGCTCCGTGGCGTTGCTGGGAGCCTGTCTTCTGACTGAAGACCGTCAGCTGGCTTAGACCTCAGAGCCCTCGAGCGGTGCTGCTCAGAGATGTGCTCTGCCTGAAGCTGCTACTTCCCCCCGTTGTGAGGAGTGAGTGGGGGAGGATCATCTCGTGTTTACCTGATCTCAGGCAGCCCGGCAGAGAGGGGGTATGTTTACAGCTGTCCTGACCCCTCTGGCAGGGGTCCCTGCGATCACTGGTGTTTAGTAAAAAGTATTGGTC
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000013069:ENSRNOT00000017466:5
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.606 A=NA C2=0.238
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
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:
CAGCAGACCATCCTCATGCTG
R:
TGAAAGTGGAGTCCAGAGGCC
Band lengths:
172-249
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]