RnoINT0130673 @ rn6
Intron Retention
Gene
ENSRNOG00000013069 | Sapcd2
Description
suppressor APC domain containing 2 [Source:RGD Symbol;Acc:1590629]
Coordinates
chr3:2591331-2594878:+
Coord C1 exon
chr3:2591331-2591978
Coord A exon
chr3:2591979-2594765
Coord C2 exon
chr3:2594766-2594878
Length
2787 bp
Sequences
Splice sites
5' ss Seq
CGGGTGAGT
5' ss Score
9.89
3' ss Seq
TATGGCCCTGACTGTTACAGGTA
3' ss Score
9.43
Exon sequences
Seq C1 exon
CGCCACTGGGCGCGTGCGTCGCCTTGCAGCTTCTGCCCTCTGGTCTTGCGGGTACCGACGCGGGTGGAAGCTGGGCGCCCATGGCCGTGGCAGCGATGGCCGGGCGTGGCCGCCTATCGCACGCTGCGCCCGCGCCTAGCACGGAGGGGCTACCGCGCGCCTTTCTCCAGAGTCTGCGCACCCTCTTCGACATCCTGGACGACCGGCAGCGCGGCTACGTGCACCTGCGCGAGATCGAGTCCCGCTGGCAAGGTGCAGACGCACGCGAGCTGCCCTGCGGCGTGCTCGAGGGCCTGCGCCAGGTAGCCCCCGCCAATGGCTACCTGACCTTCGAGCGTTTCGTGGCGGGCTTGCGCACCTCGCTCCTGAACGCCGATGGAGGCCCGCGGGATCAGGCACGCGTCGCGGCCCGGCCTGGGGACCAGTCATCCCTGCAGCAGCGCCTGATGTTCGCGCCGGCTGATGAGCCGCGGACTGTCCTGGAGAGAAAGCCTCTGCCTTCAAGTGCGCGCTCTGCTCCTGCTGGTCCCAGTGGCACCTCCCGGAATCCTGAGCTGTTGTGTGTCCCGGTGGAGGCGGCGCCCTGCCCCACAGAGCCTGAGCGGCCCCTGAGCAAGACGCTGGAGCGGATCCCCAGCGCGGATTCGG
Seq A exon
GTGAGTTTGAGTGGTCCCAGTCCCACCTCTTAATTCTAGGAACTTGTGCTAGAAACTGGAGACCGGCAAGATCTTGTCAGAGGGATGGAGATGGGGACGACTGTGGGCAGACCCCAGAGCCTCTTAAGCAAGGTTGGGACCACCTGGATTTGGAAAGGGGCTTCAGCCTCAGCCTGTGTGAGAGGTATGATACCAGGGCGGGTAAGTGATCTGATCACGCAGGAGAAGCCCACTCTGTCTCAAACCCGAGCGAGGCATTGGGACATCTGTGGCGGTGAGAGGGCATGCTGCCTGCTGTACCTGCCCTCGACCTGAGGACATCTGGGTTCTCATCTTCATTTCTGTGCGGCTGCTTGTTTCTTCTTAGAAGCACACTTGCTCTCACGCTCTAACATGCCCTGAAGGTCCTTCTCAGTGTGACACCCTGCAGAGACAACCCGGCCCACTTCTCCATCCAGGCAGAGGAGGCGTCATGGGAGCACCTAGCACACGTGCTGAGGAGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGCTGAGGAGCGTGTGTGTGCTGAGGAGCGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTCCGTCCCACAGCACCTGCTGTGCTGTGCTGCTTCAGATGCACCGCTAGACACAGATCACAGTCTCTGGGGAACCATCAGGCTCTTCTCCCTCCTTCCGGTCTAGTTGGCAGGGACAGGAGACTGTTGAATAACCACATCTGCCTTGAGAACAGGACCTGCTTTATGCCTAAGCATGGAGGCAGGTTCTCAGGAACCCAAGCCCCTCTTCCAGCCCTGCTCACCATTCATCCTGTGTGCTGTCCTGTCAGGGCTGCCCACTCGTGGCAGCTGCCAGTCCATTTTGGTACTGGCCACTGCTCTGCCAGTCTCACCAGACCTCTCCTACCTCAACCTTATCCTACCACCTCAAAACAGGAATTTGGCAACACACACACACACACACACACACACACACACACACACACAGAGAGAGAGACAGAGACAGAGACAGAGACAGAGACAGAGACAGAGACAGACAATTTGCAGTTTAAGCCTTGACCCTGTTCCTGTGGAATGGGAGGCTTCTGGCTTTAGCTGGTCATCTCAGTGGCTGTGAGTTTGAAGTCAGCCCTGGGATGGGGCTGTGTGTAATGGACAGGCTCAGGATTTTACCTCATGTGGCCCTGAGTCAGTTTTACTTCTCTGACAGCCATGTGTTCAGCGCCCATGTGACTGGGCTCTATTTAGCCATTGCTCTGAAAGCCAAAAGCCAGGCTCCAGCTCTGACTTCTTTACAGGGTAGCCGAGGTCCAGATAAGGATATCGGCAAACTTGACAAAGCCTGCTTTGGAAGAGCCACAGAACCAGCCAGCTCCCTATGAAAGTCCTCCCAACTCACAGATGGCCTCAGATTCCCAATCCTATGGTCTATGCCTCTTTTCTGTGCAAGTCAGGTGCAAGTGACCCAGGTTCCTTCCTGGAACTCACTGCCAGTCCCTGCTCTGGCCCCACCCTCTGGAGGCAGGCTTCCTTCGTAGTAGCTCTCGTTGACTCACCCTGAAACTGCAGGCCACTCAGCACAGCAGGCTGGGACATGAACTTTGGGGCCTGCTTGGAACTAGAGTCTTTGTCATACACATCTGAGTCAATTGTTGTCTCTGTCACCCACTCCTATCTGTGACTTAGCCTCAGAGGTAATCCTGATGCCAGGGATAGGGTTGAAGGGCCTGAGGGAAGCTGCCATCCCCACTACCTGCACCACACTTCTGCCAGGTTGGGAGACCCTCCAGACGATGTTCATAGGAGTCTTCAACAAATAAATGCACTGCCTCTGCAGGTAAATGCACAACTTGCTTTGTACAGTGATTGCTTCTGGGCAGGAATTAGGGCTCCGTCACCGATGGAGAAGTTAGTTTTCTTGCTTCAGGTTCTGTGCCACAGGGCCCTGTGCAGTTGAAAGGTCTGGAGAGGGCCAGAGGGTTCTGCCTGTCCATCTGTTTTTGTTTGTTGGTTTATTTGTTTGGTTGGGTTTTTGTTGTTTTTTGTTTTTGAGACAGGGTCTCTTTTCGTACTTCTGGCTGTCCCGGAAGTCACTATATGTGGCCTTGAACTCACAGAGATCTGCCTGTTTCTGCCTCCTGAGTGCTGGGATCAAAGGTGTGGGTCACCATACCAAGGCGTATCCATTCCTATCCTACCCTTCACCCTTTGATACTCTTTGATATTCTTGATAGGTTAAATAAATAAATCTAAGGACTGGAAAAACAGCTCAGTGGTAAGAGCACTGACTGCTCTTCCAGAGGTCCTGAGTTCAATTCCCAGCAACCACATGGTGGCTCACAACCATCTGTAATGGGACCTGATGCCCTCTTCTGGTGTGTCTGCAGACAGCTACAGTGTACTTACATACATGAAATAAATAAATAAGTAAATAGATATTCTTGATAGGTATCTGATATGTTTTGTCAGGCACTGGGTGACTCTCTTCCTCTGCTCCCTGCCCCTCAACCTCTCAGGGCAGGTGAGGGAGGCAGGGCAGGCAAGAGGAGACCAAGTCCTAGCAAGGCACAAAGCCAACAGATAAAGCAAAAGCACATTCAGGAGTCACTTCTGACAGAGGTTCCCAGTACAGGCCTGGTCCCTGGGGCTTGCAATGTCAGAGTTAGCTGGAGGGTTCTGGGAAGGCCAGGGAGCCAGAATGAGATTATGAGGCCATTAGGCTGGTCCAGAGTTAAGCTATGGCCCTGACTGTTACAG
Seq C2 exon
GTACAACAGCCTGCAAGACCCTGGACTTGGGCACAGGTGAAGCCCGGCAGACTCCGAGGGCCCGAGGCGAGCGTCGAAGGCATACCATTACCAACGGTGTGGACTGCAGCCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000013069:ENSRNOT00000017466:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.537 A=NA C2=0.947
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF114143=Suppressor_APC=PU(4.8=10.5)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]