RnoINT0131109 @ rn6
Intron Retention
Gene
ENSRNOG00000025278 | Scai
Description
suppressor of cancer cell invasion [Source:RGD Symbol;Acc:1594720]
Coordinates
chr3:23391859-23393253:-
Coord C1 exon
chr3:23393157-23393253
Coord A exon
chr3:23391958-23393156
Coord C2 exon
chr3:23391859-23391957
Length
1199 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAAT
5' ss Score
8.88
3' ss Seq
TGTGGCATTTCTAATACCAGGAA
3' ss Score
6.48
Exon sequences
Seq C1 exon
GCCTGAGTTGGTTGTTAAGAAACTCCGATACTATGCAAGATTTATAGTAGTTTGTCTTCTTCTTAATAAAATGGACGTTGTGAAAGACCTGGTAAAG
Seq A exon
GTAAATAGTGTTTGGTTTTGTTCTGTTTTGTTTTGATTTGTTTGAAGTAGGATCTTGTTATATAACTCAGGCTGATCTTGGATTTGTAATCCCCATGAATCAGTCTTTCCTATGCTGAAATTATAAATGTACTTTAAAATAACTGTAGCCCAGCCAGACATGACACTGCATGCTTTTAATCCCAGCACTTGGGAGGCAGAGACAGGTGGATCTCCAACCCAGGTGCTCTGGAAACTCTTGATAATCCTCCTTCCTCAATCTTGAGTGCTTACAGATATGAACCACCATACCTAGCTTGATGGTATGGTGTACTTCTTGATACATTTGACTCAAATATGTCATAAGACCATTGGAAGGAGAGATATATTCTGCTGTGATCTTCTTTCCTCAGCTACTAATTAAACTATTTCCAAAACACAATATGATATAAAGGAAGGGAGTGTTCTCTGTGCGTTAACATTTATGAGTTTGTTTTATAGGCAATTCTGTTAATAAGTTCATTGCCGATATAGCACCAAGTAGGAAATAAACCTTTATAAGGTTTTTATTTGGGCTGGAGAGATGGCTCAGTGGCTAAGAGTACTGACTGCTCTTCAGAGATCCTGAGTTCAAATCCCAGCAACCACATGGTGGCTTACAACCATCTGTAATGAGATCTGGTGCCTCTTCTGGTGTATCTGAAGACAGCTACAGTGTGCTCACATAAATTAAATAAATCTTTTTAAAAAAAAAGGTTTTTATTTGATGTGTATCATTCTAAATTTTTTTATTTTGTAGTAAATCTATGGTTTTCATTCTTTGTTTTCTGTTACAATTGGGATTGGATATTGATACTGATCAAACATAATTCTATTACTTTCTGTCAGGAATATTACAATATAGCTGGTTTTTATGGAGATTTTAATTTTTTACATTCATTTATTTTGTGTGTGTATGTATGATTCATGCACAGCATTCATTTATTTAGAGTGGGGGGGGGAGAAAGAGGGAGAAATGGGGAGAGGGAGATTGAGAGAGATTGATTCATGCACAGGTGTCAGGTCAGAAGATTGTTTCCCTCCTTTTATTTTGTGGGTTTCATAGATTGAGCGTAGGTTGTCAGGCTAGGTGGTAGATACATTTACCTGCTGAGCTATCCTGCTAGCCTTTTTATGGATGTTATTAATAGCCCTTTTTCTTTGTGGCATTTCTAATACCAG
Seq C2 exon
GAATTGTCTGATGAAATTGAAGATTATACTCATCGCTTTAATACTGAAGATCAAGTTGAGTGGAACCTGGTGCTCCAAGAGGTAGCAGCATTCATTGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000025278:ENSRNOT00000039410:7
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF120703=DUF3550=FE(6.5=100)
A:
NA
C2:
PF120703=DUF3550=FE(6.5=100)
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:
GCCTGAGTTGGTTGTTAAGAAACT
R:
GAATGCTGCTACCTCTTGGAGC
Band lengths:
190-1389
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]