RnoINT0131107 @ rn6
Intron Retention
Gene
ENSRNOG00000025278 | Scai
Description
suppressor of cancer cell invasion [Source:RGD Symbol;Acc:1594720]
Coordinates
chr3:23398400-23400367:-
Coord C1 exon
chr3:23400281-23400367
Coord A exon
chr3:23398499-23400280
Coord C2 exon
chr3:23398400-23398498
Length
1782 bp
Sequences
Splice sites
5' ss Seq
TTAGTAAGT
5' ss Score
7.79
3' ss Seq
TTAAAATTTTTTTCTTATAGTTT
3' ss Score
8.1
Exon sequences
Seq C1 exon
ACAAGTCTTGGATAATCGGTATGGCTTGAAGCGGTGGCAAATAGGGGAAATCGCTTCCAAGATCGGGCAGCTGTATTACCACTATTA
Seq A exon
GTAAGTGAATTGCATGTGGAAAGAAGAAAGTGTTTCTTTGCTTAAAACAGAGCATATTGGAGGAAGGACAGTGAGTTATAGATGGAATTTTAGTTAGGCCAGATGGATCAAGATGGCATCATGAAATGGCCTTATATAATTTAAGCAGTGTTATTTATGTCAGCTGTTCTCTTTAGTAACTTCATTTGATCAGACCTGAGGAATTTGATTCTGTTTTTTATAAGCAGTGAATACTAAATAGATTTGCCATTCTTAGGACTTCTCGAGTCTTGATGGTGTATATAGACGTACAGCATATATGATATTCTTTAGACACTCATCCTAGTTGGCTGTGTTTGTGAGGTTGGCTAGATTAAGTGAGGTAAATTGACAGTTGTTTGCATCTTTAAAATAGTGCTATCTTTGTAGTCCCACCTTTCAAAGAGGAAAGAAGAGATCCATCTCCTTTACAAAGCTAAATCTCAGCACAGAGTAGCATCGATAGCAAAAAAACTTTATCCTTTTGTAATTTAAAAGGGAAGATAAGAAAAACCCACAAAGCCCTTGATTGTGGCATGGGCGTTTGATCCCAGCACTCAGAAGGCAGTCAGGGGGAATCTCTGTAAGTTCAAGGCCAGCCTGGTCTATATACAGAGTGAGTTCCAGGACAGTCAGGGCCACACAGAGAAGCCCTATCTCGAAAAACCAAAACAAACCAAACAAAAGGAAGGTCAGTTAGCATCTTTCCAGTGTGGGTATCCCTCACTGGAATGCCCACACTACAATTCCTCTTTTTGCTAGAGCGGGATTCTAAAAATCGTTTATTATAGTGCTGAGAATAAGTAATTTTTGGAGTACTCATCCCTAGAGAAGACATGTATACCATTCCTCCCAAGCTCAGAGAATGGTAATTATGGAAGTGCAGATAGAGAGAAGGGCTGAGAAGTACCATTTTCTTGGCAAGACATGGCCATCCTAATCATGAACTCTCAGCAACTACAAATGTCTGCATTGGGTCTCTACTAAAAAGGGATCATTAACAGCCTTGCCTTGATGGAAGAGGAGTCAGGGCAGCTCTACTGATAGATTCTGAGAAAGGTTATGTTTCTACAGTTGTGTACCCACTACTGACCTCTGTAGACTCCATACATAGTCCAATCCAATGGTTGCATAAATGGCCCTGGATAAACTAAATGAGACATACAACAAAACCATTTCATGAATCTGGGGACAGGAAGAAACAAGACTTGATAGGAATGGAAAGATGAGAGAGAGGAGAGAATAACCAGAAGGGTGGGTGGGGTGGGTAGGGTTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTTGTGAAGTTTGTCAAGGTATTAAATAAACTTTTTAAAGTAAATTAATTTTTCAAAGTCTCTTATTAACCTAGGCATATTAAACAGACTCCATAGCTCATTAGCATCCCCCAAAGAATAGTATACTTTAGTAAGGGGGGGGGGGGGGACACTAAAGAAATGGAACAGAGATCAAGTGAGAGTGGATTAGTGAGTCCTGAGAGCAGGTATACTGGAGTAGCATGCTGTGCCTTGTAGAATGAGTGAGTGATGTGTACTTTGGTTGGAACAGCAGGAAAGAACTGTACTGTTGCTGTTGCTACCAGACAATTGAAAGGTAACGTGATCAATACCTTGCTGACTCAAAGTTAAGGCAGTCATCCCCCTCCCCTGTGTAGCGGAGAGCAATCTAGAACAAGTGTTGCTCATGAGGATTACACCCAGTTTGTGTCATACTTAAAATTTTTTTCTTATAG
Seq C2 exon
TTTACGAACTTCTGAGACCAGTTATTTGAATGAGGCTTTCTCCTTCTACTCTGCAATCAGACAGAGGTCATACTACTCTCAAGTCAACAAAGAGGACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000025278:ENSRNOT00000039410:5
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(5.8=100)
A:
NA
C2:
PF120703=DUF3550=FE(6.7=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:
AGTCTTGGATAATCGGTATGGCT
R:
TGTCCTCTTTGTTGACTTGAGAGT
Band lengths:
182-1964
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]