RnoINT0131106 @ rn6
Intron Retention
Gene
ENSRNOG00000025278 | Scai
Description
suppressor of cancer cell invasion [Source:RGD Symbol;Acc:1594720]
Coordinates
chr3:23400281-23401198:-
Coord C1 exon
chr3:23401103-23401198
Coord A exon
chr3:23400368-23401102
Coord C2 exon
chr3:23400281-23400367
Length
735 bp
Sequences
Splice sites
5' ss Seq
TCGGTAAAG
5' ss Score
6.18
3' ss Seq
TTTGTCTCCCATATAAACAGACA
3' ss Score
7.07
Exon sequences
Seq C1 exon
AGATTTGCCTCAGTATGGACAGAAGCAGTGGCAGTCCTACTTCGGAAGAACTTTTGATGTTTACACCAAACTCTGGAAATTCCAGCAGCAGCATCG
Seq A exon
GTAAAGAGTTTCATGGAAACTTTTTTTAAAGATTTTATTTCATGTATGAGAGTACACCATCACTATCTTCAGACACACCAGAAGAGGGCATCAGATCCCATTACAAAATATTGTGAACCACCATGTGGTTGCTGGGAATTGAGCTCAGGACCTTGGAAGAGCAGTCAGTGCTCTTAACTGCTGAGCCATCTCCCCAGCCCCCTAAATAATTTTTCAAGGCCAGTCGTGGCTACAAGAAATCCTGTCTCCAAAAAACAACTAAGGCTGAGATGACTCAATAGGTGAAGTACTTGTCATTCAAGTGTGAGACAGTAATCCCATCTAATCCTGTAATGACACAGGAAGCAAAGTAGAAGGAGCCCTGGCTAATGTGCAATGCACAGTGATGACCAAGAATGTGAGAGATGATAACTGACACCCAGGGCTGTCATCTGACTGCCATACTTGAGCTGTGATATACATACCCGCACTCACATAATCACATGCTCATGCACACTCATATACACAGGTTACATACATACATACATACATACATACATACAGTGACATAACACAAATCAGTCAATAGAGAAATATTTTAATGTAGTTGAATGGTTATAATAAAATCTTACAATCCATGATCTTTGCTAATGAGATGATATTTTATCATTGAATTTACAGATTTGATTCTTTTTGATATTTATTTTTTTTGTTTTATTGTTTTTTTTGGTTTTTTTTTGTCTCCCATATAAACAG
Seq C2 exon
ACAAGTCTTGGATAATCGGTATGGCTTGAAGCGGTGGCAAATAGGGGAAATCGCTTCCAAGATCGGGCAGCTGTATTACCACTATTA
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000025278:ENSRNOT00000039410:4
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(5.8=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:
AGATTTGCCTCAGTATGGACAGA
R:
AATAGTGGTAATACAGCTGCCCG
Band lengths:
182-917
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]