RnoINT0130950 @ rn6
Intron Retention
Gene
ENSRNOG00000009812 | Sbf2
Description
SET binding factor 2 [Source:RGD Symbol;Acc:1588657]
Coordinates
chr1:175217981-175218889:-
Coord C1 exon
chr1:175218812-175218889
Coord A exon
chr1:175218095-175218811
Coord C2 exon
chr1:175217981-175218094
Length
717 bp
Sequences
Splice sites
5' ss Seq
CTGGTAAGA
5' ss Score
9.45
3' ss Seq
GTTTCGTTTTCCATTTTCAGGAT
3' ss Score
11.57
Exon sequences
Seq C1 exon
ATTTTGCACCCGGATTTGGAAGTAGCAGATCATGCCTTCCCTCCTCCACGAACAGCTTTATCCCACTCAAAAATGCTG
Seq A exon
GTAAGACATTTAATGTTCAAGATTGATACTTTAAAAGAGAATTATACTTTAATTTTAGGTTTGCTGATATAGCTGAGTTAGAAGTCCCTTAAAAGGCTTAGGGCAGTGTACTGGTCTATGAGAGGGCCTTTGATTTTTTTTCTTTAGGAGACAAAAGTAAGGACCGCAAAGAAATCAGAGCCTTAGTTATAGCCTGGAACACTGTCCAGCATAAGAATTTGGATTCTTCTTTTCTTGTAGTGACATGTATCAGATCCAGAGCTTACTCATGCTGTACATGTAATCATATTTCATTCTAATAAGAATAGACTTTTATAATTTGGATAAATGTTGAAAGAATTTCATTTCACTTTAAAAATGTAATCTTTTGAGAGTTTTTCCCTTTTATATTCATAAGTATAATTTTTGCAGATATACAAATAAAGGTTTTGGCATATTTTTTTTTCTCCGACACAGTAAAATAGGAGACTATGCTACTTACTTTTCCTCTGGAAGAAAACTGTGTGCTCTAGAATCCAACTCTGTTCGGTTCAGTAGGAAGAGCAAACCAGTTCCACTCAAGCATAGGTAGACTCTCATGGGACTTGTGCCCACTGCTTGGGGAGGCAAGCCTGGGCAGCATGCCACACTCGCCCACTCAGACTTTCTTCTCTCTGTCTGGTTTACTTAATTTGTTTTTTTATTAAATCACCTGTATGTTTCGTTTTCCATTTTCAG
Seq C2 exon
GATAAAGAAGTTCGAGCAGTTTTTCTTAGACTATTTGCACAACTGTTCCAAGGGTACAGGTCATGCCTCCAGCTTATACGGATCCATGCCGAGCCTGTGATACATTTTCACAAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000009812:ENSRNOT00000013126:9
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:
PF0345514=dDENN=PU(0.1=0.0)
A:
NA
C2:
PF0345514=dDENN=FE(52.9=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TTTGCACCCGGATTTGGAAGT
R:
TTTGTGAAAATGTATCACAGGCTCG
Band lengths:
190-907
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]