RnoINT0130945 @ rn6
Intron Retention
Gene
ENSRNOG00000009812 | Sbf2
Description
SET binding factor 2 [Source:RGD Symbol;Acc:1588657]
Coordinates
chr1:175252582-175254357:-
Coord C1 exon
chr1:175254247-175254357
Coord A exon
chr1:175252688-175254246
Coord C2 exon
chr1:175252582-175252687
Length
1559 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAAC
5' ss Score
7.82
3' ss Seq
ATGTTTCTCTCATTCTGCAGAAG
3' ss Score
10.38
Exon sequences
Seq C1 exon
GCTTGCCTGGGTCTGATCTATACTGTGTACGTGGACAGCCTGAGTGTCTCCTTGGAAAGCCTCATCGCAAATCTTTGTGCTTGCCTTGTTCCAGCTGCTGGAGGGTCTCAG
Seq A exon
GTAAACAGAATTGATTTATTCTGGGTAATTTGATTTATGACAAAAAAGAAAGAATTCTTCAAATATGTTTGTTTTAGATAGGATCTTACTTAGGTAAACCTTGTCCCTATGATGTATCTTCTAGACACCTAAGATTCCATTCTTTTCATAGTTCAAGAGAATGATTTCAAGGGCTGGAGAGATGGCTCAGTGGATAAGAGAACACAATGCTTTCCCCGAGGACCTGAGTTCAATTCCTAATGCCTACATCACATAGCTTACAACTATCTGTAAACTCAACTCCAGAGAAAGCTGACCTCTGCGGACACTTGCATTCATGTGCATGTACCCACGCCCCCACACACATATATATATAGTTAAAATAATAAAAATAAGTCTTTAAAAGAAAGAGGCTGATTTTCAGACTGAGCTCCCTTTTACCTGGCATCATTAACAGACATATTTGATATAACTCCAACTCTACTTTTTTAACTTTTTGGACATATCTTTCTTCAGAAAGAATTTTTCAATCTTTTGCTACTTATTTTTGTATGTGTTACACTTCAATTATATTAAGTAAAAAAATTGACCAAAATTAGGAGACAAAATTAAGACAACTCTTTTTGTAACACTGTGACTGTTTTTTTAAATAGATTCCTTTTTCTCTAATCTTGATGTTTTAAAAAATTGTCTTGGAAGCAAAAAAATAAGAATCTTTGCTATCTACCATGTTTATTTATTTTTTATAGGTCAGCCATCTTTAAAAGCACTGGAGCTAGGGATATAGCTCTGGTGAGAGAGAGAGCACATGCTCACCATGTATAAGGCCTTCTTATCTATTCCACTGCCAAACAGAACAGGAGGCTTGTCTCCTTAGACCTTAAAGACGTCTAGTTGACCATGTATTTTGCTTTTTATTTATTGAGTAAGAGAGACAACCTTCCGAAAAGTCTCATCACTTGTCCTTTAGTCTGTCAAAAGTGTGNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNACATCTGTCCAAGGAATTCAGAGGCAGCAGATCCTTACTGTCAGAGTTACAAATGGTTGCAAGCCTCCCGACATGGATGCTAGGAACTAAGCTCAGATCCTCTAAAAGAGCAGCAAGTACTCTCAAACTGAGCGATTTCTCCAGCCCCTGCAAAATGTTAAATTTTAAAAAGAAAAGGGTAATTAGCATTTAACTCTTCTTTCTCAATTTCTTTTGTCTTAAATTACCTCCTCTTCTTCCTTCTTCTTCCTCCTCCTCTTCTTAATTTTCTCCTCTTCCTCTATGCTGTTCTAAGACAGAATCTTAAAGGTGGCCTTGGCATCATCAGGCCTTTCCATTGAAGAAGCAGATGATTCTGTCAACATACATTAACATAGCTTTGGTCAGTTATAATTGTTAGTGATACTTGTGTCTTATCTATTGAGATTTCAACTTCTGTGGAATGAATTTTCTGATATCATTTTGAGTTTCACACAGCAGAACTTGTATGTTTTAGGGTATATGTTTCTGCTTCATATTGTCTCTTATGACTTTACATGTTTCTCTCATTCTGCAG
Seq C2 exon
AAGCTGTTTTCCTTGGGTGCAGGAGACAGACAACTGATTCAGACTCCTTTGCATGACAGCCTCCCTGTTACAGGCACCAGTGTGGCTCTTTTATTTCAGCAATTAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000009812:ENSRNOT00000013126:4
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:
PF0214116=DENN=FE(19.7=100)
A:
NA
C2:
PF0214116=DENN=FE(19.1=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:
GCTTGCCTGGGTCTGATCTAT
R:
ATTGCTGAAATAAAAGAGCCACACTG
Band lengths:
214-1773
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]