RnoINT0130886 @ rn6
Intron Retention
Gene
ENSRNOG00000008392 | Sbf1
Description
SET binding factor 1 [Source:RGD Symbol;Acc:1307090]
Coordinates
chr7:130274947-130275480:-
Coord C1 exon
chr7:130275285-130275480
Coord A exon
chr7:130275075-130275284
Coord C2 exon
chr7:130274947-130275074
Length
210 bp
Sequences
Splice sites
5' ss Seq
TGGGTAAGC
5' ss Score
8.84
3' ss Seq
CTCTTCTTGGCCTGTTTAAGTGG
3' ss Score
4.24
Exon sequences
Seq C1 exon
CCCAAGCTGCTGAGGCCACGCCTATTGCCTGGTGAAGAGTGTGTCCTCGATGGCCTTCGGGTGTACCTGCTGCCAGATGGGCGTGAGGAGGGTGTAGGAGGCAGTGGAGGGGGCCCTGCTCTACTTCCAGCTGAGGGTGCTGTCTTCCTTACCACATACCGCGTCATCTTCACGGGGATGCCTACTGACCCCCTGG
Seq A exon
GTAAGCCGGTGGACCTTTTCTGTGCCTCCCCAGCTCTTTAGAGGAGATAAGACTTCCCTTTCTCTTCCCTTTTCTCAAAGAGTCGAAACCTGATGGGAAATAGGCCCACGTATGTCCTTTCATACCCACCCAAAACTTCTGTATTTGATACCTTGAGATATTATCTGTTTCTTCTCCCTTCGCCGCATGACTCTTCTTGGCCTGTTTAAG
Seq C2 exon
TGGGGGAGCAGGTGGTTGTCCGCTCCTTCCCCGTGGCTGCGTTGACCAAGGAGAAGCGCATTAGTGTGCAGACCCCTGTGGACCAGCTTCTGCAGGACGGGCTGCAGCTTCGTTCCTGCACATTCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000008392:ENSRNOT00000072955:22
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.091 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0289315=GRAM=PU(74.7=98.5)
A:
NA
C2:
PF0289315=GRAM=PD(24.1=48.8)
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:
CGCCTATTGCCTGGTGAAGAG
R:
GGAATGTGCAGGAACGAAGCT
Band lengths:
304-514
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]