GgaINT1024381 @ galGal4
Intron Retention
Gene
ENSGALG00000012438 | SBF1
Description
SET binding factor 1 [Source:HGNC Symbol;Acc:HGNC:10542]
Coordinates
chr1:547509-547871:-
Coord C1 exon
chr1:547798-547871
Coord A exon
chr1:547705-547797
Coord C2 exon
chr1:547509-547704
Length
93 bp
Sequences
Splice sites
5' ss Seq
AAGGTACTG
5' ss Score
8.56
3' ss Seq
CTCATTTTACACCCCTGTAGCCA
3' ss Score
5.89
Exon sequences
Seq C1 exon
ATATCGTGCAGATGCACATAGAGACACTGGATGCTGTGCACAGGGAGAGCAAGAGGCTTCCTCCCATCCAGAAG
Seq A exon
GTACTGACCTGACGTGCGATGCTTCGGGGCAGTGTTCTGGTGCTGTTCTTCCAGTCTTCGGGAGCCTGAACTCCTCATTTTACACCCCTGTAG
Seq C2 exon
CCAAAGCTGCTGCGCCCCAACCTGTTGGTGGGTGAGGAGTGTGTGATGGAGGGGCTGCGTGTGTACCTCATGCCCGACGGGCGGGAGGAGGCCGCCGGGGGGAACATTGGGGGTCCACCTCTTCTCCCCGCGGAAGGAGCCATCTTCCTCACCACGTACCGCATCATCTTCAAAGGCACCCCCACAGACCCCCTGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000012438:ENSGALT00000020337:21
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=0.091
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0289315=GRAM=PU(74.7=98.5)
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:
GAGGCTTCCTCCCATCCAGAA
R:
TACGTGGTGAGGAAGATGGCT
Band lengths:
180-273
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]