GgaINT1024391 @ galGal4
Intron Retention
Gene
ENSGALG00000012438 | SBF1
Description
SET binding factor 1 [Source:HGNC Symbol;Acc:HGNC:10542]
Coordinates
chr1:540535-540994:-
Coord C1 exon
chr1:540902-540994
Coord A exon
chr1:540613-540901
Coord C2 exon
chr1:540535-540612
Length
289 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGG
5' ss Score
8.41
3' ss Seq
CTTTCATCCTGTGCCCCCAGGGC
3' ss Score
11.29
Exon sequences
Seq C1 exon
ATTTCTCCGACAAGAGGCAGCCTAAGCTGGGATCGCTCATGAAGCAGGTGATGGGAGGGAAGGACGAAGGGCCCGGGACTATTAGCCGTGGAG
Seq A exon
GTGAGGACGTGCGGGCGAGCGCTGCCTCCCGGGCAGCAGCTGTAGAGTAGATGCTCCCCCCTGTGCTCCCCCAGAGCTCTGGAGTGTGGGGCAGCTGCAGGGCGGGCGGGAGGGACCGTCTGCAGTCCCCATGTGCCACCTCCGTCCCGTTCCTACGTGCCATCTCCATCCCATGCCCATCTCCATCTCACCACCCCCCTCCCTTCCACCCGTACCCACCCAGCGAGGCAACGGTTGGTCCCTCTCCTCTCCACCCCTCTCTGAGGCCGCTTTCATCCTGTGCCCCCAG
Seq C2 exon
GGCTGGGTCACAGAGCCAGGGTCATCACCCTGTCCACCCCCAAGTGCGTGTCGCCGAAGGGCCGCGAGTCGCCCCGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000012438:ENSGALT00000020337:30
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=0.741
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
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:
ATTTCTCCGACAAGAGGCAGC
R:
GACACGCACTTGGGGGTG
Band lengths:
145-434
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]