GgaINT1024373 @ galGal4
Intron Retention
Gene
ENSGALG00000012438 | SBF1
Description
SET binding factor 1 [Source:HGNC Symbol;Acc:HGNC:10542]
Coordinates
chr1:550449-551359:-
Coord C1 exon
chr1:551155-551359
Coord A exon
chr1:550562-551154
Coord C2 exon
chr1:550449-550561
Length
593 bp
Sequences
Splice sites
5' ss Seq
TCGGTACGT
5' ss Score
10.06
3' ss Seq
CGCATCGCTTCTCTCTCCAGCAG
3' ss Score
8.51
Exon sequences
Seq C1 exon
GAGAACCCGTACCCCGCCGTGACCATGCACAAGGTGCAGAAGCCCACTGAAGGCTGTCATCTGCGCCTGCACCAGAAGCCCTTCCCCCGTTTGGATGAGGGCACAGTGCAGTGGATCATCGACCAGGCCACAGCCAAGCTGCAGACAGCCCCTCCAGCTGTGAAAGCAGAGAAGAAGTGCATGGTGCCCTCGGGCCCCCCCATCG
Seq A exon
GTACGTGTGCTCAGACCCACCTCAGCCTTCTCTCCTCCACGTGCACAGCCCCAGGGCTCTCAGCCTGTCCCCAGCAGGAGGTGTTCCAGGCCCCCCACTATCTCTGCACCCTCAGCTGGGCTCTCTCCAGCAGTTTCCAGTCTGCCTGCAACTGGGCAGCCCCGCACTGGGTGCAGTGCTGCAGATGTGCCCACCCTCCCAGTGCAGAGCAGAGGGCAGGACCACCTCCCTGCCCTGCTGGCCATGTTCTGTGCCACGCACCCTGGGGTCCCACTGGCTTTCTTGACCACCGGGGCACACTGCTGGCTCATGGTCAACATATGGTTGGCCACTGATCAGCCTGTTGGACCCCCAGCTCCTTCTCCTTTGGGAAGCTCCTTTGCAGCAGCTCAGCCCCCAGTCTGTCCCCGTTAACCTCTCCCCTTCTGGCTGCTCAGAGGTCCCCCAGCTCCATCAGCCAGCATGAGAGGACACCTGAAGTCCCTTCAGTGTCCTCCCACAGCACTGCCTATGTGGAACATTGGGGCACCCATTCTTCCACCCCTTGGGCTGAGACCCCCACCCTGCCTGAACCGCATCGCTTCTCTCTCCAG
Seq C2 exon
CAGCCATCATGGAGCGTAATGGCAATGCTTTGGCCAACAGCGCCCGCCGCCTGGAGGTGGTTCGGAACTGCATCTCCTATGTCTTTGAGAACAAGATGTTAGAAGCCAAAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000012438:ENSGALT00000020337:14
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.145 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF123353=SBF2=PU(2.7=8.7)
A:
NA
C2:
PF123353=SBF2=FE(16.6=100)
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:
GAGAACCCGTACCCCGCC
R:
CTTTTTGGCTTCTAACATCTTGTTCT
Band lengths:
318-911
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]