GgaINT1024394 @ galGal4
Intron Retention
Gene
ENSGALG00000012438 | SBF1
Description
SET binding factor 1 [Source:HGNC Symbol;Acc:HGNC:10542]
Coordinates
chr1:537489-539611:-
Coord C1 exon
chr1:539435-539611
Coord A exon
chr1:537675-539434
Coord C2 exon
chr1:537489-537674
Length
1760 bp
Sequences
Splice sites
5' ss Seq
CAGGTCAGT
5' ss Score
8.94
3' ss Seq
AAACCCCCGTGTCCCTGCAGGTG
3' ss Score
11.12
Exon sequences
Seq C1 exon
GGGGTGAAGCCAGACCCGCTGCAGCACTGGGAGGTGGTGCCCATCGAGGTGTTCGACGTGCGGCAGGTGAAGGCCAGCTTCAAGAAGCTGATGAAGGCCTGCGTGCCCGGCTGCCCCTCCACCGACCCCAGCGTGGCCTACCTGCGCTCCCTGGAGGAGTCCGAGTGGCTCTCACAG
Seq A exon
GTCAGTGGCTCCCGGGGGCCGTGGAGATCCCAATCCATGCCTGGGGTCAGGGGCTGCAGTTGGCTGTTGAAGGGCTGTGGGCTTTCGGACTTCCTTCCAACCCAACCATTCTGTGGTTCTGTGATCCTATATGGATCCTTCCAACCCAACCATTCTATGGGTCTTTGGCCTTTGAGGACTCTTCCAACCCAACCATTCTATGTGTCTTTAACCTTTAAGGATCCTTCCAACCCAACCATTTTATGGGAATTTGACCTTTAAGGACCCTTCCAACCCAACCATTTTATGGGTCTTTGTCCTTTAAGGACCCTTCCAACCCAACCATTTTATGGGACGTTGACCTCTAAGGACCCTTCCAACCCAACCATTTTATGAGCCTATGATTTTTAAGGTCCCTTCCAACGCAATCGGGTCTTTGACNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNCCCAACCATTCTAGGGTTCTACAGCTTTATGATCCATCAGGTTCCTTCCAATCAAACCATTCTGGTATTCTATGGCTCTGTGATCCATCAGGTCCCTTCCAATCCAACCATTCTGGTATTCTATGGTTCTATGATCCATAAGGTCCCTTCCAGCCCAACTATTCTGGGATTCTATGGCTGTATGATCCATAAAGTCCCTTCCAACCCAACCATTCTGGTATTCTATGGCTCTATGATCCATAAGGTCCCTTCCAGCCCAACCATTCTGGGATCCTATGGCTCTGTGATCCATGAAGTCCCTTCCAACCCAACCATTCTTTGTTTTTATGATCTCAAACCCCCGTGTCCCTGCAG
Seq C2 exon
GTGGTCTCCTTGGTGCAGCTCCTGTCGGATCCCTACTACCGGACGCTGGAGGGCTTCCGCCTGCTGGTGGAGAAGGAGTGGTTGTCCTTTGGGCACCGCTTCAGCCACCGTGGAGCCCAGACCTTGGCTGGCCAGAGCAGTGGCTTTGCTCCCATCTTCCTGCAGTTCCTAGACTGCGTGCACCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000012438:ENSGALT00000020337:33
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:
PF066029=Myotub-related=PU(0.9=1.7)
A:
NA
C2:
PF066029=Myotub-related=FE(57.5=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:
GTGAAGCCAGACCCGCTG
R:
CACGCAGTCTAGGAACTGCAG
Band lengths:
354-2114
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]