GgaINT1024380 @ galGal4
Intron Retention
Gene
ENSGALG00000012438 | SBF1
Description
SET binding factor 1 [Source:HGNC Symbol;Acc:HGNC:10542]
Coordinates
chr1:547798-548221:-
Coord C1 exon
chr1:548049-548221
Coord A exon
chr1:547872-548048
Coord C2 exon
chr1:547798-547871
Length
177 bp
Sequences
Splice sites
5' ss Seq
CTGGTAATG
5' ss Score
5.67
3' ss Seq
GACTGCGTCTTTGTCCACAGATA
3' ss Score
11.44
Exon sequences
Seq C1 exon
CATCGCTGGCAGTGTGGCCGAGAGCTACGACACGGAGAGTGGATTCGAGGATGCTGAGAGCTCAGACGTGGCCAACTACGTGGTGCGGTTCATCAACCGCTTCGTGGACAAAGTCTGCACTGAGAGTGGAGTCACCAACGAGCACCTGAAGGGGCTGCACGTCATGATCCCTG
Seq A exon
GTAATGGGCCCCGCAGAGGTGCTGCGGGTGGGCGGCCGCGTGGTTCCACCGAGGGTCCCCATCAGCTGCGGGGGCTGTACAGGAGGGGCTCTGGAAGAGGCAGTGGGGATGCCAAGAGGTGGAGCCTGGGTGGTTTGTGGGGCAGCTCGTGGTCTCTGACTGCGTCTTTGTCCACAG
Seq C2 exon
ATATCGTGCAGATGCACATAGAGACACTGGATGCTGTGCACAGGGAGAGCAAGAGGCTTCCTCCCATCCAGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000012438:ENSGALT00000020337:20
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms (No Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.068 A=NA C2=0.000
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:
CATCGCTGGCAGTGTGGC
R:
CTTCTGGATGGGAGGAAGCCT
Band lengths:
247-424
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]