GgaINT1024369 @ galGal4
Intron Retention
Gene
ENSGALG00000012438 | SBF1
Description
SET binding factor 1 [Source:HGNC Symbol;Acc:HGNC:10542]
Coordinates
chr1:553418-553960:-
Coord C1 exon
chr1:553883-553960
Coord A exon
chr1:553532-553882
Coord C2 exon
chr1:553418-553531
Length
351 bp
Sequences
Splice sites
5' ss Seq
CAGGTGGGT
5' ss Score
8.56
3' ss Seq
TGTCCATCCCCTTGCAACAGGAC
3' ss Score
8.93
Exon sequences
Seq C1 exon
GTCTTGGACCCAGAGCTGGAGGTGGCAGATCTGGCATTCCCCCCTTCTACGATTTCTGCTTCATCTCTCAAAATGCAG
Seq A exon
GTGGGTAAAATGGGGGCGCACCAGGCCTCGAGGAGCAGAGAGCCCAGATGGCATGAGACTGCCGTCCCTGGTGGGCACCCAGCACCCTGCTCTGGGATGGGAGCTCCACAAGTAGCCACAGGGCTACAAGAGCTCCTTGCAGGGCTACAAGAGCTCCTTCCTGCATGCGTGCAGTCTCAGGGATGCTGGGAAGGGGAGAGCACTGGAGATCTGTCCACCTCCTCTATTCTTTGGAAGGTCCCTGACTTTCCTACCCTGCTCAGCAAAGGCCGATCCTGACACGTGATTGTGATCCCTTTGCCCCGTGAGCCCTCTGTCCTCCTGACTGCACTGTCCATCCCCTTGCAACAG
Seq C2 exon
GACAAGGAGATCCGGGCTGTCTTCCTCCGCTTGTTTGCACAGCTGCTGCAGGGCTATCGTTGGTGTCTGCACATCATCCGCATCCATCCTGAGCCCGTCATCCGCTTCCACAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000012438:ENSGALT00000020337:10
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:
PF0345514=dDENN=PU(0.1=0.0)
A:
NA
C2:
PF0345514=dDENN=FE(52.9=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:
CAGAGCTGGAGGTGGCAGATC
R:
CTTGTGGAAGCGGATGACGG
Band lengths:
182-533
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]