GgaINT1024392 @ galGal4
Intron Retention
Gene
ENSGALG00000012438 | SBF1
Description
SET binding factor 1 [Source:HGNC Symbol;Acc:HGNC:10542]
Coordinates
chr1:539908-540612:-
Coord C1 exon
chr1:540535-540612
Coord A exon
chr1:540093-540534
Coord C2 exon
chr1:539908-540092
Length
442 bp
Sequences
Splice sites
5' ss Seq
GAGGTAGGG
5' ss Score
7.81
3' ss Seq
TGACAGCAGCTGTCCTGCAGGCA
3' ss Score
1.45
Exon sequences
Seq C1 exon
GGCTGGGTCACAGAGCCAGGGTCATCACCCTGTCCACCCCCAAGTGCGTGTCGCCGAAGGGCCGCGAGTCGCCCCGAG
Seq A exon
GTAGGGTCCCGCCGGGCACTTAACCCCACCGGCTGCTAACCCACCGACTGACCCACAACCCCCCCCACCCCACACACACCACTAACCCCCAGTAACACCATAACTGCACCACCCGAGCACGGTGCCGGCGGTAAGTACTGCACCGCACCGCCCCGCAGGTTTGCTTTGGGCTCTGCACACTTCTGCTGGGGGTGGCGGTGGCGGAGGAGAGGGGGCTGGCTGCAGGGCACAGCGTCAGCACGGGGCACTCCCTGCACAGGGCAGCACCCAGCAGAGAGAGGGGCGAAAGCAAACCTGCACCAAACCTCGCATGCATCCCGTGGGTGCCGGCGTGTGGTTGGAGTGTTTGGCCATCACTTCCCACGGAGAGCTGCTCGCCCATCCGGGCGGCCCCGAGCCCCCCGTGCATGGGACCCCCCCAGTGACAGCAGCTGTCCTGCAG
Seq C2 exon
GCAAATGGGGCAGCATCCGTGCCAGCGGGCGCATGAGCAGCTATGCCCTGAATGTGGAGATTGGCTCACGGCTGGCTGGGAAGGACCTGCTGGGTGCCCAGCACAACGGTGCGCCCGCCGAGGCCAGCTTCCTGCGTCAGCACCGCGCCTCGCTCTACATCATTGGGGACAAGTCACAGCTGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000012438:ENSGALT00000020337:31
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.741 A=NA C2=0.129
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:
TCACAGAGCCAGGGTCATCAC
R:
CTTCAGCTGTGACTTGTCCCC
Band lengths:
256-698
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]