GgaINT1024387 @ galGal4
Intron Retention
Gene
ENSGALG00000012438 | SBF1
Description
SET binding factor 1 [Source:HGNC Symbol;Acc:HGNC:10542]
Coordinates
chr1:541987-543032:-
Coord C1 exon
chr1:542825-543032
Coord A exon
chr1:542184-542824
Coord C2 exon
chr1:541987-542183
Length
641 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGC
5' ss Score
8.7
3' ss Seq
AGCTCAGCTCTCTCCTGCAGTTA
3' ss Score
6.4
Exon sequences
Seq C1 exon
TGTCCGAGGAGATGGACAGGAGCACTTTGACCCCCACCACGACCATCAGACCCTCGGAGAAGATGACCATCAACCACCTGGTGGAGCGAGCCTGCTGCCGTGACTACCAGCGCCTGGGGTTGGGCACACTCAGCAGCAGCCTCACACGTTCCAAGAACGAACCCTTCCGCATCTCCACGGTGAACCGCATGTACGCCATTTGTCGGAG
Seq A exon
GTGAGCCCAACCAGGAGTCAGGAGAGCCTGTGCTGGTGGCCAAGGTGGCCAGCAGGGTCCTGGTTGACCAGTAGTTGACCAGTGGTTGACCAATGATTGACCAGTAGTTGACCAGTAGTTGACCAATAGTTGACCAAAAGTTGACCAATGGTTGAGCAACAGTTGACCAAAAGTTGACCAAAAGTTGACCATGAGCTGTCTACATGCCGTGGCAGCCTAAAAGGCCGATGGGACTCTGGAGTGCATTGCAAAGAGCTGCTTGGAAGGAGCTCTGTAGAGGACTTGGGTGTCCTGGTGGCCAACGGTTGACCAATGGTTGACTACATGTTGACCATGAGCCAGCAGTGTGCCCTGGCAGCCCAAAAGGCCGATGTGACTCTGGAGTGCATTGCAAAGAGCTGCTTGGAAGGAGCTCTGTGGAGGACTTGGGTGTCCTGGTGGCCAGCGGTTGACCAATGGTTGACCAAATGTTGACCATGAGCCAGCAGTGTGCCCTGGCTGGCCAAAAGGCCAATGGGACCCCGGGGCGTGCTGCGGAGCATGGCCAGCGGGGCAAGGAGGTTCACCTCCCCTCTGCTCTGCCCTGGCGAGGGCACAGGTGTGCTCAGCACTGCTCCCTGCAGCTCAGCTCTCTCCTGCAG
Seq C2 exon
TTACCCCGGGCTGCTCATCGTGCCGCAGAGCATCCAGGACAACACCATCCAACGCATCTCCCGCTGTTACCGCCAGAACCGCTTCCCCGTGGTGTGCTGGCGCAACTCCCGCACCAAAGCCGTGCTGCTGCGCTCCGGGGGGCTGCACGGGAAGGGCGTCGTGGGCCTCTTCAAGTCACAGAACGCTCCCACTGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000012438:ENSGALT00000020337:27
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.300 A=NA C2=0.119
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:
ACCATCAGACCCTCGGAGAAG
R:
TCTGTGACTTGAAGAGGCCCA
Band lengths:
349-990
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]