GgaINT1024382 @ galGal4
Intron Retention
Gene
ENSGALG00000012438 | SBF1
Description
SET binding factor 1 [Source:HGNC Symbol;Acc:HGNC:10542]
Coordinates
chr1:546535-547704:-
Coord C1 exon
chr1:547509-547704
Coord A exon
chr1:546663-547508
Coord C2 exon
chr1:546535-546662
Length
846 bp
Sequences
Splice sites
5' ss Seq
TGGGTAAGG
5' ss Score
9.08
3' ss Seq
GTTCCCATTCTTCTATCCAGTGG
3' ss Score
5.97
Exon sequences
Seq C1 exon
CCAAAGCTGCTGCGCCCCAACCTGTTGGTGGGTGAGGAGTGTGTGATGGAGGGGCTGCGTGTGTACCTCATGCCCGACGGGCGGGAGGAGGCCGCCGGGGGGAACATTGGGGGTCCACCTCTTCTCCCCGCGGAAGGAGCCATCTTCCTCACCACGTACCGCATCATCTTCAAAGGCACCCCCACAGACCCCCTGG
Seq A exon
GTAAGGACCATGCATGCACCACATCCTCTTCCTCGTGGGCTAGTGGTATCCGGGGAGGAGGTGGCCAGAAGCTGTCCTGGAGCAGCAGCTACAGCTCTGCTTGCTGTAGGAGTCACCTCTGAGGGCCTTGGGTGCAGGACCACAGCGCTAGCTGGGGGCTCTGGGGTTCCTTCCAACCCAACCATCCTATGGTTCTGTGATCTGTAAAGTCCCTTCTGACCCAACCACTCTGTGGCTCTGTCGTCTGTAAGGACCCATCCAGCCCAACCAGTTTGTACTTCTGTGATCTTCAGGGACTCTTCCAACCCAACCCAACTCAACCCAACCATTCTATGGTTCCGTGATCTATAAGGTCCCTTCTGACCCAAGCACTCTCTGGCTCTCATCCATAAGGACCCGTCCATCCCAACCATTTTGTCATTCTGTGATCTTCAAGGACTCTTCCAACCCAACCCAACTCAACCTAACTGTTCTGAGGTTCTATGATCTGTAAGATCCCTTCCAACCACACCACTCTGTAACTCTGTCATCTATAAGGACCCATCCAGCCCAACCATTTTGTCATTCTGTGATCTTCAAGGACTCTTCCAACCCAACCCAACTCAACCCAACCGTTCTTTGGTTCTGTAAGGGATCTGTAAGGTCCCTTTCAACCCAAGCCATTCTGTGATTCTTTGTAGATGATACTTTCGTCATGCCCATCATAGGTTGCATCTCCAGGTCTCTGTGGCCTGGCTGTAGTGCCTCTCACCTGATTCTGGCCCTCTCATCCCATGGGACTGTCTGGTGGGGGTGTCTCAGAGTGGCAGTGGGATGTGGCTAACCCGTTCCCATTCTTCTATCCAG
Seq C2 exon
TGGGGGAGCAGGTGGTGATCCGATCCTTCCCCATCTCCTCGCTGACCAAAGAGAAGAAGATCAATATCCAGGCCCAGGTGGATCAGTTCATCCAGGAGGGCCTGCAGCTGCGCTCGTGCACATTCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000012438:ENSGALT00000020337:22
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.091 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0289315=GRAM=PU(74.7=98.5)
A:
NA
C2:
PF0289315=GRAM=PD(24.1=48.8)
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:
CTGCGCCCCAACCTGTTG
R:
CTGGAATGTGCACGAGCG
Band lengths:
315-1161
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]