GgaINT0115135 @ galGal3
Intron Retention
Gene
ENSGALG00000012438 | SBF1
Description
NA
Coordinates
chr1:449306-449729:+
Coord C1 exon
chr1:449306-449478
Coord A exon
chr1:449479-449655
Coord C2 exon
chr1:449656-449729
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 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
Associated events
Conservation
Cow
(bosTau6)
No conservation detected
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]