GgaINT0058377 @ galGal3
Intron Retention
Gene
ENSGALG00000005927 | ST5
Description
NA
Coordinates
chr5:10665297-10666241:+
Coord C1 exon
chr5:10665297-10665481
Coord A exon
chr5:10665482-10666131
Coord C2 exon
chr5:10666132-10666241
Length
650 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAAA
5' ss Score
8.38
3' ss Seq
CAATTCTTTCCCCCCCACAGCTA
3' ss Score
9.22
Exon sequences
Seq C1 exon
CTCATACCCAGCGCCTAGTGCATATCCAGTCAATGCTGAAGAGAGCACCGAGTTATCGAACCCTGGAACTGGAGCTCATTGAATGGCAGGAACGGGAGTTATTTGAGTATTTTGTGGTAGTATCACTGAAAAAGAAGCCCTCTAAAAACACTTACCTCCCAGAAGTGACCTATCAGTTTCCCAAG
Seq A exon
GTAAAAGCAAAATTCTTATATACGCCTTACTCTAAATGCTAAGATCCTTATTTTGCTAATATCAATGATGTGAATAAGTGGGAAAGTTAACTGAAATCTATTTCTTAACTGAAGCTAATCATTCAACTTTCAGAATTTGTATAAAGAAAAGAGCATTGAGAAGGTGGCAGAAAGCTTTCCCTGTTTACGGAATTGTCATTTCCAGTGCTGGAGAGTTTGGCCCGATTGTAGGTGCTTCAAATACTGTGTTTAAATTCAGTTTCTAAATATTTCACTTTCAACTCCATTTAGCTCTGTCAGGGTTTGTTCCAAAACTCACTGAAGTCAACGGAAAGACTTCTGCTGAACTAGGGCTGCTCTGGCAGCAGAAGGAAACTTCAGATTGGAGTGCGTTTTTATTGGACGTTGTGCAACAGGGCAGTTTGGGTTAACTTAGGCAAACCAACAGTGATTATTTGCATTGTACTAGCTTCTAAAAGCCTCTCCTCGGGTCATGCCTCACTCTGCCAAGCACCAGTAAGGAACCAGCTGATGGACCCTTGCTCTTCACAGCTCAACAGCAAACCCCTGCCTCCCCTCGACTCCTGAGAGGTGCTGTGAAGCTGGCCCTAACAGTAACTGATTTAATTTCAATTCTTTCCCCCCCACAG
Seq C2 exon
CTAGAAAGGCCAACCAAGCAAATGCGTGAAGCAGAGGAGCGTCTCAAGGCCATCCCTCAGTTCTGCTTTCCTGATGCTAAAGACTGGCTCCCTGTCTCTGAATACAACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000005927:ENSGALT00000009535:7
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=0.108
Domain overlap (PFAM):
C1:
PF0345613=uDENN=PU(12.9=14.5)
A:
NA
C2:
PF0345613=uDENN=FE(51.4=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTCATACCCAGCGCCTAGTGC
R:
TGTTGTATTCAGAGACAGGGAGC
Band lengths:
294-944
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]