GgaINT0058386 @ galGal3
Intron Retention
Gene
ENSGALG00000005927 | ST5
Description
NA
Coordinates
chr5:10699124-10699589:+
Coord C1 exon
chr5:10699124-10699363
Coord A exon
chr5:10699364-10699502
Coord C2 exon
chr5:10699503-10699589
Length
139 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAGG
5' ss Score
10.51
3' ss Seq
TTTTCTCCCCCCTTCCGTAGGTC
3' ss Score
12.85
Exon sequences
Seq C1 exon
AATGTAACACCCTGAATGGATTAGTGTCTGAGGTTTTTATCCGGTTCTTTGTGGAGACAGTTGGCCACTATTCCCTGTTCCTAACCCAGAATGAAAAAGGAGAGCGTGTCTTCCAAAGGGAGGCATTCCGTAAATCCGTGGCCTCCAAGAGCATCCGCCGCTTCTTGGAAGTGTTCATGGAATCCCAAATGTTCGCTGGTTTCATCCAGGACAGAGAACTGAGAAAATGCAGGGCGAAAG
Seq A exon
GTAAGGGCGCAGACGGCTCTGTGCCGCGGCGGGGGCAGCGCCGGGGGGCGGCGAGAGGAAGCAGCATCAGAGGAAGGGGACGGCGGGATCTCCGCTCGGCAGAGCGCTTTCCGGCTCAGTTTTCTCCCCCCTTCCGTAG
Seq C2 exon
GTCTCTTTGAGCAGAGGGTTGAACAGTATTTGGAAGAGCTTCCGGACACGGAACAAAGTGGAGTGAACAAGTTTCTGCGAGGCCTTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000005927:ENSGALT00000009535:16
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.012 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0345514=dDENN=WD(100=84.0)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TTTGTGGAGACAGTTGGCCAC
R:
CTCCACTTTGTTCCGTGTCCG
Band lengths:
256-395
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]