GgaINT0029100 @ galGal3
Intron Retention
Gene
ENSGALG00000004844 | SEMA6D
Description
NA
Coordinates
chr10:11371600-11371926:+
Coord C1 exon
chr10:11371600-11371740
Coord A exon
chr10:11371741-11371848
Coord C2 exon
chr10:11371849-11371926
Length
108 bp
Sequences
Splice sites
5' ss Seq
AAAGTACGG
5' ss Score
4.86
3' ss Seq
TTGTTTTTTTCTCTTGCAAGGGC
3' ss Score
7.66
Exon sequences
Seq C1 exon
GTGTAATGCTGAGAGCGAGGAAGACAGAAGAGTCATTTCCCTTCAGCTGGATAGAGACCACCATGCTCTGTTTGTGGCGTTCTCCAGCTGTGTCGTTAGAATTCCTCTGAGCCGGTGTGAGCGTCACGGGTCATGTAAAAA
Seq A exon
GTACGGCTCCGTTCCTGAACTCCCCTTAAAGGAAGGGTGCCAACATCTCTAGGGAAGGAACTAAAAAAAAATGCATGATTTTTTTTGTTTGTTTTTTTCTCTTGCAAG
Seq C2 exon
GGCATGTATTGCTTCTCGGGATCCATACTGTGGCTGGTTAGACCACGAGGAGTGTGGGAGAGTGACGCCAGGCATGCC
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000004844:ENSGALT00000007734:13
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=0.111
Domain overlap (PFAM):
C1:
PF0140314=Sema=PD(1.2=10.4),PF0143720=PSI=PU(14.8=18.8)
A:
NA
C2:
PF0143720=PSI=FE(42.6=100)
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:
GCTGAGAGCGAGGAAGACAGA
R:
CATGCCTGGCGTCACTCTC
Band lengths:
210-318
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]