GgaINT1027095 @ galGal4
Intron Retention
Gene
ENSGALG00000013370 | Sema3F
Description
semaphorin-3F precursor [Source:RefSeq peptide;Acc:NP_989589]
Coordinates
chr12:3182991-3183327:+
Coord C1 exon
chr12:3182991-3183130
Coord A exon
chr12:3183131-3183212
Coord C2 exon
chr12:3183213-3183327
Length
82 bp
Sequences
Splice sites
5' ss Seq
CTGGTGTGT
5' ss Score
4.96
3' ss Seq
GCTGGGTCCCTCTGACACAGAAC
3' ss Score
4.82
Exon sequences
Seq C1 exon
ACCCTGCCTTCGTCCGTGCCCAGCTCATCCCTGACAGCAGCGAGAGGAATGATGACAAACTCTACTTCTTCTTCCGGGAGAAGTCGGCGGATGCCCCGCTCAGCCCCGGGGTCTATTCCCGCATCGGGCGCATCTGCCTG
Seq A exon
GTGTGTGCAGTGGGTCGGCGGGGTGCAGGCAGGGGCTGGCGGTGGGCTGTGTGGGGCTGACTGCTGGGTCCCTCTGACACAG
Seq C2 exon
AACGACGATGGAGGACACTGCTGCCTGGTGAACAAATGGAGCACCTTCCTGAAGGCCCGGCTCGTCTGCTCCGTGCCAGGACCCGATGGGATCGAGACACACTTTGATGAGCTTC
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000013370:ENSGALT00000035766:8
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.007 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0140314=Sema=FE(10.4=100)
A:
NA
C2:
PF0140314=Sema=FE(8.6=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCAGCTCATCCCTGACAGCAG
R:
AGGTGCTCCATTTGTTCACCA
Band lengths:
167-249
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]