GgaINT1027090 @ galGal4
Intron Retention
Gene
ENSGALG00000013370 | Sema3F
Description
semaphorin-3F precursor [Source:RefSeq peptide;Acc:NP_989589]
Coordinates
chr12:3177468-3177777:+
Coord C1 exon
chr12:3177468-3177628
Coord A exon
chr12:3177629-3177714
Coord C2 exon
chr12:3177715-3177777
Length
86 bp
Sequences
Splice sites
5' ss Seq
ATCGTAAGC
5' ss Score
6.08
3' ss Seq
CATCTGCCCTGTTTCCGCAGATC
3' ss Score
12.22
Exon sequences
Seq C1 exon
AGCTGAAGGCCACCGGCACCGCGCACTTCTTCAACTTCCTGCTCAACTCCAGTGACTACCGCATCCTGCTGAAGGACGAGGACCACGACCGCATGTACGTGGGCAGCAAGGACTACGTCCTCTCTCTGGACCTGCACGACATCAACCGCGAGCCCCTCATC
Seq A exon
GTAAGCTGTTGCCTCCTGGGCCACCTCCGTGGGATGGGACGGCGCGGGGCCAGCAGCCCTGCCCCTCATCTGCCCTGTTTCCGCAG
Seq C2 exon
ATCCACTGGCCTGCCTCCCAGCAGAGGATCGAGGAGTGCATCCTGTCGGGCAAGAACAGCAAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000013370:ENSGALT00000035766:3
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=0.000
Domain overlap (PFAM):
C1:
PF0140314=Sema=PU(7.7=63.0)
A:
NA
C2:
PF0140314=Sema=FE(4.5=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:
TCCTGCTCAACTCCAGTGACT
R:
GGATGCACTCCTCGATCCTCT
Band lengths:
168-254
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]