GgaINT1027083 @ galGal4
Intron Retention
Gene
ENSGALG00000013370 | Sema3F
Description
semaphorin-3F precursor [Source:RefSeq peptide;Acc:NP_989589]
Coordinates
chr12:3183997-3184954:+
Coord C1 exon
chr12:3183997-3184219
Coord A exon
chr12:3184220-3184865
Coord C2 exon
chr12:3184866-3184954
Length
646 bp
Sequences
Splice sites
5' ss Seq
CAGGTACCC
5' ss Score
8.63
3' ss Seq
GGCACCCTGGTGTCTTGCAGATC
3' ss Score
8.58
Exon sequences
Seq C1 exon
TGCCCCGGGGGGACCTTCACACCCTCCATGAAGTCAACCAAGGACTACCCCGACGAAGTGATCAACTTCATGCGCTCTCACCCTCTGATGTACCACGCCGTCTACCCGGCCCACCGGCAGCCTCTGGTCGTGCGCACCAACGTCAACTACCGCTTCACCACCATCGCTGTTGACCAGGTGGACGCGGCAGATGGGCGCTATGAGGTGCTTTTCCTGGGCACAG
Seq A exon
GTACCCACGCCGCGCACCGCAGAGAACGCAGCATGCTCCAGCGCGGCCTCAGAGGGCACGGGCACTGCCGGGGCTGGGTGCCTCTGCTGGCACCTCTGCTCCATGGTGGAGCGGGGCGAGGGGCTGAGAACCCTGTGCCATGGACGCTGGGGGTGTCATGGCCTGTCCCCTGCCCTGCCGCCCATCCTAGGGCAGCGCCATCCAGCTTTGGTCATTTCTGTGCCCCAGCGTCCATCCTAGCACGCCACCATCCAGCCTGGTCTATTCGCTGTCCCAGTGTCCATCCTAGGACATCCAGCCTGATCCTTTCCAATGGCCCGAGCCCAACTCTCCTGCCTCATTCGCCTCGTCAGGGCCACCGTTGTCCAACCTGGCGCTTCCCCTTCCTATTGTCCATCCAAGGGCCACCATGATCTATCCCAGTCTTTCCCAAACCCAGTGCCTATCCCAGCTGCTGTCCCCCTGTCCTGGGCAGTGGCAGCCCCTAGCTGTGAGTGGTGACCTGATTGTCACAGCACAACCAAGACAGATGAAGATGGGCCTGGGGGGTCCTTCCTGGCCCCGTCAAGGATCCCATTCCCAGGAGGGGAGGGCACGGGTGCCCAGCTGGTGGCACTGAGCGTCCAGGCACCCTGGTGTCTTGCAG
Seq C2 exon
ATCGGGGCACGGTGCAGAAAGTCATTGTGCTGCCCCGGGACGACATGGAGACAGAGGAGCTGATGCTGGAGGAGATCGAGGTGTTCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000013370:ENSGALT00000035766:12
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.147 A=NA C2=0.067
Domain overlap (PFAM):
C1:
PF0140314=Sema=FE(16.7=100)
A:
NA
C2:
PF0140314=Sema=FE(6.6=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:
GGACCTTCACACCCTCCATGA
R:
CTTGAACACCTCGATCTCCTCC
Band lengths:
302-948
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]