GgaINT1027081 @ galGal4
Intron Retention
Gene
ENSGALG00000013370 | Sema3F
Description
semaphorin-3F precursor [Source:RefSeq peptide;Acc:NP_989589]
Coordinates
chr12:3183532-3183915:+
Coord C1 exon
chr12:3183532-3183601
Coord A exon
chr12:3183602-3183770
Coord C2 exon
chr12:3183771-3183915
Length
169 bp
Sequences
Splice sites
5' ss Seq
GGGGTGAGT
5' ss Score
7.93
3' ss Seq
CGTGCCGCTCCTCCTGCCAGGTC
3' ss Score
11.39
Exon sequences
Seq C1 exon
AGGACGTCTTCATCCAGCAGACTCAGGACACCAAGAATCCTGTTATCTACGCCGTCTTCTCCGCATCGGG
Seq A exon
GTGAGTGCGGTGCCCTTGCGGCGTGGCAGTCCCTGGGGATGGGGACTTTTTGTCGAGGTGGGTAGAGGTCCTGGTGATGCTGAAGCGGGCGTGGGGTGAGGTGGGGATGCTGGCGGTGTCAGCACGTAGGTGGCACAGGTCCCTGAGGCCGTGCCGCTCCTCCTGCCAG
Seq C2 exon
GTCGGTGTTCAAGGGCTCGGCTGTCTGCGTTTACTCCATGGCCGACATCCGCATGGTGTTCAATGGGCCCTTCGCGCACAAGGAGGGTCCCAACTACCAGTGGATGCCCTACACGGGCAAAATGCCCTACCCCCGGCCGGGCACC
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000013370:ENSGALT00000035766:10
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.042 A=NA C2=0.041
Domain overlap (PFAM):
C1:
PF0140314=Sema=FE(5.2=100)
A:
NA
C2:
PF0140314=Sema=FE(10.9=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:
AGGACGTCTTCATCCAGCAGA
R:
CCGGGGGTAGGGCATTTTG
Band lengths:
206-375
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]