GgaINT1027085 @ galGal4
Intron Retention
Gene
ENSGALG00000013370 | Sema3F
Description
semaphorin-3F precursor [Source:RefSeq peptide;Acc:NP_989589]
Coordinates
chr12:3185231-3185629:+
Coord C1 exon
chr12:3185231-3185272
Coord A exon
chr12:3185273-3185471
Coord C2 exon
chr12:3185472-3185629
Length
199 bp
Sequences
Splice sites
5' ss Seq
AGGGTGAGT
5' ss Score
9.25
3' ss Seq
CCTCTCTGTCCCCCCAACAGCAA
3' ss Score
9.3
Exon sequences
Seq C1 exon
GTGCCAGCACCCATCAAGATGATGACCATCTCCTCCAAGAGG
Seq A exon
GTGAGTGACATGTGACTAGATTTGGGGACTAGCACATCCTGGCTGCTTCTTGTCACCATAGCATGACAGTGGCCATCGAGGAGGCCCATGGGTGCCCCTGAGTGGCTCTGGAATGCACAGTCCCCACTGCTCCCAGTACTGGGGACAAGGCCATGTGGCCAGGGGGCATCTTACCCTGTCCTCTCTGTCCCCCCAACAG
Seq C2 exon
CAACAGCTTTACGTGTCCTCGGCAGTAGGAGTGACCCACCTGGCCCTGCACCGGTGTGACGTGTATGGAGAAGCCTGTGCTGACTGCTGCCTGGCCCGCGACCCATACTGTGCCTGGGATGGCAAGGCCTGCAGCCGCTACTCAGCATCCTCCAAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000013370:ENSGALT00000035766:14
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=FE(2.9=100)
A:
NA
C2:
PF0143720=PSI=PU(61.4=66.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCCAGCACCCATCAAGATGAT
R:
CTCTTGGAGGATGCTGAGTAG
Band lengths:
198-397
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]