GgaINT1024703 @ galGal4
Intron Retention
Gene
ENSGALG00000013722 | SEMA3B
Description
sema domain, immunoglobulin domain (Ig), short basic domain, secreted, (semaphorin) 3B [Source:HGNC Symbol;Acc:HGNC:10724]
Coordinates
chr12:3224232-3224436:+
Coord C1 exon
chr12:3224232-3224323
Coord A exon
chr12:3224324-3224394
Coord C2 exon
chr12:3224395-3224436
Length
71 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGT
5' ss Score
10.67
3' ss Seq
CCAACCTTGCTCTCCTGCAGGAC
3' ss Score
10.55
Exon sequences
Seq C1 exon
ATGTGGGCACCGTGCTGAAGGTGGTCTCGGCACCGCAGCAGAGCTGGCACGGCATGGAGCCGCTGCTGCTGGAGGAGCTGCAGGTCTTCCAG
Seq A exon
GTGAGTCCCTGCGCTGGGGGCTGCGCACCTCCCGTGCCCTGCCTGTAACTGCCAACCTTGCTCTCCTGCAG
Seq C2 exon
GACGCGTCCCCCATCGCCAGCCTGCAGCTCTCCTCCAAGCGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000013722:ENSGALT00000035861:12
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(6.9=100)
A:
NA
C2:
PF0140314=Sema=FE(3.0=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGGCACCGTGCTGAAGGT
R:
GCTTGGAGGAGAGCTGCAG
Band lengths:
128-199
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]