GgaINT1024704 @ 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
chr12:3224395-3224558:+
Coord C1 exon
chr12:3224395-3224436
Coord A exon
chr12:3224437-3224511
Coord C2 exon
chr12:3224512-3224558
Length
75 bp
Sequences
Splice sites
5' ss Seq
CGGGTAAGG
5' ss Score
10.17
3' ss Seq
TGAGCCCCCTCTCTCTGCAGCAA
3' ss Score
10.42
Exon sequences
Seq C1 exon
GACGCGTCCCCCATCGCCAGCCTGCAGCTCTCCTCCAAGCGG
Seq A exon
GTAAGGAGGAGGGGGCCGAGCCCTGCCGGACCCACGGGCCCCATCGCGGGGGTGCTGAGCCCCCTCTCTCTGCAG
Seq C2 exon
CAACAGCTCTACGCCGGCTCAGCCACCGCCGTGGCCCAGCTGCCCCT
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000013722:ENSGALT00000035861:13
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms (No Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0140314=Sema=FE(3.0=100)
A:
NA
C2:
NO
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:
GCCTGCAGCTCTCCTCCAAG
R:
GGCTGAGCCGGCGTAGAG
Band lengths:
47-122
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]