GgaINT1024726 @ galGal4
Intron Retention
Gene
ENSGALG00000008297 | SEMA4B
Description
sema domain, immunoglobulin domain (Ig), transmembrane domain (TM) and short cytoplasmic domain, (semaphorin) 4B [Source:HGNC Symbol;Acc:HGNC:10730]
Coordinates
chr10:19531746-19531998:+
Coord C1 exon
chr10:19531746-19531808
Coord A exon
chr10:19531809-19531899
Coord C2 exon
chr10:19531900-19531998
Length
91 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGC
5' ss Score
9.6
3' ss Seq
CCGCGTCTCCCCCCCTGCAGAGG
3' ss Score
10.3
Exon sequences
Seq C1 exon
CTGCCTTGGGGTGCGGATGAGGAGAAGAAGAGGCAGTGCGTGTTCAAGGGCAAGGACCCCCAG
Seq A exon
GTGAGCCCTGGTGTCTGGGATGTGCTGTCTGGGCTGGGCAGTGCCCGGTGCCCACGTGCAGGGTGGCTGAGCCGCGTCTCCCCCCCTGCAG
Seq C2 exon
AGGGACTGTCACAACTACATCAAGATGCTGCTGCAGCTGAACAGCACCCACCTCTACACGTGCGGGACCTGTGCCTTCAGCCCCACCTGCGCCTACATC
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000008297:ENSGALT00000013511:4
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(4.5=100)
A:
NA
C2:
PF0140314=Sema=FE(7.3=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:
CCTTGGGGTGCGGATGAGG
R:
GATGTAGGCGCAGGTGGGG
Band lengths:
159-250
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]