GgaINT0028626 @ 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
chr10:19533663-19534074:+
Coord C1 exon
chr10:19533663-19533873
Coord A exon
chr10:19533874-19533958
Coord C2 exon
chr10:19533959-19534074
Length
85 bp
Sequences
Splice sites
5' ss Seq
CGGGTGGGT
5' ss Score
6.14
3' ss Seq
CACAGCCGCTGTGTTTGCAGACG
3' ss Score
6.56
Exon sequences
Seq C1 exon
TGCATCACCAGCCACACGCGGCACCTGAAGATCAACTCGTCCCTGCAGATGCCGGACCGCGTGCTGAACTTCGTCAAAGACCACTTCCTGATGGACAGCCCGGTGCGCAGCCAGCCGCTGCTGCTGCAGAGCCGCCTGCGCTACCAGCAGATCGGCGTGCACCGCGTGCAGGGGCTGCGCGGCACCTACGACGTCCTCTTCCTGGGCACGG
Seq A exon
GTGGGTGCAGCCCGGGGGCTGGGCGGCACCGGGGATGGGCGCTTTGAGCCCCCAGCCCTGCTCAGCACAGCCGCTGTGTTTGCAG
Seq C2 exon
ACGATGGCCGCTTGCACAAGGCAGTGCGTGTGAACCACCGGGTGCACATCATCGAGGAGATCCGCCTTTTCCCCACTGGGCAGCCCATCCTGCAGTTGCTGCTGGACCACGAGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000008297:ENSGALT00000013511:11
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=0.000
Domain overlap (PFAM):
C1:
PF0140314=Sema=FE(15.9=100)
A:
NA
C2:
PF0140314=Sema=FE(8.6=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GACCACTTCCTGATGGACAGC
R:
TTCACACGCACTGCCTTGTG
Band lengths:
167-252
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]