GgaINT0028628 @ 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
chr10:19534297-19534645:+
Coord C1 exon
chr10:19534297-19534460
Coord A exon
chr10:19534461-19534550
Coord C2 exon
chr10:19534551-19534645
Length
90 bp
Sequences
Splice sites
5' ss Seq
CCAGTAAGT
5' ss Score
9.09
3' ss Seq
GACCCTCCTCTCTGCCTCAGGCT
3' ss Score
8.93
Exon sequences
Seq C1 exon
GGCCTGGTCTATGCGGCCTCCTACACGGCAGTGGCTCAGGTGCCCTTCTCTAACTGCAGCCTGTACCGCAGCTGCGGTGAGTGTGTGCTGGCACGGGACCCCTTCTGTGCCTGGAGCCACGGCGCCTGCCGCAGCACCGCCCCGCACCCCCCGGCGCATCCCCA
Seq A exon
GTAAGTGCTGCCCCCCACCAGTGCTCCATCTTCCTCAGTGCTGCACTACCCCTGCAGCCCCCACACCCCTGACCCTCCTCTCTGCCTCAG
Seq C2 exon
GCTGTGGGCTCAGGACATCGAAGGTGCCGAGACAGAGCGGCTCTGCCAGCCAGCCAACGTGTCCCAGCCCCGGCCCCGCGTCCTCCTGCCTCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000008297:ENSGALT00000013511:13
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.055 A=NA C2=0.212
Domain overlap (PFAM):
C1:
PF0143720=PSI=PU(68.5=67.3)
A:
NA
C2:
PF0143720=PSI=PD(29.6=48.5)
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:
GGCTCAGGTGCCCTTCTCTAA
R:
CTCTGTCTCGGCACCTTCGAT
Band lengths:
169-259
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]