GgaINT1024725 @ 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
chr10:19531314-19531808:+
Coord C1 exon
chr10:19531314-19531474
Coord A exon
chr10:19531475-19531745
Coord C2 exon
chr10:19531746-19531808
Length
271 bp
Sequences
Splice sites
5' ss Seq
AGGGTGAGC
5' ss Score
7.75
3' ss Seq
TGACCATCCCCTCTCTGCAGCTG
3' ss Score
11.04
Exon sequences
Seq C1 exon
ACTCAGCTGAGCGTGTGGTGCAGCGCTTCGAGGTGCCCGGGGTCTCCAACTACACGGCGCTGCTGCTGAGCCCGGATGGTGGCACGCTGTACCTGGGTGCACGTGAGGTGCTCTTTGCTGTCAACACCAGCCACTTCCAGCACGGCGTGCTGGCCCGCAGG
Seq A exon
GTGAGCCCACGTGCACGGTTCCAACACCACGAGTCCATGGAGAGGGCTGGGGACACTGAGCCCAGCTCTGGCGTGGGGTCCTGGTGCATTCTGCAGCTGGTCAGGGCAGTGCAGAGGCAGCTGCACCAGCTGTGCCGGCATTGGGTGCTCAGACCCAGCTGCTGGGATCTATCTGGAATGGGATCGAGTGGAGCTGCTGATATTGGGACCGCAGAGGGGTGCTGGGGGCCCGTTGGTGATTGGGCTCTCAGTGACCATCCCCTCTCTGCAG
Seq C2 exon
CTGCCTTGGGGTGCGGATGAGGAGAAGAAGAGGCAGTGCGTGTTCAAGGGCAAGGACCCCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000008297:ENSGALT00000013511:3
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=PU(8.2=66.7)
A:
NA
C2:
PF0140314=Sema=FE(4.5=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:
ACTCAGCTGAGCGTGTGGT
R:
GGGTCCTTGCCCTTGAACAC
Band lengths:
220-491
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]