GgaINT1024707 @ 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
chr12:3222619-3222902:+
Coord C1 exon
chr12:3222619-3222720
Coord A exon
chr12:3222721-3222808
Coord C2 exon
chr12:3222809-3222902
Length
88 bp
Sequences
Splice sites
5' ss Seq
GAGGTGGGC
5' ss Score
6.32
3' ss Seq
CACTGACCCCACTCTCCCAGGAC
3' ss Score
5.85
Exon sequences
Seq C1 exon
GCCGACTGCATGAACTTCGTGAAGATCCTGCACGCCTACAACCGGACCCACCTGTACGCCTGCGGCACCGGCGCCTTCCACCCCACCTGCGCCTTCGTGGAG
Seq A exon
GTGGGCCAGCACACCGAGGTGAGATGTGGCATGCCACGGTGCGGCACGGTGCGGCACGGCACTGCTGGCACTGACCCCACTCTCCCAG
Seq C2 exon
GACCACGTCTTCAAGCTGGATGCGCGGCGCGCTGAGGATGGCAAAGGGAAGAGCCCCTACGACCCCCGGCACGCGGCCGCCTCCGTTCTCGTGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000013722:ENSGALT00000035861:4
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=0.156
Domain overlap (PFAM):
C1:
PF0140314=Sema=FE(7.6=100)
A:
NA
C2:
PF0140314=Sema=FE(7.1=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCGACTGCATGAACTTCGTGA
R:
GGGGTCGTAGGGGCTCTTC
Band lengths:
167-255
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]