BtaINT0130806 @ bosTau6
Intron Retention
Gene
ENSBTAG00000021273 | SEMA4B
Description
sema domain, immunoglobulin domain (Ig), transmembrane domain (TM) and short cytoplasmic domain, (semaphorin) 4B [Source:HGNC Symbol;Acc:HGNC:10730]
Coordinates
chr21:22037505-22037917:+
Coord C1 exon
chr21:22037505-22037715
Coord A exon
chr21:22037716-22037801
Coord C2 exon
chr21:22037802-22037917
Length
86 bp
Sequences
Splice sites
5' ss Seq
CTGGTGCGT
5' ss Score
8.29
3' ss Seq
GAGCAATGTCCTTATCGCAGGTG
3' ss Score
5.76
Exon sequences
Seq C1 exon
TGCATCACCAATAGTGCCCGGGAGAGGAAGATCAACTCGTCACTGCAGCTCCCTGACCGCGTGCTGAACTTCCTCAAGGACCACTTCCTGATGGACGGACAGGTCCGCGGCCGCATGTTGCTGCTGCAGCCCCAGGCTCGCTACCAGCATGTGACTGTCCACCGTGTGCTGGCCCTGAACCGCACCTACGACGTCCTCTTCCTGGGCACTG
Seq A exon
GTGCGTGCCCACTGCAGGCGGGCTGGGGGTCGAGGGGGCATGGGCGGCAGGCTCTTCACAGGGCCTGAGCAATGTCCTTATCGCAG
Seq C2 exon
GTGACGGCTGGGTGCACAAGGCGGTGAGCGTGGGCACCGCGGTGCACATCATTGAAGAGCTCCAGGTCTTCCCGGCAGGACAGCCCGTGCGGAACCTGCAACTGGACGCCGACAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000021273:ENSBTAT00000028346:10
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.056 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0140314=Sema=FE(16.0=100)
A:
NA
C2:
PF0140314=Sema=FE(8.7=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:
GCTACCAGCATGTGACTGTCC
R:
CGTCCAGTTGCAGGTTCCG
Band lengths:
180-266
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]