BtaINT0130933 @ bosTau6
Intron Retention
Gene
ENSBTAG00000031658 | SEMA6B
Description
sema domain, transmembrane domain (TM), and cytoplasmic domain, (semaphorin) 6B [Source:HGNC Symbol;Acc:HGNC:10739]
Coordinates
chr7:20788720-20789100:+
Coord C1 exon
chr7:20788720-20788869
Coord A exon
chr7:20788870-20788976
Coord C2 exon
chr7:20788977-20789100
Length
107 bp
Sequences
Splice sites
5' ss Seq
ACTGTGAGT
5' ss Score
7.94
3' ss Seq
CTTCCTCTGCCCTCCTCCAGACC
3' ss Score
11.32
Exon sequences
Seq C1 exon
GTGTTACCTCCTGTCGCCCTGACCTCGCCATGCGGACCCCGCGAGGGCCCCCTTCCCGTCCGGCCCTACTGCTCCTGCTGCTGCTCCTGGGAGGCGCCCACGGCCTCTTCCCCGAGGAGCCGCCGCCGCTCAGCGTGGCCCCGAGGGACT
Seq A exon
GTGAGTGGGGAGTCTTGAGATGGGGGAGGGAGTCCCCCTCCCCCGGGGTCTCACCAGGCCAGACTCACCCTGGCCCTGGATCACACCCTTCCTCTGCCCTCCTCCAG
Seq C2 exon
ACCTGAATCACTATCCCGTGTTCGTGGGCAGTGGGCCAGGACGCCTGACCCCCTCAGAAGACGCTGATGACCTCAACATCCAGCGAGTTCTACGGGTCAATAGAACGCTGTTCATCGGGGGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000031658:ENSBTAT00000003619:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.220 A=NA C2=0.179
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0140314=Sema=PU(4.0=40.5)
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:
GTTACCTCCTGTCGCCCTGA
R:
GACCCGTAGAACTCGCTGGAT
Band lengths:
246-353
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]