BtaINT0130931 @ bosTau6
Intron Retention
Gene
ENSBTAG00000031658 | SEMA6B
Description
sema domain, transmembrane domain (TM), and cytoplasmic domain, (semaphorin) 6B [Source:HGNC Symbol;Acc:HGNC:10739]
Coordinates
chr7:20798523-20798792:+
Coord C1 exon
chr7:20798523-20798600
Coord A exon
chr7:20798601-20798733
Coord C2 exon
chr7:20798734-20798792
Length
133 bp
Sequences
Splice sites
5' ss Seq
CAGGTACTG
5' ss Score
9.04
3' ss Seq
CTGCTCCCTCCCCCCATCAGAGC
3' ss Score
8.93
Exon sequences
Seq C1 exon
GAACTGCATTGGTAGTCAGGACCCCTACTGCGGGTGGGCCCCGGATGGCTCCTGTGTCTTCCTGAGCCCTGGCACCAG
Seq A exon
GTACTGGGGAAGTGGGAGGTGTGGGGAGGGTGACTGAGTCACCTGATGATCGGGAGTCCCCCACCCCCACCAACCACAGCTCTGTGCCAGGGGTTTCCGCTGACGGTGCCTCTCTGCTCCCTCCCCCCATCAG
Seq C2 exon
AGCCACCTTTGAGCAGGATGTGTCTGGGACCAGCACTTCAGGCTTAGGGGACTGCACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000031658:ENSBTAT00000003619:15
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=0.095
Domain overlap (PFAM):
C1:
PF0143720=PSI=FE(46.4=100)
A:
NA
C2:
PF0143720=PSI=FE(35.7=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTGCATTGGTAGTCAGGACCC
R:
TGCAGTCCCCTAAGCCTGAAG
Band lengths:
131-264
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]