BtaINT0130928 @ bosTau6
Intron Retention
Gene
ENSBTAG00000031658 | SEMA6B
Description
sema domain, transmembrane domain (TM), and cytoplasmic domain, (semaphorin) 6B [Source:HGNC Symbol;Acc:HGNC:10739]
Coordinates
chr7:20796917-20797589:+
Coord C1 exon
chr7:20796917-20797066
Coord A exon
chr7:20797067-20797406
Coord C2 exon
chr7:20797407-20797589
Length
340 bp
Sequences
Splice sites
5' ss Seq
GCGGTCAGT
5' ss Score
6.52
3' ss Seq
TGCTCCACCCTGGCCCCAAGGCA
3' ss Score
3
Exon sequences
Seq C1 exon
GCCCGGGTGCTGCGCAGCTCCTGGCATGCAGTACAATGCCTCGAGCGCCTTCCCAGACGAGATCCTCAACTTTGTCAAGACACACCCCCTGATGGACGAGGCCGTGCCCTCCCTGGGCCACGCACCCTGGATCGTTCGGACTCTGATGCG
Seq A exon
GTCAGTTCCTACACTTGGCTGGGGTACTGGTGGCCAGGCCTGGGTGGGGACAAGAGCCCAGGCCAGGGTGGTGAGTGAGAAGGGAGCACAGGGGCAACTTCCGACATGACACGAGAGGAAGGCAGAGATGGAGGGAGACACAGAGATGGAGGCAGATGGGGAGATGAAGACAGGAGAGCCCAGGGAGGAGCTGGCTTTGGGGGTCTGTTTCTCTCTGTGATGTGCACCCTTGGAGCCACGCCCATGCCCACCTTGCCCAGCATGGGTGGTGTCTCTGAGTGCACACAGGGGACCACAGGGCTGGGCGGCAGCCTTACTTCTGCTCCACCCTGGCCCCAAG
Seq C2 exon
GCACCAGCTGACACGAGTGGCTGTGGACGTGGGCGCCGGCCCCTGGGGCAACCAGACTGTTATCTTCCTCGGGTCTGAGGCAGGCACGGTCCTCAAGTTCCTTGTCTGGCCCAACGCCAGTGCCTCGGGTACCACGGGACCCAGTGTCTTCCTGGAGGAATTTGAGACCTACCGGCCTGACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000031658:ENSBTAT00000003619:12
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.039 A=NA C2=0.016
Domain overlap (PFAM):
C1:
PF0140314=Sema=FE(11.8=100)
A:
NA
C2:
PF0140314=Sema=FE(14.5=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:
AGCTCCTGGCATGCAGTACAA
R:
CTGTCAGGCCGGTAGGTC
Band lengths:
318-658
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]