BtaINT0130927 @ bosTau6
Intron Retention
Gene
ENSBTAG00000031658 | SEMA6B
Description
sema domain, transmembrane domain (TM), and cytoplasmic domain, (semaphorin) 6B [Source:HGNC Symbol;Acc:HGNC:10739]
Coordinates
chr7:20796215-20797066:+
Coord C1 exon
chr7:20796215-20796346
Coord A exon
chr7:20796347-20796916
Coord C2 exon
chr7:20796917-20797066
Length
570 bp
Sequences
Splice sites
5' ss Seq
CCGGTGAGA
5' ss Score
8.72
3' ss Seq
AACCCCTCGCCCCCACCCAGGCC
3' ss Score
5.66
Exon sequences
Seq C1 exon
CATCCCCGGCTCAGCTGTCTGCGCCTTTGACATGACACAGGTGGCTGCCGTGTTTGAGGGCCGCTTCCGTGAGCAGAAGTCCCCTGAGTCCATCTGGACACCCGTGCCAGAGGATCAGGTGCCGCGGCCCCG
Seq A exon
GTGAGAGGCCCCTCCATCCTGCAGTGGGTACCCGGGTAGGATCCTGACCCTGAACTGAGGGCTGGGACTCCCAGGCACTTGTTTAGCTGTTGCCGAGGTCAGCTGTGGGCTTCCTTGGTAGCTCACCTGGTAAAGAATCTGCCTGCAATACAGGAGACCCTGGTTCAATTCGTGGGTCAAGGAGATCCCCTGGAGATAGGATAGGCTACCCACTCCAGTATTCTTGGGCTTCCCTGGTGGCTTAGACGGTAAAGAATCCACCTGCAATGCAGGAGACCTGGGTTTGATCCCTGGTTGGGAAGATCCCCTGGAGGAGGGCATGGCAACCCACTCCAGTATTCCTTCCTGGAGAATCCCCATGGACAGAGGAGCTTGGTGGGCAGAAGTCTGTGGGGTCACAAAGAGGTGGACAAGAGTGAGCAACTAAGCACAGCACAGCACAGAGGTCAGCTGTAGCCATTATGCAGGTGGAGAAAACTGAGGCCCTTGGAGCAGGGGCACCCTAGTGAATCAGAGCCCCTCAGTGGGGGCCTCCAGGTCTGCCCTGACCAACCCCTCGCCCCCACCCAG
Seq C2 exon
GCCCGGGTGCTGCGCAGCTCCTGGCATGCAGTACAATGCCTCGAGCGCCTTCCCAGACGAGATCCTCAACTTTGTCAAGACACACCCCCTGATGGACGAGGCCGTGCCCTCCCTGGGCCACGCACCCTGGATCGTTCGGACTCTGATGCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000031658:ENSBTAT00000003619:11
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.289 A=NA C2=0.039
Domain overlap (PFAM):
C1:
PF0140314=Sema=FE(10.4=100)
A:
NA
C2:
PF0140314=Sema=FE(11.8=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:
ATCCCCGGCTCAGCTGTC
R:
GCATCAGAGTCCGAACGATCC
Band lengths:
280-850
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]