BtaINT0130930 @ bosTau6
Intron Retention
Gene
ENSBTAG00000031658 | SEMA6B
Description
sema domain, transmembrane domain (TM), and cytoplasmic domain, (semaphorin) 6B [Source:HGNC Symbol;Acc:HGNC:10739]
Coordinates
chr7:20797678-20798600:+
Coord C1 exon
chr7:20797678-20797824
Coord A exon
chr7:20797825-20798522
Coord C2 exon
chr7:20798523-20798600
Length
698 bp
Sequences
Splice sites
5' ss Seq
GAAGTGAGT
5' ss Score
7.97
3' ss Seq
GGGTCCCTTGTCTGCCCTAGGAA
3' ss Score
8.73
Exon sequences
Seq C1 exon
GTGTGGACGGTCTGGAGATGGCGAGACAGGGCAGCGGCTGCTGAGCCTGGAGCTGGATGCGGCCTCAGGCGGCCTGCTGGCAGCCTTCCCCCGCTGTGTGGTCCGAGTGCCCGTGGCGCGCTGCCAGCAATACTCAGGATGCATGAA
Seq A exon
GTGAGTGCCCCCTGCCCCCGGCCAGGTGTGGGCAAGGGAAGTGAAGGGAGGTGAGCGTGGAAAGAGGGGGAGAGTCAAGTTCAAGTGCAGGCTCCAACAGCATTCTGACTCTCTGAATGATGGACAGAGGGCATAGCATGTGCAAAGGTCCTGGGGCAGGAATGCTGGGTGTGTTGGTGGAACAGTGAGAAGCCCTCTATGGCTGGAGCAGAATGAGTGATGGGAAGGGAGAAGACAGGGAAGGTTGGGCAGGGTCTGTGAGCCTCAGGAGGACTTGGGTTCTTTCCCCCACCCCCAGAGTGAGGTGGGAGCCCCAGAGATCTGTGGGCAGAGTAGGATGGGATCTGACAGACATTTCTAAGAGAAGCAGAAGCTGGGGACCAGGGAACAGGTGTTTGCAAAATACTGGCACACTCTTGGACTCAGAGTGAGCCCTCCGCATGCAGCACCCTGGCCCCGTGCCTGCCATCATGGTAGCAGTGATGCCATAGCACAGATCCAAAATCTGGGCTCCAAACCCGGCTCTGTCCCTTGGACAAAAGTAAACGTTCCTGAGCCTCAGTTCTCTCATCTGTAAAATGGGGAAGGAATAGCCCCCACTGTTAAGATGTGTCTTGGGAACTCCCAGAGCTGACGGTAAGAGGTGCCTCTGCAGAAACCCTGGTTGATCTGCCTGCCGGGTCCCTTGTCTGCCCTAG
Seq C2 exon
GAACTGCATTGGTAGTCAGGACCCCTACTGCGGGTGGGCCCCGGATGGCTCCTGTGTCTTCCTGAGCCCTGGCACCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000031658:ENSBTAT00000003619:14
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.100 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0140314=Sema=PD(0.2=2.0),PF0143720=PSI=PU(16.1=18.0)
A:
NA
C2:
PF0143720=PSI=FE(46.4=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:
GTGTGGACGGTCTGGAGATGG
R:
GTGCCAGGGCTCAGGAAGA
Band lengths:
222-920
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]