BtaINT0130937 @ bosTau6
Intron Retention
Gene
ENSBTAG00000031658 | SEMA6B
Description
sema domain, transmembrane domain (TM), and cytoplasmic domain, (semaphorin) 6B [Source:HGNC Symbol;Acc:HGNC:10739]
Coordinates
chr7:20791526-20792340:+
Coord C1 exon
chr7:20791526-20791627
Coord A exon
chr7:20791628-20792249
Coord C2 exon
chr7:20792250-20792340
Length
622 bp
Sequences
Splice sites
5' ss Seq
AGCGTGAGT
5' ss Score
8.2
3' ss Seq
ATTCCCCCCCACCCCCGCAGATG
3' ss Score
11.06
Exon sequences
Seq C1 exon
GGCGAGTGTCGAAATTTTGTAAAGGTGCTTCTACTTCGGGACGAATCCACTCTCTTCGTGTGTGGTTCCAATGCCTTCAACCCCGTGTGTGCCAACTACAGC
Seq A exon
GTGAGTCACCGCCCTTCGAAGCCCTGCCCGCCCAGGTTTAACATCGGCGCCCCTTTGGTCATGGGCCCTCTGCTGGTCGTGCCGTTTCCCCAGGCCACATCACCTCCTACAGGAAGCCTTACTGGATGAACTGTCCTCCCCTCTATCACCCGGAATTCCATAAGAGGCTTCCAAAGGCGGCCTCTACAGGCTGAGGCTACTTAGGCTACAGGCCCGTTATCGGATTGACTAGGATCGACTCCTAGACCCAATTTCTGATCAGTAAATTGAGCCCTGGATTTCCCTGGTGGCTCAGCGGTTAAAAATCCACTTGCTAATGCAGGAGGCGCAGGTTCCATCCCTGGAAGATCCCCTGGAGAAGGAAATGGCAACCCACTCCAGTATTCTTGCCTGGGAAATCCCATGGACACAGGAGCTTGGTGAGGTCACAAAAGAGTCGGACACGACTAAGCCACTAAACAACAACAAAACTCAGCCCCAGAGAGGTTGAGTGACTGACAAAGTCACACAGCATCCAAGGTGGCATCAGGATTCCCCTCGGAGGGGGTTGCTGGGGGAGCCAGGGGCTGCTAGGTACAGCCAGGAGCTGTCACTCAGACCCTATTCCCCCCCACCCCCGCAG
Seq C2 exon
ATGGACACACTGCAGCCCCTCCGGGACAACATCAGCGGCATGGCCCGCTGCCCATATGACCCCAAACACGCCAACGTTGCCCTCTTCTCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000031658:ENSBTAT00000003619:6
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=0.000
Domain overlap (PFAM):
C1:
PF0140314=Sema=FE(7.8=100)
A:
NA
C2:
PF0140314=Sema=FE(7.1=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:
GGCGAGTGTCGAAATTTTGTA
R:
CAGAGAAGAGGGCAACGTTGG
Band lengths:
193-815
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]