BtaINT0130932 @ bosTau6
Intron Retention
Gene
ENSBTAG00000031658 | SEMA6B
Description
sema domain, transmembrane domain (TM), and cytoplasmic domain, (semaphorin) 6B [Source:HGNC Symbol;Acc:HGNC:10739]
Coordinates
chr7:20798734-20799715:+
Coord C1 exon
chr7:20798734-20798792
Coord A exon
chr7:20798793-20799167
Coord C2 exon
chr7:20799168-20799715
Length
375 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGA
5' ss Score
10.77
3' ss Seq
CACGCCGCCCTCCCTGCCAGGAC
3' ss Score
9.05
Exon sequences
Seq C1 exon
AGCCACCTTTGAGCAGGATGTGTCTGGGACCAGCACTTCAGGCTTAGGGGACTGCACAG
Seq A exon
GTAAGAGGGGAGAGGGGAGGAGGCCTGGGGACTCTAAGTCCTGGTCCTCCAGGGTTCTCACACCTGGATGGATGGGATACACTGACGTCCCTCAGGGCTTGGGAAGGACAGGGGGCCCCAGTTCCAGGTAGGGTAGTGGGAAAAGGACAGACAGACGGGGACGGGAGGGAGGGCAGAGAGAGGCCAAGAGAAAGGCAGGTGGACAGACAGATTTTAGGAAGACAGATGCCAGGGGACAGACGGATGGGCAAATGGGCTTTGAAAGGGTCAGAGAGACGCCCCTGAGCAGAGAGGTGGACAGACCGGCTGGAGGTCGCAGGTGGTGTGCAGGGGACGGTCCCCGGCCAGCCCTTCTCACGCCGCCCTCCCTGCCAG
Seq C2 exon
GACTCCTGCGCGCCAGCCTCTCGGAGGAGCGCGCTGGGCTGGTGTCGGTGAACCTGCTGGTGACGTCGTCGGTGGCGGCCTTCGTGGTGGGCGCCGTGGTGTCCGGCTTCAGCGTGGGCTGGTACGTGGGGCTCCGCGAGCGGCGCGAACTGGCCCGCCGCAAGGACAAGGAAGCCATCCTGGCACACGGGGGCGGCGAGGCCGTGCTGAGTGTCAGCCGCCTGGGCGAGCGCCGGGCGGGCGGCCCCGGAGGCCGGGCCGGGGGCGGCGGCGGCGGGCCCGGGGGTCCCCCGGAGGCTCTGCTGGCGCCCCTGATGCAGAACGGCTGGACCAAGGCTACGCTGCTGCAGGGCGGACCCCACGACCTGGACTCTGGGCTGCTGCCCACGCCCGAGCAGACGCCGCTGCCCCAGAAGCGCTTGCCCACCCCGCACCCGCACACCCTGGGCCCCCGCGCCTGGGAACACGGCCCGGCGCTGCTCACGGCCTCCGCCTCGTCCTCGCTCCTGCTGCTGGCCCCCGGCCGCGCCCCTGAGCCGCCCCCCGCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000031658:ENSBTAT00000003619:16
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.095 A=NA C2=0.612
Domain overlap (PFAM):
C1:
PF0143720=PSI=FE(35.7=100)
A:
NA
C2:
PF0143720=PSI=PD(0.1=0.0)
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:
CTTCAGGCTTAGGGGACTGCA
R:
GTCCAGCCGTTCTGCATCAG
Band lengths:
355-730
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]