BtaINT0130925 @ bosTau6
Intron Retention
Gene
ENSBTAG00000031658 | SEMA6B
Description
sema domain, transmembrane domain (TM), and cytoplasmic domain, (semaphorin) 6B [Source:HGNC Symbol;Acc:HGNC:10739]
Coordinates
chr7:20787833-20788869:+
Coord C1 exon
chr7:20787833-20788036
Coord A exon
chr7:20788037-20788719
Coord C2 exon
chr7:20788720-20788869
Length
683 bp
Sequences
Splice sites
5' ss Seq
AGGGTGAGT
5' ss Score
9.25
3' ss Seq
GCCCCGCCCCTCGCTCACAGGTG
3' ss Score
11
Exon sequences
Seq C1 exon
GGCTCATGTCCACCTCCACGGATTCGGAATCCCCATGCCCCCAGGGCCTGGGCAGGGCTGGGAGATGTATCTGCTGCTCAGGCAGGGAAACTGAGGCTCAGAGCTAGCCCGGGACTTCACAGGAGGACGAGGCTTCGGATGTTTTCCTGGGGCCTCCGGACGGCGCCTCTTCTGAAAGGGGCCTGGAGGGCTGGGTTCCAGAGG
Seq A exon
GTGAGTTCTGTTTACACCATCAACCAGAGCATCACTCGGGTAGGGGAGGGGTCTCCACACACCTAGAGCAGGAAGCAGCCTCTCCCACAACCCCTCATAAAGGTGGTGAGGCTCCTGTCACAGAAGTATGTCAGCAGAGGACCGAAAGGCTGGACTCGGAAGGAAGTTGGGCTCACCACGGCCTCTGAGGTCCCCAGCCAGCTGGAATATTCTGCAATTCCAAAGTTCTGCAGTTCCCAGATTGTGGTTTATAAAATTCCTAGGGCCTTTGAATTTCTTTTTCTTTTTCTTTTTCTGAGCGTTTTAAGATTTTTGTGTTTTAAGAATACTTTAAACGTATGTTTTGAGATTGAATTTTTAAATACATATATGTTTTGAAATGTGTTATTATTCATTTTTAACTTAAAATCATTTAATTTTTAAATTAGTCTCATGATTAATTTTTTGTTAGGAACCGTTTCCTGAACTTTCGCTTTAAAATGTAGTCAGAAAGTTGTTCTGGTAATTAGTAAGTGCTGATATTATTATTGCTAATGCCATGATTGTTATTTTTAAATTATTACCCCAATGGGAAAGTTTTCCGGGACTTGAAGGTTCCGGACGCCGTGACACTCGCGCTCCCTCTGCTGGCAGCAATCGGGACTGCAGGCCACACGGCTCACCGCCCCGCCCCTCGCTCACAG
Seq C2 exon
GTGTTACCTCCTGTCGCCCTGACCTCGCCATGCGGACCCCGCGAGGGCCCCCTTCCCGTCCGGCCCTACTGCTCCTGCTGCTGCTCCTGGGAGGCGCCCACGGCCTCTTCCCCGAGGAGCCGCCGCCGCTCAGCGTGGCCCCGAGGGACT
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000031658:ENSBTAT00000003619:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
5' UTR
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=0.220
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Mouse
(mm10)
No conservation detected
Rat
(rn6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGCTCATGTCCACCTCCACG
R:
CGGCTCCTCGGGGAAGAG
Band lengths:
326-1009
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]