BtaINT0130911 @ bosTau6
Intron Retention
Gene
ENSBTAG00000020489 | SEMA6A
Description
sema domain, transmembrane domain (TM), and cytoplasmic domain, (semaphorin) 6A [Source:HGNC Symbol;Acc:HGNC:10738]
Coordinates
chr7:38761775-38762485:+
Coord C1 exon
chr7:38761775-38761951
Coord A exon
chr7:38761952-38762344
Coord C2 exon
chr7:38762345-38762485
Length
393 bp
Sequences
Splice sites
5' ss Seq
AAAGTGCGT
5' ss Score
5.93
3' ss Seq
ATCCTGCCTTAAAAATGTAGGTG
3' ss Score
5.99
Exon sequences
Seq C1 exon
ATACCGCCTGACCAAAATCGCGGTGGACACCGCTGCTGGCCCGTATCAGAACCACACTGTGGTTTTCCTGGGATCGGAGAAGGGAATCATCTTGAAGTTCTTGGCCAGGACAGGAAACAGTGGTTTCCTAAATGACAGCCTTTTCCTGGAGGAGATGAGCGTTTACAATCCTGAAAA
Seq A exon
GTGCGTGGAATGTTTGGTTCTTTTCCTAGTACTTATTTGTCACGTTATTATCTTTTCCATTCAGAGAAAGCATGGTAGACTTAGATTTTATGCATTTTAGGTGACTTTTAGCATTATTTGTAAAAATCCTTTCATACATTAAAAGCATTATTTCCTCCTTGCTGCTAATGTGTGCGTTTATACAGGTAAACACATATATTGTGTATTTATGTGTATGTATGTGGGTGCACACATAAGGATCCATTGCTTCTTCAGTTAGATCAGATGAAGAGACCTAATCTCATAGGCTGGGGGTGGGGAGGTGGCGGGGAGGTGGCAGGTGGTGGCAGGAAGAAAAGAACTAACCCAAGAGAGACTATGAATGCCTTAGACTATCCTGCCTTAAAAATGTAG
Seq C2 exon
GTGCAGCTATGACGGAGTAGAAGACAAGAGGATCATGGGCATGCAGCTGGACAAAGCCAGCAGCTTCCTGTATGTTGCATTCTCCACTTGTGTGATCAAGGTTCCCCTTGGCCGGTGTGAGCGGCATGGCAAGTGTAAAAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000020489:ENSBTAT00000043906:12
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(13.5=100)
A:
NA
C2:
PF0140314=Sema=PD(3.4=31.2),PF0143720=PSI=PU(13.4=18.8)
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:
ATACCGCCTGACCAAAATCGC
R:
TTTTTACACTTGCCATGCCGC
Band lengths:
318-711
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]