BtaINT0130958 @ bosTau6
Intron Retention
Gene
ENSBTAG00000007281 | SEMA6C
Description
sema domain, transmembrane domain (TM), and cytoplasmic domain, (semaphorin) 6C [Source:HGNC Symbol;Acc:HGNC:10740]
Coordinates
chr3:19722929-19723316:+
Coord C1 exon
chr3:19722929-19723048
Coord A exon
chr3:19723049-19723227
Coord C2 exon
chr3:19723228-19723316
Length
179 bp
Sequences
Splice sites
5' ss Seq
GAGGTCAGG
5' ss Score
4.94
3' ss Seq
TCCTGTCACTTCCCACTCAGAGC
3' ss Score
7.25
Exon sequences
Seq C1 exon
AGGGCAGCCTGTACTCAGCCACAGCTGCAGACTTCCAGGCCAGTGATGCTGTGGTTTACCGAAGCCTTGGGCCTCAGCCCCCGCTCCGCTCCGCCAAGTACGACTCCAAGTGGCTCCGAG
Seq A exon
GTCAGGGTGGGCCTGGGGGAGGGAGGCTGCTCTTGGGGAGGAGGTGCAGGGGGAGGGCTGTGGCAGGCAGGTGGTGGTAATTGTGTGCAGGTGTGCTAAGGGGAAAGGCGGTGTGGGATCAGGAGATTCTGGACAGGTACAGATACTTTTCCATACCGTTCCTGTCACTTCCCACTCAG
Seq C2 exon
AGCCACACTTTGTCCACGCTTTGGAGCACGGAGACCATGTCTACTTCTTCTTCCGAGAAGTCTCTGTGGAGGATGCCCGGCTGGGGAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000007281:ENSBTAT00000009575:8
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(9.4=100)
A:
NA
C2:
PF0140314=Sema=FE(6.8=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:
AGGGCAGCCTGTACTCAGC
R:
CAGCCGGGCATCCTCCAC
Band lengths:
203-382
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]