HsaINT0147493 @ hg38
Intron Retention
Gene
ENSG00000143434 | SEMA6C
Description
semaphorin 6C [Source:HGNC Symbol;Acc:HGNC:10740]
Coordinates
chr1:151134620-151134875:-
Coord C1 exon
chr1:151134798-151134875
Coord A exon
chr1:151134676-151134797
Coord C2 exon
chr1:151134620-151134675
Length
122 bp
Sequences
Splice sites
5' ss Seq
TGGGTAAGT
5' ss Score
10.24
3' ss Seq
CCACTTCGTTTTCCTCCTAGGAC
3' ss Score
9.94
Exon sequences
Seq C1 exon
GAGCTGTTTGGCTTCTCAGGACCCATACTGTGGATGGCATAGCTCCAGGGGCTGTGTGGATATCAGGGGATCTGGTGG
Seq A exon
GTAAGTGATGGGTCCTTGGGTTTCCTGAGCATAAAATTCCCCACCAATAAGACAAGCTGAGGGCCAGAGTGGGAGATACGGACAACGTACAGAATTCTATAGCCACTTCGTTTTCCTCCTAG
Seq C2 exon
GACTGATGTGGATCAGGCTGGGAACCAGGAATCCATGGAGCATGGTGACTGCCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000143434:ENST00000368914:16
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.081 A=NA C2=0.970
Domain overlap (PFAM):
C1:
PF0143720=PSI=FE(41.9=100)
A:
NA
C2:
PF0143720=PSI=FE(30.6=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTGTTTGGCTTCTCAGGACCC
R:
CTTGGCAGTCACCATGCTCC
Band lengths:
131-253
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains
- Pre-implantation embryo development