HsaINT0147466 @ hg38
Intron Retention
Gene
ENSG00000092421 | SEMA6A
Description
semaphorin 6A [Source:HGNC Symbol;Acc:HGNC:10738]
Coordinates
chr5:116488108-116489007:-
Coord C1 exon
chr5:116488888-116489007
Coord A exon
chr5:116488197-116488887
Coord C2 exon
chr5:116488108-116488196
Length
691 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAAC
5' ss Score
5.54
3' ss Seq
AAGTGCCTGTTTGTCTACAGAAC
3' ss Score
7.51
Exon sequences
Seq C1 exon
ATGGAAAACTATACTCAGCCACAGTGACTGACTTCCTTGCCATTGACGCAGTCATTTACCGGAGTCTTGGAGAAAGCCCTACCCTGCGGACCGTCAAGCACGATTCAAAATGGTTGAAAG
Seq A exon
GTGAACAAACAATTAAAAGAAGGAGGGTCGGAGGGGAGGGGAATACACATCTTGTGGGAGATTTAGAGTCTGGAGGGACCAGACTGTATCTTCATTTGAGTAATGGCTTCTGACAGACAGAAACATGTAAATTGCATCTTTGGCTTCAACTGATTTATTTACCTCCCTTTTTTCCTTCCCCTGAGTTTCTGGAGTATTAACAAAACTACCAATGCCACAACAATAGAATACATTACATTCATGTTTTCTTGCTTCAAGCTCTCATTTCTGAGTTCTGCATGAAAAGAACTGAACAATGTATTCATGGAAGGGGACAGGGGCTTGGAGGTGGTGGAGAAGAGGAGAAAAGCTATTCACAACCCTGTATGAGTCAGGGTGACAAGGCAATGTATACAAAATCTTCTCTGTAATAGGGGCATTCCATTGTGGAAAATAAAATTACAGAGATATGCAAAATTCCATATTTCTTCATTGTTGATTGCAAAGCTTCTGAAAGAGATAATGTGTAAGTGTGAATGCCTTGTGAAATCACCAGCACTTGCATGTGTGAAGTCATTTGAAATGGTTAGTGTTAACCAAATGTCTAATGGTGCTACACTTTTAATTAATAACATGTCTTTGGCTACACTTGATTGAAATTCTGTTAACTCTGTTTGACATGTTCCCAATTAAAGTGCCTGTTTGTCTACAG
Seq C2 exon
AACCATACTTTGTTCAAGCCGTGGATTACGGAGATTATATCTACTTCTTCTTCAGGGAAATAGCAGTGGAGTATAACACCATGGGAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000092421:ENST00000343348:8
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(9.2=100)
A:
NA
C2:
PF0140314=Sema=FE(6.7=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGGAAAACTATACTCAGCCACAGTG
R:
TTCCCATGGTGTTATACTCCACTG
Band lengths:
206-897
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