HsaINT0147456 @ hg38
Intron Retention
Gene
ENSG00000092421 | SEMA6A
Description
semaphorin 6A [Source:HGNC Symbol;Acc:HGNC:10738]
Coordinates
chr5:116475545-116477926:-
Coord C1 exon
chr5:116477846-116477926
Coord A exon
chr5:116475604-116477845
Coord C2 exon
chr5:116475545-116475603
Length
2242 bp
Sequences
Splice sites
5' ss Seq
CAGGTAGGC
5' ss Score
9.88
3' ss Seq
TTCCCTTCCTTTTTTAAAAGACT
3' ss Score
6.76
Exon sequences
Seq C1 exon
AACCTGTATTGCCTCCAGAGACCCATATTGTGGATGGATAAAGGAAGGTGGTGCCTGCAGCCATTTATCACCCAACAGCAG
Seq A exon
GTAGGCAGCCTGAGGTGTGGGAGAGGGTGAAGTGGCTTCCAGCCAAGGTGTATTCTAGATGTAAGATTTGCTCTGCTCACACACACCACCACACAGCTTTCTGTGCAAACTCCAGCAACGGGACTGTCAGCCTTTCTCCTACCCTTTCCCATTTCATAGAGCCTCACCACATCACATGTGGCAGATTTCCAATTGATTAATCATCCTCGGACTGATTAAAAACACAGAATGGAAACACAGTGGGCTTCAATGTATTCCCTGGAGAGAGAGACAAGAAGGTGCCTGCCTTGATCATCATGGTGGGAGAAAAGCAGAGAAAAGGAGCAATAGGATACCAATTAGATTAGTGAGTGGTTTGTCCAGCCATAGCAAAACCGGCTTTTGTAATTGACTGTGCAGGGCTGAGAAGAAATTGCAGAACATTTGTTAAGCAATGTAATTGTACTGCAAGCATGGTGTATACATCCAATAAACCTTTTCCTGCGCTGAAGAACAGTTGACCCTATTACTCATCAGGCCGTCAATCAATTCTTGGCAGTTCTCCAACAGATCAGCTAGATGAGGCCAGTCCACCATGCCTATGATTTTGGTGTTTAAAATTGTTACCCTGGCTTTAAATGCTTAGATGGCATTAGCTAAGAGGTTTCTTTTTATGCTTTTACTTCAGTGGATGTGAAATCCAAAATAAATTTGCAGAAGTATTCAATGTTTATCTTTGATGGGTTGTGGCAGGCAGTTTAGGAGGTTAGACAGCACAGATCTTTCTTCAACACAGCCATTTCTTCAACCTCCTCAGATCCAAAGGGGGAACAGAACCATCTTTAAATCACTGTGAGCCTCCCTTCCTATTTCAGAATAGCTAAACAAACAGATCAAGGGCATATCTGATGACCACTACCTGCATAATTTGAGGACAAGTACTCTCGTAAACAGAGCTGATGATAACTATAAAATCTGACCTAGAAATTTGACTAATGCAAAAGGTTGAGTCTCTGTATATTATTAGAACAGCTTTGCAAGTAGCATTATTGACATGCTATAATCTTAGAGCTCTGTACCTTTGCATGGGAACCCTCAAGGTGGAGGAGAAAGGATCACAAAGCATGGTGAGGGGAGCTATGAGATGACCTATGTCCTTTCTATGTTCAACATGTGACCGAAGGCTATAAGACTGAATTTTAAAAAATTATTGTTAAGTCAATATAAGAACCCCAAAATAGTTTCCTTAAGGTTTGCATTCATATTTCAATGATGCTGGCATTGCTTAAAACATGGGGCGTTCCCTTTGGAGAGTGGGCTCCAGGGCATGATGAATATTGGCTGTCATTACCACTAGAAATCTTCATCTTTTGAGGGATTTGATTTTTAATGTGGCAAAAAAGATTAGAAACCAAACACGGTGGATTATTAGATCAAGCTGTGACTTTCAAAATAGTTTTCCTATACGGCTCATAAATAAACTCTGAAAGCAGTTGCAAAATAAGAGTTTCAATTATATTATGGGAATATGTACAAAGTGCCCCCAAAGGAAGGTGACTCTGGTGTGCTTATTTTAAAAATCAAAATAGCTTTTATTAAAATTGGTTTTGTTAATGTCATGTTGCTTGTACAGCCCAATGGTGACCTAGTAGACTTGGAAGAAACATGAGCATGTCAAAGAGAATGAGAGTAATACTCCCAAGGACTGGGGCAGGGCTGGGAGTGAACAAATAACCAAGCAGTCTCCACAAAATGCACCACCGGCTCCTGTCCCCTCACTTGGACCTTTGAACACTTTATCGTCCAAGTTTTTGGCTAGATAAATGTCTAGGCAAAAAACCTTGCCTAGGAAGGCAAGGGTAGGAGTGAAAAAGAGAATAGAGAAAAAAAGATTTTTCTTTTTAATTTATAGACTTCCATATTGTTTCTATGAGGCGTGTATTTTAACATCTAAACTTCTTAAATGTTTAAGAAATGCTCAGAGAATTAGAGTAAAGAAGGATGTAAATAATCTGCAAGCTAATTATCTCCCTGAATAATATCTGAATTCACTGCTTAAACCATGGCTTCTCTTTGGAGAGTCACCTAAGACTCGTTTCTATAAACTTCAGAGATAAATTTTAAAGCTGTTATGTATTTCTTTTTTGCACCTGCCACTCAATTTATCAAACTGTGTTACTGTCTTTAGTGAAGCTTGACTCATTTCTGAAGACTCACGTTATTGTATTCATTTCTGTCTCTCTTTCCCTTCCTTTTTTAAAAG
Seq C2 exon
ACTGACTTTTGAGCAGGACATAGAGCGTGGCAATACAGATGGTCTGGGGGACTGTCACA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000092421:ENST00000343348:15
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=0.125
Domain overlap (PFAM):
C1:
PF0143720=PSI=FE(40.9=100)
A:
NA
C2:
PF0143720=PSI=FE(30.3=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:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
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