HsaINT1041225 @ hg38
Intron Retention
Gene
ENSG00000167680 | SEMA6B
Description
semaphorin 6B [Source:HGNC Symbol;Acc:HGNC:10739]
Coordinates
chr19:4558337-4559808:-
Coord C1 exon
chr19:4559530-4559808
Coord A exon
chr19:4558490-4559529
Coord C2 exon
chr19:4558337-4558489
Length
1040 bp
Sequences
Splice sites
5' ss Seq
CTGGTAGGG
5' ss Score
6.35
3' ss Seq
TCGCCGCCCCTTGCCCGCAGGCG
3' ss Score
11.06
Exon sequences
Seq C1 exon
AAATCCTGGAAGCTCAGGGTCGTGAAGAGGAAGTCCAGCCGCGCTATGCGAGGTCTTCCTGTTTTTGGAGGGGGCAGGCACCCCAGGGCCGATTGTCGCGAATCACCTTCACCTCTGGGGGCTCAGAATCCCTGAGCCAGAAGGCCAGGGCAGGGCTGGGGGATACCCCTGCTGCTCAGACAGGAAAATGGGCTCGGAGCTTGCCCAATACTTCCCAGAAGGACGAGGCTGCTGAACTTCTCATTCGGGGCTCCGGGACCTGGACTGTACCCCTTTCTG
Seq A exon
GTAGGGGGTGCTCTGAACTGGGACCTTCAGCATGGAGGGCGGGGGTTCAGAGGGTGAATTCCGCTGCTATGTCATTACCTGGATGGGAGAGTGTCTCCACTCCACACACCTAGAAGTTTCTGCAAAGTTACCTTGAATGGGAGTGGGAAGCAGTCCCCCGTGAGAGGTAGTGAGGTGCCTGTCATGGAGGTGTGCAAGCGGAGAATGAAAAGGCTGGATTTGGGAAGGAGGTCAGATCTACCAGGGTCACAGAGGCCCTTGGCATGGGGAATATTCTGTGATTCTGTGGTTATGTAGTACTGTCATTCCCAGCTTGTGGCTTTTTTTTTTTTTTTTTGGATGGAGTCTTGCTCTGTTGCCCAGGCTGGAGTGCAGTGGTGCGATCTTGGCTCACTGCAACCTCCACCTCCTGGGTTCAAGGGATTCTCCTGCCTCAGCTCTCCAGTAGCAGGGATTACGGGCACAGGCCACCATACCTGGCTAATTTTTGTATTTTTTTGTAGAGACAGGGTTTCGCTATGTTAGGCAGGCCGGTCTTGAACTCCTGACCTCAGATGATCCTCCCATCTCGGCCTCCCAAAATGTTGGGATTACAGGCGTGAGCCACCACACACAGCCAGCTTGTGGCTTATAAAATTCCAAGAGCCTTTGACTCTTTTTTTTTTTAGCCTTTGAGTTTAATATTTTTGTGTTTTAATTCTAAGTATTTTTATGCATGTATTTTGCGATTGCATTTTTAAATATATGTTTTAGGATATTTGTATCTATTATTATAATAATTATTATTAGTTTTAAATTACCGAATGCAGTTTTGTTTGAAGTCGTTTCCTGGGCTTTCACGCACACGTGGCCATAAAGTTGTTCTGATAATTAAATCAGTGCTGTGTATTATTATTATTATTGCCATTATTGTTTTTATTAATTATTATCCCCGTGAGGAATTTTTCTGGGATTTGAAGGAGCGTCTGCTGCTCTCGCCCGCCGTCTTGTGGCCACGAGCGGGACTGCAGGCCGCTCACCTCGCCGCCCCTTGCCCGCAG
Seq C2 exon
GCGTCACCTCCTCCTGTCGCCTGGCCCTCGCCATGCAGACCCCGCGAGCGTCCCCTCCCCGCCCGGCCCTGCTGCTTCTGCTGCTGCTACTGGGGGGCGCCCACGGCCTCTTTCCTGAGGAGCCGCCGCCGCTTAGCGTGGCCCCCAGGGACT
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000167680:ENST00000586582:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
5' UTR
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=0.171
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGGGTCGTGAAGAGGAAGTCC
R:
CAGTAGCAGCAGCAGAAGCAG
Band lengths:
356-1396
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains