HsaINT0147474 @ hg38
Intron Retention
Gene
ENSG00000167680 | SEMA6B
Description
semaphorin 6B [Source:HGNC Symbol;Acc:HGNC:10739]
Coordinates
chr19:4542593-4546274:-
Coord C1 exon
chr19:4546216-4546274
Coord A exon
chr19:4544530-4546215
Coord C2 exon
chr19:4542593-4544529
Length
1686 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGT
5' ss Score
10.67
3' ss Seq
CCCCTGTGCTCCCCGGCCAGGAC
3' ss Score
8.6
Exon sequences
Seq C1 exon
AGCCGCCTTTGAGCAGGACGTGTCCGGGGCCAGCACCTCAGGCTTAGGGGACTGCACAG
Seq A exon
GTGAGTTGGGGGGACGGCAGGCTAAGACCCCCATCCCCCACTACCATGGGGGAGGGGAGGGAGGAGGCTGGAGGACCCTCGAATCCTCTGGGAGGTGGGTGGGGAAACTGGACTCCATCAGAGAACTTTAGAAAGGCATGGGGTGGGCCGGGCGCGGTGGCTCACGCCTGTAATCCCAGCACTTTGGGAGGCCAAGGTGGGTGGATCACGAGGTCAGGAGATCTAGACCATCCTGGCTAACACGGTGAAACCCCGTCTCTACTAAAAATACAAAAAATTAGCCGGGCGTGGTGGCGGGCGCCTGTAGTCCCAGCTACTCGGGAGGCTGAGGCAGGAGAATGGCGTGAATCCGGGAGGCAGAGCCTGCAGTGAGCCAAGATCACGCCACTGCACTCCAGCCTGGACGACAGAGCAAGACTCCGTCTCAAAAAAAGAAAAGAAAGGCATGGGGTGGTCTCATCTCATTTATTGGGGAGGGAGATAGGGGAAGAACAGAGACACCAAGAAACAGGCAGGCTTTGGCAAGGACGAAGAGACAACAGAAGGCAGACAGACCAACTTCAACAGGACAGAAGGGGCCAGGCGCGGCAGCTCCTGCCTATAATCCCAGCATTTTGAGAGGCCAAGACAGGACGATCACTTGAGGTCAGGAGTTTGAGACCAGCCTGGGGAATATAGTGAAACCCTGTCTCTAAAACAAAAACCCAAAAATAATCCAGACGTGGCAGTGCATGCCTGTAGTTCCAGCTACTTGGGAGGCTGAGGCGGGAGGATCGCTTGAGCCCAGGGAGGTGGAGGCTGCAATGAGCTGTGATCAGGCCACTGTACTCCAGCTTGGGCAACAGAGTGAGAACATGTCTTTTTTTTTTTTTTTTGAGACAGAGTCTTGCTCTGTCACCCAGGCTGGAGTGCAGTAGTGTGATCTCAGCTCACTGCAACCTCCACCTCCCGGGTTCAATTGATTCTCCTGCCTCAGCCTCCCAAGTAGCTGAGATTACAGGCGCACACCACCATGTCCGGCTAAAATTTGTATTTTTAGTAGAGATGGGTTTCACTTGTTGGCCAGGCTGGTCTCAAACTTCTGACCTCAGGTGATCTCCTGCCTCAGCCTCACAAAATGCTAGGATTATGGGTGTGAGCCATCATGCCTGGCCCAGATCCTGTCTTTAATAAAACAAACAGGTAGCTGGAGGCAGGGTTGCAGTGAGCTTTACCACTGCACTCTAGCCTGGGGGACTGTCTCAAAACAAACAAACAAAAAAAATTAAAAAATAATAAAAATAAGGCCAGTCGTGGTGGCTTATGCCTGTAATCCCAGCACTTTGGGAGGCAGAGGTGGGCGGATCACAAGGTCAGGAGTTCAGACCAGCCTGGCCAACGTGGTGAAACCCCATCCTACTAAAAATACAAAAATTAGCCGGGCGTGGTGGTGGGCACCTGTGGTCCCAGCTACTCGGGAGGCTGAGGCAGGAGAATCACTTGAACATGGGAGGCGGAGGTTGCAGTGAATCGAGATCGCCCCACTGCACTCCAGCCTGGCACACAAAGGAAGACTCCTTCTCAAAAAATAAATAAATAAAAAAAAATAAAAATAATAAAAAAGAGGACAGAGGGCCCCGAGGAGGTAGGAGGGATGCCCAGGGCCACCCCGCCGGCCCCACTAACCCCCCTGTGCTCCCCGGCCAG
Seq C2 exon
GACTCCTGCGGGCCAGCCTCTCCGAGGACCGCGCGGGGCTGGTGTCGGTGAACCTGCTGGTAACGTCGTCGGTGGCGGCCTTCGTGGTGGGAGCCGTGGTGTCCGGCTTCAGCGTGGGCTGGTTCGTGGGCCTCCGTGAGCGGCGGGAGCTGGCCCGGCGCAAGGACAAGGAGGCCATCCTGGCGCACGGGGCGGGCGAGGCGGTGCTGAGCGTCAGCCGCCTGGGCGAGCGCAGGGCGCAGGGTCCCGGGGGCCGGGGCGGAGGCGGTGGCGGTGGCGCCGGGGTTCCCCCGGAGGCCCTGCTGGCGCCCCTGATGCAGAACGGCTGGGCCAAGGCCACGCTGCTGCAGGGCGGGCCCCACGACCTGGACTCGGGGCTGCTGCCCACGCCCGAGCAGACGCCGCTGCCGCAGAAGCGCCTGCCCACTCCGCACCCGCACCCCCACGCCCTGGGCCCCCGCGCCTGGGACCACGGCCACCCCCTGCTCCCGGCCTCCGCTTCATCCTCCCTCCTGCTGCTGGCGCCCGCCCGGGCCCCCGAGCAGCCCCCCGCGCCTGGGGAGCCGACCCCCGACGGCCGCCTCTATGCTGCCCGGCCCGGCCGCGCCTCCCACGGCGACTTCCCGCTCACCCCCCACGCCAGCCCGGACCGCCGGCGGGTGGTGTCCGCGCCCACGGGCCCCTTGGACCCAGCCTCAGCCGCCGATGGCCTCCCGCGGCCCTGGAGCCCGCCCCCGACGGGCAGCCTGAGGAGGCCACTGGGCCCCCACGCCCCTCCGGCCGCCACCCTGCGCCGCACCCACACGTTCAACAGCGGCGAGGCCCGGCCTGGGGACCGCCACCGCGGCTGCCACGCCCGGCCGGGCACAGACTTGGCCCACCTCCTCCCCTATGGGGGGGCGGACAGGACTGCGCCCCCCGTGCCCTAGGCCGGGGGCCCCCCGATGCCTTGGCAGTGCCAGCCACGGGAACCAGGAGCGAGAGACGGTGCCAGAACGCCGGGGCCCGGGGCAACTCCGAGTGGGTGCTCAAGTCCCCCCCGCGACCCACCCGCGGAGTGGGGGGCCCCCTCCGCCACAAGGAAGCACAACCAGCTCGCCCTCCCCCTACCCGGGGCCGCAGGACGCTGAGACGGTTTGGGGGTGGGTGGGCGGGAGGACTTTGCTATGGATTTGAGGTTGACCTTATGCGCGTAGGTTTTGGTTTTTTTTGCAGTTTTGGTTTCTTTTGCGGTTTTCTAACCAATTGCACAACTCCGTTCTCGGGGTGGCGGCAGGCAGGGGAGGCTTGGACGCCGGTGGGGAATGGGGGGCCACAGCTGCAGACCTAAGCCCTCCCCCACCCCTGGAAAGGTCCCTCCCCAACCCAGGCCCCTGGCGTGTGTGGGTGTGCGTGCGTGTGCGTGCCGTGTTCGTGTGCAAGGGGCCGGGGAGGTGGGCGTGTGTGTGCGTGCCAGCGAAGGCTGCTGTGGGCGTGTGTGTCAAGTGGGCCACGCGTGCAGGGTGTGTGTCCACGAGCGACGATCGTGGTGGCCCCAGCGGCCTGGGCGTTGGCTGAGCCGACGCTGGGGCTTCCAGAAGGCCCGGGGGTCTCCGAGGTGCCGGTTAGGAGTTTGAACCCCCCCCACTCTGCAGAGGGAAGCGGGGACAATGCCGGGGTTTCAGGCAGGAGACACGAGGAGGGCCTGCCCGGAAGTCACATCGGCAGCAGCTGTCTAAAGGGCTTGGGGGCCTGGGGGGCGGCGAAGGTGGGTGGGGCCCCTCTGTAAATACGGCCCCAGGGTGGTGAGAGAGTCCCATGCCACCCGTCCCCTTGTGACCTCCCCCCTCTGACCTCCAGCTGACCATGCATGCCACGTGGCTGGCTGGGTCCTCTGCCCTCTCTGGAGTTTGCCTCCCCCAGCCCCCTCCCCATCAATAAAACTCTGTTTACAACCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000167680:ENST00000586582:16
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.712
Domain overlap (PFAM):
C1:
PF0143720=PSI=FE(35.7=100)
A:
NA
C2:
PF0143720=PSI=PD(0.1=0.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CACCTCAGGCTTAGGGGACTG
R:
CAGCCGTTCTGCATCAGGG
Band lengths:
354-2040
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