HsaINT0147470 @ hg38
Intron Retention
Gene
ENSG00000167680 | SEMA6B
Description
semaphorin 6B [Source:HGNC Symbol;Acc:HGNC:10739]
Coordinates
chr19:4548263-4550272:-
Coord C1 exon
chr19:4550123-4550272
Coord A exon
chr19:4548446-4550122
Coord C2 exon
chr19:4548263-4548445
Length
1677 bp
Sequences
Splice sites
5' ss Seq
GAGGTCGGT
5' ss Score
5.44
3' ss Seq
TCCCCTGCCCTGTCCCCCAGGCA
3' ss Score
11.28
Exon sequences
Seq C1 exon
GCCCGGGTGCTGCGCAGCCCCCGGGATGCAGTACAATGCCTCCAGCGCCTTGCCGGATGACATCCTCAACTTTGTCAAGACCCACCCTCTGATGGACGAGGCGGTGCCCTCGCTGGGCCATGCGCCCTGGATCCTGCGGACCCTGATGAG
Seq A exon
GTCGGTCCTGGAGAGGCAGGGCATGGCGAGGGGAGACAGGATGGGGTAGATGGAGGGTGAGAGGATCCAGATGCTCAACACAGATGAGCCCATGGCTTCCGGCGCTGCCCAGAGAGCTGGAGACACAGAGAGACAGAGAGGGAAAGATGGAGAGACACTAGGAAAGAGAGAACAAAGAGAGAGACAGAGGGATCAAGAGGTGACAGATGGGGCTGGGCACGGTGGCTCATGCTTGTAATCCCAGCACTTTGGGAGGCCGAGGCTGCCAGATCACCTAAGGCCAGGAATTCGAGACCACCCTGGCCAACATGGAGAAACCTCGTCTCTACTTAAAATACAAAAATTGGCCGGGCATGGTGGCTCACGCCTGTAATCCCAGCACTTTGGGAGGCCGAGGCAGGCGGATCACGAGGCCAGGAGATGGAGACCATCTTGGTTAACACAGTGAAACCCCGTCTCTACTAAAAATACAAAAAATTAGCTGGGCGTGGTGGCAGGCGCCTGTAGTCCCAGCTACTCAGGAGGCTGAGGCAGGAGAATGGCATGAACCCGGGAGGCGGAGCTTGCAGTGAGCCAAGATCACGCCACTGCAGTCCCGCCTGGGCGAAAGAGCGAAACTCCGTCTCAAAAATAAAATAAAATAAAATACAAAAATTAGCCAGGCGTGGTGGTGGGCGCCTGTAGTCCCAGCTACTCGGGAGGCTGAGGCAGGAGAATCACTTGAACCCGGGAGGCGGAGGTTGCAGTGAGCCGAGATCACGCCACTGCACTCCAACCTGGGGCCAGAGGGAGACTACACCTCAAAAAAAAAAAAAAAAAAAAAGAGGTAGACAGACAGACACACACCAGGAGAACAAAGGGGGAAAGAGACAGAGAGACAGGGAGAGAGACAATCAGAGACAGACAGACACCCAGAGAGACAGAGATAGGGAAGAGAGACAAAGAGAGAAAGAGACTGAAAGATACACAGACACACATACATATCAGGAGAAAGCGGGGCTGGGCACAGTGGCTCATGCCTGTAATCCCAGCACTTTGAGAGGCTAAGACGGGAGGATCACTTGAGGTCAGGAGTTTGAAACCAGCCTGGCCAAATGGTGAAACCCTGTCTCTACTAAAAATACAAAAAAAAGAAAATCAGCTCGGTGTGGTGGTGTGCGCCTGTAGTCCCAGCTACTTGGGAGGCTGAGGCAGGAGAATCGCTTGAACCCAGGAGGCGAGATCGAGCCACTACACTGCAGCCTGGGCAACAGAGTGAGACTCTGTCTCAAAAAAAACAAAACATAAACTTGCCAGGCGTGATGGCGTGTGCCTGTAGTCCCTGCTACTCAGGAGGCTGAGGCAAGAGAATTGCTTGAACCCGGGAGGCGGAGGTTGCAATGAGCTGAGATTGCGCCACTGCACTCCAGCCTGGGTGACAGAGTGAGACTCCATCTCAACCAAAGAGACAGGGCTGAGGAGAGCCTGGTTTGGGGTTATGTTTCAAAAAAGGGCGAGTGTGCCCACGTGCCTGTGTAGTCACGCATGTCCCCGGCATCCATGCACACACGCATTTATTGCTGTCACATGTGTTGGTGTGTCAGTGTCTGTATGCACCCGTGTAACTATGGCCATGCCCGTGTTGGTGGCATGTGGTGATATGGGGCCAGCCTGACCCTCCCCTGCCCTGTCCCCCAG
Seq C2 exon
GCACCAGCTGACTCGAGTGGCTGTGGACGTGGGAGCCGGCCCCTGGGGCAACCAGACCGTTGTCTTCCTGGGTTCTGAGGCGGGGACGGTCCTCAAGTTCCTCGTCCGGCCCAATGCCAGCACCTCAGGGACGTCTGGGCTCAGTGTCTTCCTGGAGGAGTTTGAGACCTACCGGCCGGACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000167680:ENST00000586582:12
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.059 A=NA C2=0.016
Domain overlap (PFAM):
C1:
PF0140314=Sema=FE(11.9=100)
A:
NA
C2:
PF0140314=Sema=FE(14.5=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGCCCCCGGGATGCAGTA
R:
CTGTCCGGCCGGTAGGTC
Band lengths:
318-1995
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