HsaINT0146726 @ hg38
Intron Retention
Gene
ENSG00000120341 | SEC16B
Description
SEC16 homolog B, endoplasmic reticulum export factor [Source:HGNC Symbol;Acc:HGNC:30301]
Coordinates
chr1:177932698-177933312:-
Coord C1 exon
chr1:177933214-177933312
Coord A exon
chr1:177932807-177933213
Coord C2 exon
chr1:177932698-177932806
Length
407 bp
Sequences
Splice sites
5' ss Seq
GAGGTAGGC
5' ss Score
8.99
3' ss Seq
TTTCTTTCTCCACAAAGCAGGAG
3' ss Score
3.66
Exon sequences
Seq C1 exon
AGCTCAGGGTTTGGCTGGTTCAGCTGGTTTCGATCGAAGCCCACCAAGAACGCATCCCCCGCTGGAGACGAGGACTCCTCAGACAGCCCTGACTCTGAG
Seq A exon
GTAGGCTCTGTGGGAGGGGGAGGATGCCCCTCTCTGTGGGTCTTTCAGAGGGAGCTGCCTCAGCACCTAGGAGCTCTCAGAGCTGGCACCTGAGTCTACCCCAGGCCACATGAGACAGAGGTTTTGTGATGGGATATGGTGGGAAATGAATGGGTCCTGTGAGGGCAAAGGCAGATTAAAAAAGCTTTAAAAAGTTTGGATGAAGAAATGTAACTTTAGAGGGTCAGCAGTAGGGAGCTAGTGTGGATTGTTGAGCAGAAGAGTGGGATGAGGAGGGGGGTTTTGGGGAGTGCCCAGCAGCAGTTTGTGGCAAGGCCGCCATCGTGAGTGTGGGAACACAAATTGGCGGGCATCAATTTGTTAACTGCCAATGTTGCCAATGCTGCCTTTCTTTCTCCACAAAGCAG
Seq C2 exon
GAGACCCCCAGAGCATCTTCTCCCCACCAGGCTGGCCTGGGCCTCTCACTGACACCTTCCCCTGAGTCCCCACCTCTGCCGGATGTTAGTGCCTTCTCCAGGGGCAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000120341:ENST00000308284:22
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.909 A=NA C2=1.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping 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:
CTCAGGGTTTGGCTGGTTCAG
R:
CTCTGCCCCTGGAGAAGGC
Band lengths:
206-613
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