HsaINT0146734 @ hg38
Intron Retention
Gene
ENSG00000120341 | SEC16B
Description
SEC16 homolog B, endoplasmic reticulum export factor [Source:HGNC Symbol;Acc:HGNC:30301]
Coordinates
chr1:177960342-177960939:-
Coord C1 exon
chr1:177960791-177960939
Coord A exon
chr1:177960404-177960790
Coord C2 exon
chr1:177960342-177960403
Length
387 bp
Sequences
Splice sites
5' ss Seq
GAGGTAAAG
5' ss Score
8.27
3' ss Seq
ATCTGATTGTTTTATTCCAGGTT
3' ss Score
8.53
Exon sequences
Seq C1 exon
ATGTCTCCTCAGCTGGTCCCAAAGCACCCATGAAGTTCTACATCCCTCATGTTCCTGTGAGTTTCGGGCCAGGAGGTCAGCTGGTGCATGTAGGTCCCAGCTCTCCCACTGACGGGCAAGCAGCCCTTGTTGAACTGCACAGCATGGAG
Seq A exon
GTAAAGAAGACCCAGTGTCCCTGGAATGCTGGCACACTGCTTACCCAACTACTCCTAACATGCTTACCTTGCTTTCCTGTGCCTGAGCCGGGGCATCTCCAGGAATGGGATGCTCTTGCGGGAAACTGGGCCATGTACCCCCTGGATTAGGAGGGTGCAGGAATGGGTGGGGCTCTTCTCTGAAAGAATTGATGCTACAGTTGTGTTTTTCCTGAGATGTCAATGTCTCATCTTTAGCAACAAAATTCACTTTTTTCTTTCTGCTTTCTCCACAAGGCCTTGAGCCATATCCTAGCCCCACGGCCTTGGGGTCTGACACTAGACTTGACTGAAAGGGGCCTAGGGTGGCCACAGTCTTAAACACAAAATCTGATTGTTTTATTCCAG
Seq C2 exon
GTTATTCTTAATGATTCCGAAGAGCAAGAGGAGATGAGAAGTTTCTCAGGACCCTTGATTAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000120341:ENST00000308284:7
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.521 A=NA C2=0.500
Domain overlap (PFAM):
C1:
PF129322=Sec16=PU(33.3=68.0)
A:
NA
C2:
PF129322=Sec16=FE(19.6=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:
ATGTCTCCTCAGCTGGTCCC
R:
TCAAGGGTCCTGAGAAACTTCT
Band lengths:
207-594
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Genotype-Tissue Expression Project (GTEx)
- Autistic and control brains
- Pre-implantation embryo development