HsaINT0146733 @ hg38
Intron Retention
Gene
ENSG00000120341 | SEC16B
Description
SEC16 homolog B, endoplasmic reticulum export factor [Source:HGNC Symbol;Acc:HGNC:30301]
Coordinates
chr1:177960791-177961734:-
Coord C1 exon
chr1:177961590-177961734
Coord A exon
chr1:177960940-177961589
Coord C2 exon
chr1:177960791-177960939
Length
650 bp
Sequences
Splice sites
5' ss Seq
CTGGTGGGT
5' ss Score
6.29
3' ss Seq
CTGTGTCTGTTGGTCAGAAGATG
3' ss Score
1.39
Exon sequences
Seq C1 exon
CCATCATTGGCTAGTGAGTCCAACCTTCTCCAGCAGCGTGAGTCTGGTCTCAGCTCCAGCAGCTATGAGCTCAGTCAGTACATCAGAGATGCCCCGGAGCGGGATGATCCCCCAGCTTCAGCAGCTTGGAGTCCAGTTCAGGCTG
Seq A exon
GTGGGTTCTAAAATGATCAGAAGAGTTGATTGAATCTGATGTGGAAGGGCTGGGTGGCAAGTCTCTGGGAAAGTCAGCCTTACGATGGATCATTGTCCACCTCATTTGCTTATGTAGGTCACCTGGGCAGAGAGGTCAACTTTGGTTCCATTTTCTCTCTTTTTGCTTGTAATAGTAATTGCATCATAGCTGATTCCTGGAAGGGAACACTGCCCCTATCCATTATCAAGTTGGGAAAGGAGGCACTCAGTGGTGCTTTTAAGAAAGGGAAGACCAGAGAGAATTAGGAAAAGCAAAAGCAAGATGCAAAGCTTCATTGCTTTGTCTGGATGTAGGAACTTTGTCATGAGTATAGAGGCCATGAAAGCCAGAGACTCCTTGGCCTCTCAGCATCACTGAGAGTCTGGGCTGAGAGCATTATCATTTGGACTGAATCATCAAGCCCACGCATTGTATTCTGACACCTTCTCAGAGGCTTAAATCTGACTGGAGCAGGGAACATGGGCTTCTTCTAATTACACAACCCACCCAGAATCTTATTTTGGTTCAGGCAGAATTTGGGCAGAAATACATCTGTGGCATATTCCTAAACTAAAGAAAAGTGATGGAAGTAACGCTAACAATGTCCATCTGTGTCTGTTGGTCAGAAG
Seq C2 exon
ATGTCTCCTCAGCTGGTCCCAAAGCACCCATGAAGTTCTACATCCCTCATGTTCCTGTGAGTTTCGGGCCAGGAGGTCAGCTGGTGCATGTAGGTCCCAGCTCTCCCACTGACGGGCAAGCAGCCCTTGTTGAACTGCACAGCATGGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000120341:ENST00000308284:6
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.959 A=NA C2=0.521
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF129322=Sec16=PU(33.3=68.0)
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:
CCATCATTGGCTAGTGAGTCCA
R:
CTCCATGCTGTGCAGTTCAAC
Band lengths:
294-944
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