HsaINT0146708 @ hg38
Intron Retention
Gene
ENSG00000148396 | SEC16A
Description
SEC16 homolog A, endoplasmic reticulum export factor [Source:HGNC Symbol;Acc:HGNC:29006]
Coordinates
chr9:136466264-136467083:-
Coord C1 exon
chr9:136466957-136467083
Coord A exon
chr9:136466463-136466956
Coord C2 exon
chr9:136466264-136466462
Length
494 bp
Sequences
Splice sites
5' ss Seq
CAGGTTGGT
5' ss Score
8.08
3' ss Seq
TGTCCCCCGGCTTCCTCTAGGCC
3' ss Score
9.8
Exon sequences
Seq C1 exon
ATCCAGGTCACTGGGATCGTTACCACTACAGTGCTAGAGTCAGGGACCCCCGCACCTATGACCGGAGGTATTGGTGTGATGCAGAGTATGACGCATACAGGAGAGAGCACTCTGCCTTCGGGGACAG
Seq A exon
GTTGGTGGAGCACCCCTGGGGAGGCAGAGGCTGGGGGCAGCCAGGGCGCGCTAGTGCTTCTCTGCCCTCATGTCTGGGTTTTAACAAAGAGCTGTGGTAGTTTGGGTGAGCATCTGCCTGATGTTTTGGTCCCTGTCTGAAAGGAAGGAGGGAGCAGACCCTCCCAGGGTTCCCAGCTTGGACTGTTAGAGGAGAACTGGCCTCAGCAAGAGGACTGTTCAGCACCTCTGGGAGCACCTGGGAGATTGGGCTCACTCTTTCTCATCGTCCCTTCTTACCGGTCGCGCCCTGCAGCCCAGAGAAGTGACCACACTGGAGACGCATTCGCAGTACTTCTCTAACGTTGCACGTCAGAGGGCCCTGAGTGTCGGGTGTGCTGTGTTGTGCCTCGGCCCCAGGGGTCTCGGTCTCAGCTCCTGGGCAGCTGCGTGGCACATGGGGACGGGGCCTCCGGCACTCCCATTCCTCTGCCTCTGTCCCCCGGCTTCCTCTAG
Seq C2 exon
GCCCGAGAAACGTGACAACAACTGGAGGTACGATCCTCGCTTCACGGGGAGTTTTGACGATGACCCCGATCCGCACAGAGACCCTTATGGGGAAGAGGTGGACCGGCGCAGCGTCCACAGCGAGCACTCGGCACGGAGCCTGCACAGCGCACACAGCCTGGCCAGCCGCCGCAGCAGCCTCAGCTCCCACTCGCACCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000148396:ENST00000371706:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.191 A=NA C2=0.945
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
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:
AGGTCACTGGGATCGTTACCA
R:
TGCGAGTGGGAGCTGAGG
Band lengths:
318-812
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