HsaALTD1053050-4/5 @ hg38
Alternative 5'ss
Gene
ENSG00000148396 | SEC16A
Description
SEC16 homolog A, endoplasmic reticulum export factor [Source:HGNC Symbol;Acc:HGNC:29006]
Coordinates
chr9:136474049-136483799:-
Coord C1 exon
chr9:136483699-136483799
Coord A exon
chr9:136483510-136483698
Coord C2 exon
chr9:136474049-136477684
Length
189 bp
Sequences
Splice sites
5' ss Seq
GCGGTGAGG
5' ss Score
7.93
3' ss Seq
TTTCTCTTTTTCTTTTCCAGCTC
3' ss Score
12.98
Exon sequences
Seq C1 exon
CCGCCGCCTGCCCTCCAGCCTCCCAGCCCAACGGAAGAATGCGAGGAGCGCGCCCGCGTCAGGGCCCCGCGCTTCTCAGCTGGGCGGAGTAGCCGTTCTCG
Seq A exon
GTGCGTGAGCCTGCTGGCATCGGTCCTGCAGACTGATTTCCCGCTTGTGGCCTTGATTGAAGAATCCCATCTCTTCTCACATCTTAAAACGAAAAAAGACTGGGAGAAAGAGCCAGCGTAAACAGGGCGACGTACTGGGACGGCCCCGGCGCGCCTGGCCGGGCAGGTGGCGAGGGGCGGGGCCAAGCG
Seq C2 exon
CTCCAATTAAGGAACAGCTATATCCTGCTTCCTTCTGTAAGCAGCATCGACTTGTGCAAGGGTTCAGTCATGCAGCCACCGCCCCAGACGGTCCCGTCTGGCATGGCTGGGCCACCTCCAGCCGGGAATCCTCGGAGCGTGTTCTGGGCTAGCAGCCCTTACAGGAGACGGGCTAATAATAATGCAGCAGTGGCTCCGACAACTTGCCCGTTGCAGCCGGTCACGGATCCATTTGCTTTTAGTAGACAGGCGCTCCAAAGTACACCACTGGGCAGTTCGTCCAAAAGCAGTCCACCTGTCTTGCAAGGCCCAGCCCCCGCAGGGTTTTCTCAGCACCCCGGTTTGCTTGTTCCTCACACACATGCCAGAGATAGCTCTCAGGGACCCTGTGAGCCCCTGCCTGGACCTCTGACACAGCCCAGAGCACATGCCAGTCCGTTTTCTGGTGCATTGACACCTTCAGCACCTCCTGGGCCTGAGATGAACAGGAGTGCAGAGGT
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000148396-2-4,3-4,4-4,5-4,6-4-4/5
Average complexity
Alt5
Mappability confidence:
NA
Protein Impact
5' UTR
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=0.916
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
No conservation detected
Cow
(bosTau6)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCAACGGAAGAATGCGAGGAG
R:
TTAGCCCGTCTCCTGTAAGGG
Band lengths:
250-439
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains