HsaALTA1064006-1/2 @ hg38
Alternative 3'ss
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
NA
Coord C2 exon
chr1:177960791-177960939
Length
0 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
NA
Seq C2 exon
ATGTCTCCTCAGCTGGTCCCAAAGCACCCATGAAGTTCTACATCCCTCATGTTCCTGTGAGTTTCGGGCCAGGAGGTCAGCTGGTGCATGTAGGTCCCAGCTCTCCCACTGACGGGCAAGCAGCCCTTGTTGAACTGCACAGCATGGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000120341-8-11,8-10-1/2
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.959 A=NA C2=0.497
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF129322=Sec16=PU(33.3=68.0)
Other Skipping Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
No conservation detected
Cow
(bosTau6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTTCAGCAGCTTGGAGTCCAG
R:
GCCCGAAACTCACAGGAACAT
Band lengths:
99-102
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains