HsaEX0056850 @ hg19
Exon Skipping
Gene
ENSG00000120341 | SEC16B
Description
Protein transport protein Sec16B [Source:UniProtKB/Swiss-Prot;Acc:Q96JE7]
Coordinates
chr1:177975271-177995390:-
Coord C1 exon
chr1:177995290-177995390
Coord A exon
chr1:177991575-177991803
Coord C2 exon
chr1:177975271-177977284
Length
229 bp
Sequences
Splice sites
3' ss Seq
CTTCTTCTCTTTCTCCTCAGCCT
3' ss Score
9.84
5' ss Seq
GAGGTGAGA
5' ss Score
7.66
Exon sequences
Seq C1 exon
GTAATATAGCTGCTGCTGGAAGTGACGAGAAGTGCAAGCTGGCGATGCAGAGGGGTGCGCAGTCCAGCGTGAACTACAGTCAGGGCAGCCTGAAGGATGCA
Seq A exon
CCTGGCATGGGAGGGCAGGATTGTGGTGGTGGGATTTGCTGGAGGAAACATTGCTTCTGAACCAGCCAACCTTCTGCTCCTGAAGAATATCTCTGCTATGGGCCTGTACTGTGGTCAATACAAAGATATGAACTTTCCCGTCTTCTCCAAGAGCCTATCTTCAGTGCTTCAGTACTGCCAGCAAGGGTGCATCCAGCTATATGTCAGAATGGTTTTCAAGCTGGACGAG
Seq C2 exon
GTCAATGATGCCTTCCTTCATGTGATACAGGGGAAATCCGTGGGCAAGGTGCTTCTCGCTCTTAAATAAATCCTTGCCTGAGCAGCAAAGTTAACATGTCCAGATCAAAACTCCACATCTTTCCCCAAAACCTGATTTCCCTTCTGTGTTTCCAAAGGTGTTACCACTTTCCTTACTAATCCAGGTTTAAAATCTTGGAGTCACCTTTGATTCTGTTTACTAATTGCTCCTAATTAATATGATTATATAGTTTATTGTCCAAACCTTTTCGAGAGTAAAAGGGTGCCATTAGTAATTACATCAGGAAAACATATCCCAGGCAAACCAGGATATATGGTCAGCCTACTTGATGCATTATGAAATGCGGTGATTGCCGAGTTCTGTCATTCTCACCTCTAAGATATCTCTCATGTCCATATCCTCTTTTCCATTCTGACTAATTAAGCCTCAACTGCTATTACCAGTGACCTTCTAACTGCTTTTCCTACCTTTAAGCTATT
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000120341-'8-10,'8-7,10-10
Average complexity
C1
Mappability confidence:
100%=100=100%
Protein Impact
5' UTR
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=NA
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
NA
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGTGACGAGAAGTGCAAGCTG
R:
ACAGAATCAAAGGTGACTCCAAGA
Band lengths:
297-526
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- The Cancer Genome Atlas (TCGA)
- Genotype-Tissue Expression Project (GTEx)
- Autistic and control brains
- Pre-implantation embryo development
Other AS DBs:
FasterDB (Includes CLIP-seq data)
AS-ALPS (AS-induced ALteration of Protein Structure, links to PINs)
APPRIS (Selection of principal isoform)
DEU primates (Only for human)