HsaEX0056223 @ hg19
Exon Skipping
Gene
ENSG00000123453 | SARDH
Description
sarcosine dehydrogenase [Source:HGNC Symbol;Acc:10536]
Coordinates
chr9:136521988-136531992:-
Coord C1 exon
chr9:136531857-136531992
Coord A exon
chr9:136528774-136529136
Coord C2 exon
chr9:136521988-136528647
Length
363 bp
Sequences
Splice sites
3' ss Seq
ATCCCCACCTCTGCTCCTAGGTC
3' ss Score
8.86
5' ss Seq
CCTGTAAGT
5' ss Score
7.52
Exon sequences
Seq C1 exon
CAAAGTACCCATGTTTGGCCTGGAGGCCATCTGGAGGAACGGCCAAGTGGTGGGCCATGTCCGGAGGGCTGACTTTGGGTTCGCCATCGACAAGACCATCGCCTACGGTTACATCCATGACCCCAGCGGTGGGCCG
Seq A exon
GTCTCGCTGGACTTTGTGAAGAGCGGGGACTATGCCCTGGAGAGAATGGGGGTGACCTATGGTGCCCAGGCTCACCTGAAGTCGCCCTTCGACCCCAACAACAAGAGGGTGAAGGGAATCTACTGAGGGCTCAGACCACATGCCCCATCCCATGCTGTCCATCCATTCTCACAGGTCCCAAATGGCCCTGGGTCCCAGGACCCTGGACCCAGCCAGAACTTGTGCCCTCCCTGTCCTTAGCCTAGGCCTAGTCCTGCGAAAACCCCCAAACCAGATACGGACAGAGACCAAGATGGCCCATCCTGTGGTCACTGACTGGAAGGCAGTCTCTAATCCACCCCAATCCTCCCAGAAAGCAAACCT
Seq C2 exon
GCTTGACTGATCGGTGGCGGGCTTCCCTGGGGCACTTGGCTGAAGAGCATGAGGCTGTGTCTGGGTCAGGAAAGAGAGGTGATCGACTGGCATTGTCTGCCACAGCGCACATGGAGGCCTGGGACCAAGGCCATTCTTCAGGATGGTGCCTCTCGGCTCTCAGGTCGGAACAGGAGCTGGAAAGCTCTTCTTACCTTGCTCGACCTCCCTGTTCTTCAGGTGGCAAAGCCTCCTGAGAGTCGGCAGCCCGGGAACACAGAGGAGCCGAAGCAGGGAGCGGGCGGGGCCTCAGATTGGTGCCCTCCTCACCCACACAGAAGTGCCAGCTCCTGCCTCAGTTTCCCCTTGAGCCCCTCGCTCACCAGGCCCAGGCAGGAGGGACGTGCTGCTGGGTAAGAGTCTGGTGGAGTCCCCCTTTCTAGGTGACCTTTGTCTTTGCTGTTGATTTGGACGCGGTTCCTGCCCATGCCCTCCTCCTTGTCTGGCCCTTGCAGGAGGAC
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000123453_CASSETTE1
Average complexity
S
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (Ref, Alt. Stop)
No structure available
Features
Disorder rate (Iupred):
C1=0.004 A=0.000 C2=NA
Domain overlap (PFAM):
C1:
PF086696=GCV_T_C=FE(62.0=100)
A:
PF086696=GCV_T_C=PD(12.0=31.0)
C2:
NA
Main Skipping Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTACCCATGTTTGGCCTGGAG
R:
AGGGAGGTCGAGCAAGGTAAG
Band lengths:
342-705
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)