HsaINT0144951 @ hg19
Intron Retention
Gene
ENSG00000123453 | SARDH
Description
sarcosine dehydrogenase [Source:HGNC Symbol;Acc:10536]
Coordinates
chr9:136594887-136595309:-
Coord C1 exon
chr9:136595186-136595309
Coord A exon
chr9:136594988-136595185
Coord C2 exon
chr9:136594887-136594987
Length
198 bp
Sequences
Splice sites
5' ss Seq
CAGGTGCGA
5' ss Score
7.75
3' ss Seq
TGTCTGTGCTCTGCCCGCAGGAG
3' ss Score
12.25
Exon sequences
Seq C1 exon
GTCATTGAGAACTGCCCAGTGACCGGCATTCGTGTGTGGACGGATGATTTTGGGGTGCGGCGGGTCGCGGGTGTGGAGACTCAGCATGGTTCCATCCAGACACCCTGCGTGGTCAACTGTGCAG
Seq A exon
GTGCGAGTGGCATTTCTCCTGACTCCTGTGTGGCCATGCTGGCTGCTCCCTAAACCTGCTCCCACCTCTGCAGGGCTTCTTTCTGGGGTGGGGAGCCCCTGCTAGGGCAGACAGGTCTGCAGAGGCAGCCTGTGCACACCTGAGAGGCAGCTCCCACCAGGTGTCAGCAGAGCTGAGCTGTCTGTGCTCTGCCCGCAG
Seq C2 exon
GAGTGTGGGCAAGTGCTGTGGGCCGGATGGCTGGAGTCAAGGTCCCGCTGGTGGCCATGCACCATGCCTATGTCGTCACCGAGCGCATCGAGGGGATTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000123453-SARDH:NM_007101:5
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0126619=DAO=FE(14.5=100),PF043038=PrpF=FE(31.5=100)
A:
NA
C2:
PF0126619=DAO=FE(11.7=100),PF043038=PrpF=PD(16.2=61.8)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ATTGAGAACTGCCCAGTGACC
R:
CTGAATCCCCTCGATGCGC
Band lengths:
222-420
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
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)