HsaINT0144953 @ hg19
Intron Retention
Gene
ENSG00000123453 | SARDH
Description
sarcosine dehydrogenase [Source:HGNC Symbol;Acc:10536]
Coordinates
chr9:136582448-136584164:-
Coord C1 exon
chr9:136584060-136584164
Coord A exon
chr9:136582578-136584059
Coord C2 exon
chr9:136582448-136582577
Length
1482 bp
Sequences
Splice sites
5' ss Seq
GAGGTAAGA
5' ss Score
10.06
3' ss Seq
CCCCTGCCCTGCCTTGGCAGGTG
3' ss Score
10.95
Exon sequences
Seq C1 exon
AACATGCCCAATGTCCGTGATCATGATGCCTCTGTCTACCTCCGCCTCCAAGGGGATGCCTTGTCTGTGGGTGGCTATGAGGCCAACCCCATCTTTTGGGAGGAG
Seq A exon
GTAAGATGCCAGGGCCCTGGGATAATGGGAGGGAGTTGGGGCTGCATCTCAGCATGGAGAGGGCCTCTTTCAGGAAGTCCATCCTCCTGAAGCTCCTCAGAGGCACACCTGAGAAGTGGCCGGTCCCCTGACCCCACCAAGCTCAAAGCCATCTTGCTCTTACCCTGACGGTCCTGGCAGGCAGTCAAATACAGACCCAGGGCAGCTGGAGGGCTTTGCCTCAAAACATCCACAGAGAAGGTCTGCGCAGTGTGGAGTGATGACCTCAGAAGGGCATGAGAGCACACAAGTCCTACGTCCTTCAGCAAATGACACTGCCCTCCCAACCAGCTGCTGCAGCGGCATTTCCCCTGGCCTGGGCTGTTTCCCGGGCAGCTTCTGGGGTTAGGGCAGCCCTGCAGCCCTGTTCTATGTGTATATGCATTTAGTCCACACATGGAACGACTGAGTGGCTACTTTGGGCTAAAAACTGCTTTAATTTCTGGAGAAAGAGGGAAACTAAGATAAAAGTCCCTGACTCTGGGTGCCTATATTTTGGTGGAGAGACATACAATAAACAAACAAATGGCTGGGCACGGTGGCTCACACCTGTAATCCCAGCACTTTGGGAGGCTGAGGTGGGCGGACCACCTGAGGTCAGGAATTTGAGGCCAGCCTGGCCAACATGGTGAAATCCCAACTCTACTAAAAATACAAAAATTAGCCAGGTGTGGTGGCGGGCACCTGTAATCCCAGCTACTTGGGAGGCTGAGGCAGGAGAATCACTTGAACCCGGGAGATGGAGGTGGCAGTGAGCCGAGATCGCACCACTTTACTCCAGCCTGGGTGACAGAGTGAGACTGTTACAAACAAACAAACAAACAAATGAACAAGGAATGAAATTCTGGAAGATGATCGCGCACTGAATAAAATTAGCAGGTTAAGGATCAGCCTAGAGAGACTGGAGCAGAAGGATATCCTTTAGATGGGTGGTCAGGGCAGGGTTTTTCAGGGAGGGGACATCCAAGCAGAGCCCTGCACCGCGACAACAAACCAGCGTGCCAGGTCTGGGTGAAGAACTGCCCCATTGAGGGGTGAAGGCCTTGAGCTCACACAAGCTTGCTCTTCCCAAAGAGCTGCAGGAAGGTCAGGGTGGCGGGCCCAGTGGTAGAGGTAGGCAGGCTGGCACATGCCATACAGGGCTTTGGGGCCATCGTGAGCTGCAGGGGGCCAGAGGAGGCTTGTGAGTAGGGAAGGGGCATGGTGGGATCTAGGGGAGTGGGTGGAGGCCTGGGCTGGGGTGGGGAGGGGGAGCAGACAGACCTTGCTGATGGGTTGGTGGGTGGGGGAGACAAACGGCTGGGACGTGTGGGTGACCACCAGCCCTCTAATGCATCTGATTCAGCAGAGGCTGGCCTGGCAGCCATCACAAGGCAGGTTTGGCATGGGGATGCATGGCCTTCTTGGGGACAACGGAGATGTTCCCCTGCCCTGCCTTGGCAG
Seq C2 exon
GTGTCAGACAAGTTTGCCTTCGGCCTCTTTGACCTGGACTGGGAGGTGTTCACCCAGCACATTGAAGGCGCCATCAACAGGGTCCCCGTGCTGGAGAAGACAGGAATCAAGTCCACGGTCTGCGGCCCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000123453-SARDH:NM_007101:7
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=0.018
Domain overlap (PFAM):
C1:
PF0126619=DAO=FE(12.7=100)
A:
NA
C2:
PF0126619=DAO=FE(11.9=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGCCCAATGTCCGTGATCATG
R:
GCAGACCGTGGACTTGATTCC
Band lengths:
224-1706
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)