HsaINT0144947 @ hg38
Intron Retention
Gene
ENSG00000123453 | SARDH
Description
sarcosine dehydrogenase [Source:HGNC Symbol;Acc:HGNC:10536]
Coordinates
chr9:133732423-133734203:-
Coord C1 exon
chr9:133733843-133734203
Coord A exon
chr9:133732602-133733842
Coord C2 exon
chr9:133732423-133732601
Length
1241 bp
Sequences
Splice sites
5' ss Seq
CAGGTAGGG
5' ss Score
9.46
3' ss Seq
GCACCCACCCTCCCGGGCAGGCC
3' ss Score
5.91
Exon sequences
Seq C1 exon
CTCCCTGTTTCGCTGAGGCCTGGAGCCCCCATGGCCTCACTGAGCCGAGCCCTACGTGTGGCTGCTGCCCACCCTCGCCAGAGCCCTACCCGGGGCATGGGGCCATGCAACCTGTCCAGCGCAGCTGGCCCCACAGCCGAGAAGAGTGTGCCATATCAGCGGACCCTGAAGGAGGGACAGGGCACCTCGGTGGTGGCCCAAGGCCCAAGCCGGCCCCTGCCCAGCACGGCCAACGTGGTGGTCATTGGTGGAGGCAGCTTGGGCTGCCAGACCCTGTACCACCTGGCCAAGCTGGGCATGAGTGGGGCGGTGCTGCTGGAGCGGGAGCGGCTGACCTCCGGGACCACCTGGCACACGGCAG
Seq A exon
GTAGGGACCGGGGGCCAGGTAGGGGCAGGGAAGGATAGGACATAGCGAGGGGCCACAGCCCATTGCTAGCTGGGACAGTTCTTGGTTCACAACAACCAGCCTGGGGAAGAGACCCTGGGGAAGGGTGCATGGCCAGTTTGCAGGTGGGCGGAGCTGGGGGCACTGCTTGCCCTCCCAGTCGCTGAAGAGCTGTGGTGGGAGGAGGGAGCAGATGCTGCTTGTGTGGCCTGGAGAGTGAAGCTGGGGCCAGAGCTGGAAACTCCAGGCAGCTGTCCAGAGGGCAGAAGCCCCTTTCCTGGACAGAGCCACCAGGACTGAGGGCATTCCAGGGAGTGGAGAAGGACGGACGGGGACCATTGAGGGTGAAGCAGACCTGTGTCCTCCATGAGCACCAGAGGCTTCTACAGTTCTCATTCTCCTAACTAACCAGGGGGCATATATTAAGCACCTATGGTGTGCATGTCCCAGGACAGCCAACCTTCTGCCTTCACCATTTCAGCCATGGGTGTCCTGGCAAACTGGATCTCCTGACCTGCAGTGTTGGCCAGTTCCTGTGGTGTGAACACTCCCACCCTGGCCAATAGCAAAAGCCACCAGTGTGAGGTCACTGACTGTGGAGTTGGGAAGAGGTTTATCCCTGGGCTCCTGAGAGCTGATGCGAGCCGGCTCCCACAAGCCACTGCTCCAACTCTTGCTCTTGCCTTCTCACTGGCCCCCTAGCTGGGCTGTCATAGCCTCTTCCCTGACGTTTCGCCAGCCACACCCCTGGCCTGCCACCTCTCACATTCAGCTGCTGGAGGGCATCCTTTGTTGGGGAGAGTGCAGATTTAAGCTTCATTCAGTAGTGGGTTGGTGTCTCGGCGCCCCCTCCACTCACCTGCTCTGTGATCTTGGCCACAGAACTGTTGGTGCCACTTGAACTTGATCTATAAGAGAATCACGCCCTCCTCATAGGGCATGACAGGCTTAGCACGGGGCTTGGCACACAGTAGGTGCTCCAAAAATGGGGGCCTTTGCTATGTCACTCTCTGAGCTGCCCAAGGGCGGGACCTCCCTCACATTCATCTTGGTCCAGTTATTTTCTGCTCAACAACCTCTCCAGGCCCCCCAGGTCCTGCAGAGAAAGACCTTGCAGAGAAAGACACCCATGGTTGAATATCAGGGTATCCCCTGATATTCGTCTGGGGGAAGGAGGTGCAGTCCACTCCCTGGGGAGTGATGGCACCCACCCTCCCGGGCAG
Seq C2 exon
GCCTGCTGTGGCAGCTGCGGCCCAGTGACGTGGAGGTGGAGCTTCTGGCCCACACTCGGCGGGTGGTGAGCCGGGAGCTGGAGGAGGAGACGGGACTACACACGGGCTGGATCCAGAATGGGGGCCTCTTCATCGCGTCCAACCGGCAGCGCCTGGACGAGTACAAGAGGCTCATGTCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000123453:ENST00000371872:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.472 A=NA C2=0.014
Domain overlap (PFAM):
C1:
PF0126619=DAO=PU(15.2=38.7)
A:
NA
C2:
PF0126619=DAO=FE(20.8=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:
TATCAGCGGACCCTGAAGGAG
R:
GATGAAGAGGCCCCCATTCTG
Band lengths:
342-1583
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