HsaINT0041209 @ hg19
Intron Retention
Gene
ENSG00000095321 | CRAT
Description
carnitine O-acetyltransferase [Source:HGNC Symbol;Acc:2342]
Coordinates
chr9:131859529-131860427:-
Coord C1 exon
chr9:131860292-131860427
Coord A exon
chr9:131859592-131860291
Coord C2 exon
chr9:131859529-131859591
Length
700 bp
Sequences
Splice sites
5' ss Seq
ACGGTGAGA
5' ss Score
8.94
3' ss Seq
TCTGACCCTCACCACTCTAGGAG
3' ss Score
8.56
Exon sequences
Seq C1 exon
GATCTACGGACAGGCATGTGCCACCTATGAAAGTGCCTCCCTGCGCATGTTTCACCTGGGCCGCACCGACACCATCCGCTCGGCTTCCATGGACTCACTCACCTTTGTCAAGGCCATGGATGACTCCAGCGTCACG
Seq A exon
GTGAGAGGTCTGGGGCGAGGGTGGGTGAGCTGGGCCTGAGCCCCTCCCTCCTGCTCACTCAGTCAACACACAATAATTGAGCACCTACAGGATTCCAGCCCCATGGTGGGCACGGGGAATCTAACAGAAGCTGGAGCCGTGAATCTAGCTCTGAGCTTCCTGGGGACCAAAGAGGAAAAGGGAGTCATTCATTTGTTCATTCATTTATTCATTGGCAGTAAGCAACTGCCCTATGTCAGGCCCTGGCTGAGGACCAAGGAGTTGGTAGTTGCAATACTCGCTCTTTTTTTTTCTTGTTTTTTTTTAGAAAGAGTCTCACTCTGTTGCCCAGGCTGGAGTGCAGTGGTGTGATCTCGACTCACTGCAACCTCCACCTCCCGGGTTCAAGCAATCCTCCTGCCTCAGCCTCCCAAGTAGCTGGGACTACAGGTGCCTGCCACCATGCCCGGCTAATTTTTGTATTTTTAGTAGAAACGGGATTTCACCATGTTGGCCAGGCTGGTCTCAAACTCCTGACCTCAAGGGATCCACCTGCCTCGGCCTCCCAAAGTGCTGGGATTACAGGCGTGAGCCACCGCTCCCAGCCCCAATATTTCCTCTTAAAGAGCTCAGAATCTAGTGCTGGGTGGGGGTGGGCTACTGAGGTGGGCCAGAAGAGAAGGGACAGTGCTTCAGCTCCCTCTGACCCTCACCACTCTAG
Seq C2 exon
GAGCACCAGAAGGTGGAGCTGCTGCGGAAGGCCGTGCAGGCCCACCGAGGCTACACCGACCGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000095321-CRAT:NM_000755:11
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:
PF0075515=Carn_acyltransf=FE(33.8=100),PF151201=DUF4561=PU(29.9=50.0)
A:
NA
C2:
PF0075515=Carn_acyltransf=FE(15.8=100),PF151201=DUF4561=FE(27.3=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:
GATCTACGGACAGGCATGTGC
R:
CGGTCGGTGTAGCCTCGG
Band lengths:
198-898
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)