HsaINT0041218 @ hg19
Intron Retention
Gene
ENSG00000095321 | CRAT
Description
carnitine O-acetyltransferase [Source:HGNC Symbol;Acc:2342]
Coordinates
chr9:131860810-131862245:-
Coord C1 exon
chr9:131862145-131862245
Coord A exon
chr9:131860930-131862144
Coord C2 exon
chr9:131860810-131860929
Length
1215 bp
Sequences
Splice sites
5' ss Seq
CACGTGAGT
5' ss Score
9.3
3' ss Seq
AGGCCCCGTTTACTGTGCAGGAA
3' ss Score
6.54
Exon sequences
Seq C1 exon
TTCATCGTGGCAGAAGATGGCTCCTGTGGGCTTGTGTACGAGCATGCTGCAGCGGAGGGGCCCCCTATTGTCACCCTTCTGGACTATGTCATCGAGTACAC
Seq A exon
GTGAGTACAGTCACATCTCTCGCCTAGTTCCCCAGCTTCTAGTGACAGGTGACACACAGGTGATAGACCAGCTTATAGAGAAATATCACTCTCCTTTGTGCCTGGGAATCTGTTTTTTTCCAAGGAAGCCAGCCAGATATGGTGGCTCACGCCTGTAATCCTGACACTTTGGGAGGCTGAGGTGGGAGGATCAATTGAGGTCAGGAGTTTGAGATCAGCCTGGCCAACATGGTGAAATGCCATCTCTACTAAAAATACAAAAAAAAAAAAAATTACCCAGGTGTGGTATCACATGCCTATAATCCCAGTTACTCAGGAGGCTGAGGCAGGAGAATTGCTTGAACCCAGGAGGCAGAGGTTGCGTTGAGCGGAGACTGTGCCACTGCACTCCAGCCTGGGTGACAGAGCAAGACTCTGTCTCAAAAAAAAAAAAAAAAAATTAGGCCAGGTGCAGTGGCTCATGCCTATAATCCCAGCACTTTGGGAGGCGGATCACCTGAGGTCAGGAGTTCAAGACCAGCCTGGCCAACATGGTGAAACCCTGTCTCTACAAAAATTAGCCAGGCATGATGGCGGGTGCCTGTAATCCCAGCTACTTGGGAGGCTGAGGCAGGAGAATCGCTTGAACCCGGGAGGCAGAGGTTGCAGTGAGCTGAGATCACACCATTGCACTCTAGCCTGGGTGACAGAATGAGACTCTGTTTCAAAAAAAAAAAAAAAAAAGTTAGCCACGCGTGGTGGTGGGTGCCTGTAATCCCAGCTACTCAAGAGGCTAAGGCACAAGAATCACTTGAACCCAGGAGGTGGAGGTTGCAGTGAGCCGAGATCGTTCCATTGCTCCAGCCTGGGTGACAGAGCAAGACTCTGTCTCAAAAGAAAAAGAAAAAAATTAGCCAAGGTGGCGGGCATCTGTAATCCCAGCTACTCAGGAGGCTGAGGCAGGAGAATCGCTTGAACCAGGGAGGCCAAGGTTGCAGTGAGCTGAGATCACATCACTGCACTCCAGCCTGGGCAACAGAGCAAGACTCCATCTAAAAAAAAAAAAAAAAGAAAAAAGAAAAAAAAGCTGAAGTGAGGGTGGTTTTCAGAACAAACTCACACCTCCCTGGGCTGGCCCCCTCCAGCTTCAGGTACCCATCCTCCCCACCCTGGTCCCAGAATGGACCCAGGCTCTAGAGGCACCAGCATGAGCCTGAGGCCCCGTTTACTGTGCAG
Seq C2 exon
GAAGAAACCCGAGCTTGTGCGGTCTCCCCTGGTGCCCCTGCCCATGCCCAAGAAGCTGCGGTTCAACATCACCCCCGAGATCAAGAGCGACATCGAGAAGGCCAAGCAGAACCTCAGCAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000095321-CRAT:NM_000755:8
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(5.7=100)
A:
NA
C2:
PF0075515=Carn_acyltransf=FE(6.9=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TTCATCGTGGCAGAAGATGG
R:
GAGGTTCTGCTTGGCCTTCTC
Band lengths:
216-1431
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)