RnoINT0041803 @ rn6
Intron Retention
Gene
ENSRNOG00000018145 | Crat
Description
carnitine O-acetyltransferase [Source:RGD Symbol;Acc:1303031]
Coordinates
chr3:8970418-8970956:-
Coord C1 exon
chr3:8970821-8970956
Coord A exon
chr3:8970481-8970820
Coord C2 exon
chr3:8970418-8970480
Length
340 bp
Sequences
Splice sites
5' ss Seq
CCGGTGAGA
5' ss Score
8.72
3' ss Seq
CTGTCCCCACCCATCCCCAGGAG
3' ss Score
8.69
Exon sequences
Seq C1 exon
GATCTATGGGCAGGCGTGTGCCACGTATGAAAGCGCCTCTCTGCGCATGTTTCACCTGGGCCGCACTGACACCATCCGCTCCGCCTCCACAGACTCGCTGGCCTTTGTCAAAGGCATGGATGACCCCAAAGTGCCG
Seq A exon
GTGAGAGGTCTGGAGCGAGGGCCATGTCCTTTCTCTCCTGTTCACTCTCTCTGCAAATGGACTGCACCTCTATGGTTATTTCAGCTCCAGTGGGCAGAGGGAGCTTAACAGAAGATGGAGCCATGAATTTAGTTCTGAGCTTTCTGACCACTGAGGCAAAACCATGCATCCCTAAGAGATGCCAGCCTCTGTCCACAGCCACTGCGGGTGTTGGGCTCCAGAGAATGAGGAGATGGCAATTCAGTGCTTGCTGTGGTGCTGAACACAGAGCAAGCTGCTGAGGTGGGAGAGGGAGAGGAAGGACAGGGCTTTAACTTCCTCTGTCCCCACCCATCCCCAG
Seq C2 exon
GAGCAGCAGAGGGTGGAGCTGCTTCGAAAGGCTGTGCAGGCCCACCGAGCCTACACCGACCGC
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000018145:ENSRNOT00000065128:11
Average complexity
IR
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(7.7=100)
A:
NA
C2:
PF0075515=Carn_acyltransf=FE(3.4=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GATCTATGGGCAGGCGTGTG
R:
CGGTCGGTGTAGGCTCGG
Band lengths:
198-538
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]