RnoINT0041801 @ rn6
Intron Retention
Gene
ENSRNOG00000018145 | Crat
Description
carnitine O-acetyltransferase [Source:RGD Symbol;Acc:1303031]
Coordinates
chr3:8978837-8979889:-
Coord C1 exon
chr3:8979755-8979889
Coord A exon
chr3:8979101-8979754
Coord C2 exon
chr3:8978837-8979100
Length
654 bp
Sequences
Splice sites
5' ss Seq
AAGGTATGG
5' ss Score
9.26
3' ss Seq
GGCTGCTCTGCATCCCGCAGGTG
3' ss Score
9.23
Exon sequences
Seq C1 exon
CAGGCAGGTGGCTGCTCTTGCTAGTTTCTGCTCGTCCAATTGGTAGCACAGTTAGGCTTAGAGATCCAGCCCAGGCAGACAGACAGGGCTCACATCCTCAGTCCTGCCATGGAGGACGAGCAGCAGAGAGAGAAG
Seq A exon
GTATGGAATGGCGCTTCTGCCGCTTGCCTGCCACTGTGCCAGCAGCCTGGGCCCTTCTTGTCTTGCTTTCTTTCACTTCCAGAGTCTCCTGGACTTCTTCCCCCGTCTCTCTCTCTGCTACCCTCATCCTCCATGCCAGGCCACTCAGCTCTCTTGCTACAGCACTGCCCACACCCCTTACCATCGCCCCACAGTGAAGAGAAAGCACAGAGGCTGCAGCCTCTCCAGAGGTGCTGTCCCCCGTCCCCCACCCTGCTCGCCTGTTTCCACTTCCCTCCTATTTCTCAAGTGGGAAGTAGGGGTTGGGAAGTTGGGGGCTTCGGCTTAGAGAGCCAGCTGCCACCTCTGCTGGCTGATTTATCTGCCCAGGGCAAGGATGATGGGTCTTGTGCATCCTGACAGGTGGGAGGCCCCCTTGCCTCTGTCACCCCAATAATGTCATTTATCCCACCCCAACTCTTTCCTAGCCTTCCTGTACCTCTAGGCCCCTGAGAGGCGGGACTCCTACATCTTGAGGGCTGGGCATCCAGGGCAGGCACCACCCATAAAGCTGTCGTTGCCCCAGAGGGGATGGCATATAAGAGCCTGGGACTATAGTTTGGAAAGAGCTGTGCTCAGTCTGAGAGAATGAGTAGGCTGCTCTGCATCCCGCAG
Seq C2 exon
GTGAAACCCCTGGGCCTCCTCAAGCCCTCCTCCTTGATGAAGGTGTCTGGTCGATTTAAGGCCCACCAGGATGCACTGCCACGGCTGCCTGTGCCTCCACTTCAGCAATCCCTGGACCATTACCTCAAGGCACTGCAGCCCATCGTGAGTGAGGAAGAATGGGCTCACACCAAGCAACTGGTGGACGAGTTTCAGACCTCAGGGGGTGTAGGGGAACGCCTGCAGAAGGGATTGGAGCGCAGGGCCAAGAAAATGGAGAACTGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000018145:ENSRNOT00000065128:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.696 A=NA C2=0.061
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0075515=Carn_acyltransf=PU(10.8=71.6)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCTCGTCCAATTGGTAGCACA
R:
CGCTCCAATCCCTTCTGCAG
Band lengths:
345-999
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]