DreINT0051740 @ danRer10
Intron Retention
Gene
ENSDARG00000040248 | crata
Description
carnitine O-acetyltransferase a [Source:ZFIN;Acc:ZDB-GENE-040927-17]
Coordinates
chr5:32226211-32226826:+
Coord C1 exon
chr5:32226211-32226311
Coord A exon
chr5:32226312-32226706
Coord C2 exon
chr5:32226707-32226826
Length
395 bp
Sequences
Splice sites
5' ss Seq
CATGTAAGA
5' ss Score
5.58
3' ss Seq
CTTCTGCTATATTTGCACAGGAA
3' ss Score
7.23
Exon sequences
Seq C1 exon
TTTATTATAGGAGAGGACGGGACATGTGGGCTGATCTATGAACACGCTCCTGCTGAGGGCCCTCCTATTGTGTCAATACTTGACCATGTGGTGGAATACAT
Seq A exon
GTAAGACATAAAATGAAGACATTTTACTATAAATATAACTATATAACAATAACCACATCAGCTGTCACACCATTAAACTTTATTTATTTAAAGAGTATTTTGCTTCTGTTTCTAATTGCGCCAGCTCTTTAAAGCAGGGTGGATTTTGATTTATCTGTCATTGTTTTCATCATTCAACATCTTTAAAAACGATTCTGAAAGGAATTTTAAAATTAAAGCATGGTTTTTATGTGCAACTTTTCATTGGACTCCTGTTTTTAAAATAAATGCTTATTGTTATTGTTATAATTATCTTTTTGATAAGTGATATTCTTTAGTGGAAAAACTGCTTTTCAAGTGGTAGATGGTAACTAGTGTACACTGATAAGCTTTACCCTTCTGCTATATTTGCACAG
Seq C2 exon
GAAGAAATCAGAGATGGTTCGCACCCCAATGGTCCCACTGCGTATGCCTCAGAAGCTTCGTTTCAACATCACACCAGAAATCAAAAAAGACATTGAAGACGCCAAACAAAACATGAACAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000040248:ENSDART00000139472:7
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(5.7=100)
A:
NA
C2:
PF0075515=Carn_acyltransf=FE(6.9=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:
TAGGAGAGGACGGGACATGTG
R:
ATGTTCATGTTTTGTTTGGCGTCT
Band lengths:
214-609
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]