GgaINT1010419 @ galGal4
Intron Retention
Gene
ENSGALG00000004466 | CRAT
Description
carnitine O-acetyltransferase [Source:HGNC Symbol;Acc:HGNC:2342]
Coordinates
chr17:5497558-5498214:-
Coord C1 exon
chr17:5498079-5498214
Coord A exon
chr17:5497621-5498078
Coord C2 exon
chr17:5497558-5497620
Length
458 bp
Sequences
Splice sites
5' ss Seq
TCGGTGAGG
5' ss Score
8.99
3' ss Seq
GATGTGTGTGTTCCCTTCAGGAC
3' ss Score
11.27
Exon sequences
Seq C1 exon
GATGTATGGCCATGCCTGTCCCACGTATGAGAGTGCCTCACTAAGGATGTTCCGTTTGGGCCGCACAGACACCATCCGCTCTGCTTCTATTGAGTCTCTTAAGTTTGTACAGTCCATGGACAGCCCTGACAAATCG
Seq A exon
GTGAGGATTTCAGAGAAGTTGCATGAGAGGACTCCATACCAGAAAATAAGGGAAAGATGCTTATTTGGCTAACTATGTCAGCTGGTTTCAGCTTTGCAGAACCGCACCTGATATAAAGTTGAGCTAAAATGTAGCTTGGAGTATACAGTTACTCAACTTGGATTTAATTTAGCTTTCCTTCCACGTGTATTGAAAGCTAGGGAAACAACATGTGGATGTTTCTAATCCTCCCAAAAATGAACCATCTCCCTCCTAATAGTTTGTTTAGCCACTCTGAAGTTTTACTACTGATGGAGAATTCCACTTAGAATGACATAACACAGCCAAACAACATCATTTTAAAATTAACATTAGTTTAGTATAGACACACAAGGCAGAAATACCCATATCCTACAGGAACAGTCGAAACAAGGTTAGCTGTTCTGTAGAAAAACTTAAGATGTGTGTGTTCCCTTCAG
Seq C2 exon
GACCAGGTGAAAACAGATTTGCTGAGGAGAGCTACCCAGGCCCACAGGGAATACACAGATATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000004466:ENSGALT00000007108:10
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=0.286
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
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCATGCCTGTCCCACGTATG
R:
CATATCTGTGTATTCCCTGTGGGC
Band lengths:
190-648
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]