DreINT0027819 @ danRer10
Intron Retention
Gene
ENSDARG00000101139 | agpat2
Description
1-acylglycerol-3-phosphate O-acyltransferase 2 (lysophosphatidic acid acyltransferase, beta) [Source:ZFIN;Acc:ZDB-GENE-061103-541]
Coordinates
chr21:7647052-7647601:+
Coord C1 exon
chr21:7647052-7647185
Coord A exon
chr21:7647186-7647425
Coord C2 exon
chr21:7647426-7647601
Length
240 bp
Sequences
Splice sites
5' ss Seq
TTGGTGAGC
5' ss Score
7.43
3' ss Seq
CTCTCTGCTCGTCTCTGCAGGTA
3' ss Score
13.14
Exon sequences
Seq C1 exon
GGTCATCCGGTTTTTGGTCCGCCATGTAAAATACTTCCTGGGTCTGCGCTATCAGGTCAGCGGCTGGGAGCATCTACAGACAGAAGGGCCGTATGTTATTATCTCCAACCACCAATCATCACTCGACGTGCTTG
Seq A exon
GTGAGCAAATATGCACAACCAATCAACAATCTCAGTGGTCGGTTTCATACATCTATAAAGCATTAACTGTTAGGGGCGTGTGAACCTACACTGGCCTCACGGTTCGGTTATGATTATCATGCCATCGATTCGGTTCAATTTGTAATCTTGACACATTGACGATGCTTTCCATTAGGGTTGGGCCGATAGACGATGCCATTGTCTTGTCCAAGCCGTCTGACTCTCTGCTCGTCTCTGCAG
Seq C2 exon
GTATGGTGGAGATCTTACCAGATCGCTGCACAATGATCGCTAAGAAAGAGCTGATATGGGCTGGGACAGTGGGCATGATTTGCTGGCTGGGAGGAATCGTCTTCATCAACCGCAAAAAGACAAGCGACGCCAAGAACGTCATGAGTGACGCTGCCAAAACCATGTTGACCGACAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000101139:ENSDART00000172174:2
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:
PF0155316=Acyltransferase=PU(22.5=63.0)
A:
NA
C2:
PF0155316=Acyltransferase=FE(45.0=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CGGTTTTTGGTCCGCCATGTA
R:
TCGGTCAACATGGTTTTGGCA
Band lengths:
299-539
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]