RnoINT0015241 @ rn6
Intron Retention
Gene
ENSRNOG00000019466 | Agpat2
Description
1-acylglycerol-3-phosphate O-acyltransferase 2 [Source:RGD Symbol;Acc:1309229]
Coordinates
chr3:4047484-4048477:-
Coord C1 exon
chr3:4048344-4048477
Coord A exon
chr3:4047660-4048343
Coord C2 exon
chr3:4047484-4047659
Length
684 bp
Sequences
Splice sites
5' ss Seq
TGGGTAGGC
5' ss Score
6.03
3' ss Seq
TCTCTCACTGTTTCTCACAGGTC
3' ss Score
10.35
Exon sequences
Seq C1 exon
CATCATCAGCTGGTTTGTTCGGTCCTTCAAGTACGTGTATGGCCTTCGCTTTGAGGTCAGCGGACAGAAGAAACTGGAGGTGGACGGTCCCTGTGTCATCATTTCTAATCACCAGAGCATCCTAGACATGATGG
Seq A exon
GTAGGCTGCCACCAAGGCTTGGCCACAGAGACGGCGATCCATTTCAGCCTGGGCCCCGGTGGGCTGGGGTCTCTGTCTGGGGCTGGTGCAGGACAAGACTTCCCTCAAGCTGGCAGTAAGAGCAACCAGCTGTGCCAGACACGAGGCCTGTACCACTCAGGCTGCTCCTCGTGAGGAAAGGCCAGGCCAGCAACAGGGGCCTTGACAGGGCCACCAGCTCCTCGCCCAGGGAATGTCTCCCCAGGGCTCTGAAGCTGTTCTCTCCTTCCCTCACCCCACCTTCCCTCTCCCTGAACCCTGCCTCTATGTTTTGTCTGTGACTCCGCTCTTTCTTACATCCTCCCCTGTCTCTGTCTCCTCTTCTCTCTCTCTTGTGTGTCTATCTCCATCTCTTGTCTCTGCCTCTCCACCTCTCTGTGTCCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTGTCCATTCATTCCTGGGTCTCCCTCTCTTGTCTCTTTCTGGTCTCTGCTTCCTTTGCCTCTCCTTTGCCTACTTATCCATCTGTGTCTGCCTCTCATTCTCCCTCTCTCCATTTCTCCTTTGCTCTAGTCCTCTGTCATCATCTCTGTTTTCACATCTGTCTCCTATGTCTCTCTCCTGTTTCCACCTCTCACTGTTTCTCTCACTGTTTCTCACAG
Seq C2 exon
GTCTCATGGAAATACTCCCTAAGCGCTGTGTGCAGATTGCCAAGCGTGAGCTAATGTTCACAGGACCCGTGGGCCTCATCATGTACCTAGGGGGTGTCTATTTCATCAACCGCCAGCAAGCCAAAACTGCCATGTCCTTGATGGCCGACCTAGGCGACCTCATGGTCAAGGAGAAC
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000019466:ENSRNOT00000026408:3
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:
ATCAGCTGGTTTGTTCGGTCC
R:
CATGAGGTCGCCTAGGTCGG
Band lengths:
294-978
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]