RnoINT0015235 @ rn6
Intron Retention
Gene
ENSRNOG00000000437 | Agpat1
Description
1-acylglycerol-3-phosphate O-acyltransferase 1 [Source:RGD Symbol;Acc:1303287]
Coordinates
chr20:4375642-4376436:+
Coord C1 exon
chr20:4375642-4375775
Coord A exon
chr20:4375776-4376260
Coord C2 exon
chr20:4376261-4376436
Length
485 bp
Sequences
Splice sites
5' ss Seq
TTGGTGAGG
5' ss Score
6.9
3' ss Seq
CCATCCCACACCCCGCCAAGGAA
3' ss Score
0.97
Exon sequences
Seq C1 exon
GATCTTGCGTCTGCTGCTGCTCCACGTCAAATACTTGTATGGGATCCGAGTGGAGGTGCGGGGGGCTCAGCACTTCCCTCCCACACAGCCCTACGTTGTTGTCTCCAACCACCAGAGTTCCCTCGACCTGCTTG
Seq A exon
GTGAGGCCTGTCACAGGGCCCAGTCCTCTAGTAGAGCCTTCTCTTCTGGTCCCTCCCCACACCTGCTTTAACCTCCTCTTGGATGCCACCCCTCCTTAGGTCTCCTTCCCCTAGGGTGGGTCACTTCGCCTCAGGTCTCCTTCCCCCAGGGGTGGGTCACTTCTCCTCAGGCCCCACCCCCCACCCCATGGCTCACTTCTCCTCAGGTCTCCTTCCCCCGGGGTGGGTCACCCTTCCTCAGGTCTCCTTCCCCTGGGGTGGGTCACTTCTCCTCAGGCCTCCTTCCCTGGGGTGGGTCACCCTTCCTCAGGTCTCCTTCCCCCGGGGTGGGTCTGACCCTGCAGGTTCACATACCTGTGTCAGTCCCGATTCCCAGGCCTTTTACCACCCAGTCCTCAGTGTGTGGGGGAGTAACCTGGGCTAGGTGGTGCCTCCTAGAATGTTGCTTGTGCCCTGATCTGTTCCCCATCCCACACCCCGCCAAG
Seq C2 exon
GAATGATGGAGGTACTGCCAGATCGCTGTGTGCCCATTGCCAAGCGTGAACTATTATGGGCTGGCTCTGCCGGGCTGGCCTGCTGGCTGGCAGGAGTCATCTTCATTGACCGGAAACGCACAGGAGACGCTATCAGTGTCATGTCCGAGGTGGCCCAGACCCTGCTCACCCAGGAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000000437:ENSRNOT00000000500:3
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=PD(25.0=83.3)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GATCTTGCGTCTGCTGCTGC
R:
ATCCTGGGTGAGCAGGGTC
Band lengths:
310-795
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]