BtaINT0015852 @ bosTau6
Intron Retention
Gene
ENSBTAG00000004442 | AGPAT1
Description
Bos taurus 1-acylglycerol-3-phosphate O-acyltransferase 1 (lysophosphatidic acid acyltransferase, alpha) (AGPAT1), mRNA. [Source:RefSeq mRNA;Acc:NM_177518]
Coordinates
chr23:27021354-27021932:+
Coord C1 exon
chr23:27021354-27021562
Coord A exon
chr23:27021563-27021798
Coord C2 exon
chr23:27021799-27021932
Length
236 bp
Sequences
Splice sites
5' ss Seq
GAAGTGAGG
5' ss Score
3.71
3' ss Seq
GCTGTATGGGACCCCCACAGGAT
3' ss Score
4.42
Exon sequences
Seq C1 exon
GTGACCAGAATGGAGCTGTGGCCAGGGGCGGGGACTCTGCTGCTGCTGCTCTTCCTGCTGCTGCTCCTCCTGCTGCCCACTCTGTGGTTCTGCAGCCCCAGTGCCAAGTACTTCTTCAAGATGGCCTTCTACAACGGCTGGATCCTCTTCCTGGCTGTGCTCGCCATCCCTGTGTGTGCCGTGCGAGGACGCAACGTCGAGAACATGAA
Seq A exon
GTGAGGTCCCAGGGGCTTGGGGTGATGGAGGGAACCTCAGGGTCGGAAGCGAGCAGTGGATGGGGAGGGCAGTGAGTGTGCAGGAGACACTGAGCGAGCCGAGCCCAGGGACGAGGAAGGGGAGAAGACTGCCAAGATGCCCAGGAAGGTGGCAGGGTGGCTGGGAGCTGAGCCCTGCTGGCAGATGTATGCCAGCGGGTCCTGCTGGAACCCCTTGCTGTATGGGACCCCCACAG
Seq C2 exon
GATCTTGCGTCTGATGCTACTCCACATCAAATACCTGTACGGGATCCGAGTGGAGGTACGAGGGGCCCACCACTTCCCTCCTTCACAGCCCTACGTCGTTGTCTCCAACCACCAGAGCTCCCTCGACCTGCTTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000004442:ENSBTAT00000005821:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0155316=Acyltransferase=PU(22.5=63.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Chicken
(galGal4)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTGACCAGAATGGAGCTGTGG
R:
TAGGGCTGTGAAGGAGGGAAG
Band lengths:
302-538
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]