BtaINT0015860 @ bosTau6
Intron Retention
Gene
ENSBTAG00000025161 | AGPAT2
Description
Bos taurus 1-acylglycerol-3-phosphate O-acyltransferase 2 (lysophosphatidic acid acyltransferase, beta) (AGPAT2), mRNA. [Source:RefSeq mRNA;Acc:NM_001080264]
Coordinates
chr11:104137361-104137878:-
Coord C1 exon
chr11:104137703-104137878
Coord A exon
chr11:104137457-104137702
Coord C2 exon
chr11:104137361-104137456
Length
246 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGT
5' ss Score
10.47
3' ss Seq
GCCTCCTGTCTCCTCAACAGCTC
3' ss Score
9.32
Exon sequences
Seq C1 exon
GCCTCATGGAGGTCCTCCCCGACCGCTGCGTGCAGATCGCCAAGCGAGAGCTGCTCTTCCTGGGGCCCGTGGGCCTGATCATGTACCTGGGGGGCGTCCTCTTCATCAACCGGCAGCACTCCCAGACGGCCATGAGCGTGATGACCGATGTGGGCGAGCGCATGGTCAGGGAGAAG
Seq A exon
GTGAGTGCCCAGGGCTGGGGCGCCCGGCGCTGGGGACACTCAGGCCCAGTTGTGGTGTCAAGTCGGCCCCGAGGGTGAGTTCCTGCAGCAGAACACGCCTCATCGCTGTGTGTCTGTGAATCTCATATGGAAGAGCCAGGCGCAGGGCCTCGGTTGTCAGCGGTGGTAGTCTCTGCTGAGAAGGGCGGTGGGTGCCTCCCTGGGCGGCCTCTGGCTTTTGGGTACAGCCTCCTGTCTCCTCAACAG
Seq C2 exon
CTCAAAGTGTGGATCTACCCGGAGGGCACGCGGAATGACAACGGGGACCTCCTGCCTTTCAAGAAAGGCGCCTTCTACCTGGCGATCCAGGCCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000025161:ENSBTAT00000035230:4
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=FE(45.0=100)
A:
NA
C2:
PF0155316=Acyltransferase=FE(24.0=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:
GACCGCTGCGTGCAGATC
R:
TGGATCGCCAGGTAGAAGG
Band lengths:
245-491
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development