BtaINT0015862 @ 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
chr11:104134683-104135682:-
Coord C1 exon
chr11:104135610-104135682
Coord A exon
chr11:104134859-104135609
Coord C2 exon
chr11:104134683-104134858
Length
751 bp
Sequences
Splice sites
5' ss Seq
CAGGTAGCC
5' ss Score
7.13
3' ss Seq
GCCCCCACCCTGCCCCCACAGGA
3' ss Score
-12.77
Exon sequences
Seq C1 exon
GTACCCATCATCCCTGTGATTTACTCCAGCTTCTCCTCCTTCTACAGCTGTAAGACGAAGCTCTTCACTTCAG
Seq A exon
GTAGCCCCCCGCCCCCCCACACACACACCTGCCACACGGGGGCCCGCCCACCCGATCTCAGTCCCAGTGACACCTGGACCCCGCTTCTGGGGGGTCACTCCAGGCTGTGCCCCTCAGTGACTGGGGGAAGAAGGAAGGAGGCCCTGCCTTGAGCCCCAAGATCAGGGCTCCCAGGGGTGGGTGGAGGCCCAGCTTCTCACACACGGGCCGGGCCTTGCCCACAGCTCGGGGGGCCTTGAGGGGCACACTTCCTCTGCCCAGGGTGGGCTCTGAACCAGTGCATCCAGCCCTGACTCTCAGGCAGCAGCCTCCCGGGGACGCCCCCCATGCCCTCTGCCACGGAGCTTAGGACCTCCCTCCACCCTTCTCTCCAGACCCCCACACGAGGGTGCCTGGCACCCAGGTGGGAAGTGGGGTCCAAGGGAGAAGCTGCCTGCCGCACACCTGGGTCCCCGAGGCCGCCTGCAATCCAGGGCTGCCCCAGAGCCTCCTGGGGGAGGGAACATCCTGGAGCCTAAGCAGTCCTCACAAGGGGGCACGCACTCGTCCACGCCCCTCTGAACGTTCCTGAGAGCATGTGAATGCCTGCATCAGTGATTCTCAATTAAGAGCCAACCGCCAGAGACCGGGGTGTCTGGAAGAGCCCGGTCCAGCCCAGGCCCTCGGGAGGCTGGCAGACAGCCAAAATGGGGGGAGAGAGGCCCCCCGCACGAGCCCCCCAGGTGGCTGACGCCCCCACCCTGCCCCCACA
Seq C2 exon
GGACCATCCAGGTGGAGGTGCTAGATGCCATCCCCACCCGTGGCCTCACTGTCGCCGACGTCCCCAAGCTTCTGGACACCTGCCATCAGGCCATGAGGACGCACTTCTTCCACATATCCAAGATCCCCCAGGAGAACGGGGCCCCCTTGGGGCCCGACACCCAGGAGGCCCAGTAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000025161:ENSBTAT00000035230:6
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.190
Domain overlap (PFAM):
C1:
PF0155316=Acyltransferase=PD(6.2=32.0)
A:
NA
C2:
NO
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:
CCCATCATCCCTGTGATTTACTCC
R:
TTACTGGGCCTCCTGGGTG
Band lengths:
246-997
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development