BtaINT0110546 @ bosTau6
Intron Retention
Gene
ENSBTAG00000000675 | PGS1
Description
Bos taurus phosphatidylglycerophosphate synthase 1 (PGS1), mRNA. [Source:RefSeq mRNA;Acc:NM_001046395]
Coordinates
chr19:54425932-54426933:-
Coord C1 exon
chr19:54426744-54426933
Coord A exon
chr19:54426111-54426743
Coord C2 exon
chr19:54425932-54426110
Length
633 bp
Sequences
Splice sites
5' ss Seq
CGGGTGAGG
5' ss Score
8.48
3' ss Seq
TGCCGCTTTCCTCCTTGTAGTGC
3' ss Score
9.23
Exon sequences
Seq C1 exon
GAAGGAAGAACTCGCGCACCATGCTGCTCCCGCTCCTGCAGAGGTTTCCGGAACAGGTCCGCGTCTCGCTGTTCCACACACCCAACCTCCGCGGGCTCCTGCGGCTCCTCATCCCCGAGCGCTTCAACGAGACCATTGGCCTGCAGCACATCAAGGTGTACCTCTTCGACAACAACGTCATCCTCAGCGG
Seq A exon
GTGAGGGCTTCCTCCCCCAGGCGGGAGCCAGCGGAGCGCAGGGGAGAGTCCATCCCCCGAGGCCCTGCCAGCACGTGTTCAGTCTGCTTGCCTGGCTCTCGGCGTCTTCCTGGGGCCCTGACTGCCATGGAAGCCACGAAGCACAGCTGCACACTGGCCGTGGCTCCCTGAGGCCTCACTGCGTGCTCGTTCCTGTGCGAGCCCTTTGCGTGCCGTCTCACCTGGTGCTCACTGTCACCCGACAAGGTCTTTCCCGCACTCTGTGTTGATAACAGGAGAAACCCCAGTGGAGGAGTAACTTGGGCAGGGCCGGGTGGGAAGCCATGCCCTTTGGGGAACCCTGGAGATGAGCCTGAGTGGTCCTTGGCTCTGTAAACGTCCATGTCTCCTCTTGATGGTCAGTTCAGTGATGGGCAGGGCTTGCAGTCACTCCGCGGTGTCTCCTCCGTATCACTCTGGCCCGCCTCTCGTGAGGGGGCCGGGCTCACTAGCTGTTTGTTGATTGGCTGCTGCTGTATCCTGATCTGGGTTGGTCACTCCCCTGCTCCTGCCACTGACCCTGAGACGGGCTCCCCAGGACCTGCTGTCACGCCCTCTCGCCGGAGTCCTCACCTGCCGCTTTCCTCCTTGTAG
Seq C2 exon
TGCAAACCTGAGTGACTCCTACTTCACCAACCGGCAGGACCGCTACGTGTTCTTGCAGGACTGTCCCGAGATCGCCGACTTCTTCACGGAGCTGGTGGACGCAGTAGGGGACGTGTCCCTGCAGCTGCAGGGGGACGACACTGTGCAGATGGTCGAGGGGATGGTGCACCCTTACAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000000675:ENSBTAT00000000897:5
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:
PF130911=PLDc_2=FE(39.1=100)
A:
NA
C2:
PF130911=PLDc_2=PD(22.4=59.0)
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:
GAAGGAAGAACTCGCGCACC
R:
CTCGACCATCTGCACAGTGTC
Band lengths:
347-980
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development