BtaINT0110544 @ bosTau6
Intron Retention
Gene
ENSBTAG00000000675 | PGS1
Description
Bos taurus phosphatidylglycerophosphate synthase 1 (PGS1), mRNA. [Source:RefSeq mRNA;Acc:NM_001046395]
Coordinates
chr19:54427967-54429737:-
Coord C1 exon
chr19:54429660-54429737
Coord A exon
chr19:54428067-54429659
Coord C2 exon
chr19:54427967-54428066
Length
1593 bp
Sequences
Splice sites
5' ss Seq
CTGGTAAGG
5' ss Score
9.68
3' ss Seq
TGCGGCTCTTTTCTTGGCAGGTG
3' ss Score
10.67
Exon sequences
Seq C1 exon
GGGCAGATAAAAGTAGCCAAGAGGCGGGTCGTGATGGCATCCCTCTACCTGGGGATAGGTCCTCTGGAACAGGAACTG
Seq A exon
GTAAGGTTTGGGGGAGTCCTAGAGGCAGCAGTGGGTCACCCTGAAACCTCAGGCCATGTGGCACCGTGGAGTTGGGGTAGAGCCACCCTCCTTGGCCTCATTTTGGCTATTTTTGGCCTGCAAAAATAGCGTTGCAGGCCAGCTATTTTTCTTGTGGCCCCAGATGCTGGGGTTGTCGGGAGATGTGATCCTGGGCCTTCTGGCCTCGCTGGCCCGTGTCCTCCTCGGCCTGTACGGGGGCCCCAGGCTGTCGCTCTGCCAGGCCGGGGCTCTGGGAACTGCGACCCGCAGGCCAGATCTGGCCACCACCTGTTTGTGGCCTGTGGGCTAAAGCTGGTTTTCACATTTTCAGTGTAGGGCAAAAAGTCAAAAGAGGAGTAGTAATTGTGCCGCATAAAAGCACGTGAAATTCAAATTTCTGTGTCCATACATAAAGCTTTATTGGAGCCTAGCCACTCTCACCCACAGAGCCAGACGCGACCGCGCTCGCACGCGGACCGCTCTCCATCGCCACTCTCGTTCTTGTTTTGTCTGTGGCTGGGTTCTTGCTGTGGTGGCAGAACTGAGTAACTGTGACAGAGACCATCTGGCCTGCAAAGCTCCAAATATTTACTCTCTGGTCCTTCACAGAGAGGCTTTCTGAGCCTGTGTTAGACAGAGGAGCCAGCATGCAGGTCGGGCTCGCCGCTGCTTTCGTCCAGGGTTGGCGGTGGGTGCCGGGTCCCTGCCTAGACTTGCTGTCGTGCCTCGCTTGTCCCCTCCAGTGAGACAGGCAGGGTTGGGAAGGGGCACACGTCACCTGTCGTGCAGGGCTAGGGGTGTTCCTGCAGGATGAGCCAGAGTGAGTGTGAACGAGGTCATTGTGTTGTCTGAGTTCTCAGGTGGTTTCGACTCTGAGGGAGAAGATGGGCCCCTTGCCCATAGCAAGTGTTGTTTCTTGGTTTGTCCTTGTTCAGAAACCCCTAGGACGGGGTTGTGGTTACAGGGCGAAGGGAAGGGTCGGGGGCAGGAGAGCCCCATCCCCTCCCTCCTGTCTGAGGAAGGGGCCGCCCCGCTTTCAGGACGTACTGTCAGCTGCCAGCTTGAGAAGCCTGTTTGTCCTCCCGGCAGAAGAATGCCACGTCCAGCCCATGGAGAGTGGCCAGTGGGCAGGTTGTGTCTTGGATTCGTTCATTCAGCAAATATTTACTGAGTGTTCTCCACGTGTGGGGCGCTGTTTGTTGTGTGCCTGTGAGGATCACCTGTTGCAACGTGTGTGGGAGCTCGTGTCTTAGCAGGTGTTCTCAAGAGCAGTGACATCCACACCCTTGGGCACCGTGCCCCTGACCCGCAGAGCCCTCTTCTTGCCTGGCCCGGGCTGTAGACACCGTGTCTTCCAATTAACTGTGCCCGGGGCGGCGGCCTTGGGAAGAGGTTTCACAGCATTGGCTTCTGGGCAAGTGTGGATGGTGTGTGCATGAGTGTGTGTGCAGGTGTGTGCATGAGTGTTTGCAGAGGACTGTGGGGGCGTTAGCTGACAGGTTGGTTCATTTCTTTAACACGTACCCGTTTTTTCAGCTCTCACTTCTGTTCTTGCGGCTCTTTTCTTGGCAG
Seq C2 exon
GTGGATTGCCTAGAAAGCACTCTAGAAAAATCACTCCAGGCGAAGTTTCCTTCCGGCCTCAGGGTGTCCATCCTCTTGGACTTCACGAGGGGCTCGAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000000675:ENSBTAT00000000897:3
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:
PF130911=PLDc_2=FE(15.5=100)
A:
NA
C2:
PF130911=PLDc_2=FE(20.5=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development