BtaINT0110549 @ bosTau6
Intron Retention
Gene
ENSBTAG00000000675 | PGS1
Description
Bos taurus phosphatidylglycerophosphate synthase 1 (PGS1), mRNA. [Source:RefSeq mRNA;Acc:NM_001046395]
Coordinates
chr19:54409377-54414144:-
Coord C1 exon
chr19:54413996-54414144
Coord A exon
chr19:54409506-54413995
Coord C2 exon
chr19:54409377-54409505
Length
4490 bp
Sequences
Splice sites
5' ss Seq
CAGGTCGGT
5' ss Score
7.53
3' ss Seq
TGGTTGTCCCTCTTCCCCAGGAG
3' ss Score
9.76
Exon sequences
Seq C1 exon
GCCTCTGGCTGTACCTGGCAGGGAGCAGCCTGCCCTGTCTCACGTTGATTGGCTCTCCTAATTTTGGGTACAGGTCGGTTCACCGGGACCTGGAGGCCCAGATCGCTATCGTCACGGAGAGCCGAGCCCTGCAGCAGCAGCTTCACCAG
Seq A exon
GTCGGTTGGGGCTGCGGGGCGGTGGGGGTGCAGTCGGGTGCCTGGGGGCTGCCTCCTGCTGGGGCCCGAGGGTGGGAAAGAACCGGGGTCCTCTAGTGTGTGCCGCTGGCCGGCCTCGAGGGAGGCCTGCTGCACCCCTCTGCCTGCACCTGGGGCCTGCCCTTCCCTGGCAGGTGCTCTCCCCAACATCTCGGGGACATTGCGTTTTCCTACATGGGCAGAGAACGCTTTGTTCTCACAGGGATGTGAATACGGCCCTGGTCCCAACCTCTTCTGAGATGGCAGATCAGCTCCTGGGGTAGGAGCCAGGGTCACACAGGACGCGCGCCCAGGTCTGTTAGGGAGCAGCTTTGGGCGGCCTGGGTCATTCTGATGACGACCCTCCCCAGAGGGTCTGAAGCAGACTCAGAGGTGCTTCAGAGTCTGGGGAGGGAGAGGCAGGAGGTGGGGTTGCCACCCAGGCGGAAGGGGCACCCGGGGAGCCAGAGTCTCTGCAAGTGGAGACAGAAGCCGGAAAAAAGAGTCAGCCCTTAGAATGACCTCAGAGGCCGCGCAGACAGAGGTGGTTTGTTTGGAGCTGCGCCGTGGTGAGGGCTCGGACTGTCCTGGTCCCAGACTGCTGTGCCCTCCAGTCAGCATGACGATCCTTTTGCGTTGAGAACTTCGATTCTATTTGTTTTCCTTCAGATCGTTTCACTGGGTAGTGATCTGGTTTGGGATTGACTGCAGGAGGTGGTGGAGGGACTGCTCAGAGGTGTGCCTGGCCAGGAGCGGGGTCCCCTCGTGGTGTGTTTGTAGGGGCTGGTGGTGGTCAGGGCCCCATGGAGGCTGGTATGCCGCCTGCCACCTGCCTGTGTCAGGATGGCGGTGGGGCAGGGCAGGCCCGTTTCCAAGGTGTCTTGGAATTCCTGCATTGTTTTTGTCACACTTGTAATAGGATTTCTTTCCTTGCAGCTGTGAGAGGGGGAGGCAGGCACCTTTGAGAGCGAGGGGTTGGGGGAGGGGTGGTCCTAGGAGAGAACTTAATGCGCTTGATCTGGCTTGGCGGGCATGTCGTGTGGTCCAACGAGGACCTCCCACTCCCCTGGGAATAGACTCCCCCGAGTGGCCTTTCTCCCAAGCTGGGGCTGGAGAGTCAGTCACGGGGCGCGGGATCCCCAGCCCCTGCTGCTGGCTGCTAGGGGCCCACGGTTGGTTGCAGGGTGGACGGGGAGAGCGCTGGGCTCCCGGGGACCGGAATGCAGCTCTGGTTCCCAGAGGGGCAGCGGTCTCAGCCTTCTCCTGCGATGGTGGTCTTTCCATTTAAAGCCGAGAATGAGTGCAGATGAACCCCTTTCTGTTTCTACGAGCGTCTCTGTGTTGGATCACCTGCAGCAGCGGCTGGTGGACTCTCGGGACGCAAGCACAGCACCTGTGCACGTGAAACCTGGGTGATCCTTGGGTTCATGGATTTATGACCTTTACGACAGAGCCTCTGCAGGGGAGGTGCCAGCTTTCCTCCTGAGTCATGGGAGCGTAGATAACACCCCCGAGGCCAGCCCGCAGAAGTGCAGGGGCTGTGTCACGCCTTTATCTTGTGTTCGGGAGTTACTGTTGCGAAGTCCTTGGAGCCTTGCTGATGGACGAGGAAATGGTAACTGCCTGGTTCCCGGGATCTGCCTCCCGTGATCTGGGAATCTTGTCAGTGACTGAGCAGGGCCCTGGTGCCAGGAAGGGCCTCACCGGGGCCGAGGGGAAGTGGCGGCGGTTGGGCTCTGGGCGGCCAGCGGGAGACTCTGATCTGCTCAGCAGATCATAGATGCTATGGTCAGGCTTCCAGCAAACGCCCGCCGAGGTTCCAGCAGGGGCTGGCCGGCCTCAGGGCGCTGGGGTGAGAGGAGCACCAGCATCTCCTGGGCCTCGGCCTCACTGCTGAGAGCTGGGTTTCCCAGACATAGAGGGGTCAGGGTGCGCCTGGCCCCAGGGCTCTGGGCCTGGGGCTGATTGGGGGGAGCAAGTCTGTGCCCAGAGTCCTGGTGCTAGCCACTCTCCCCCCGCTCCCCAAGTAGGGGGACTGAACCCACATCCTGAATCTTGAGAAAAGTTGGGCCGCTTGTGGTCAGGAGCTGCTTCCCCAAATGACATATTTGGGATATTTTCTTTTTCTTCCCAAACCTGAGTCCCAGGGGCTTTTGTTGGGAGGGTGACAGTCCGCACCACTGCAGCCCTTCCATTCTTTAGAGGCGCGCTCGCTCACCTCTATGCCTTTAACATGCAGAAAGGCATTTCTGGATAACTCCACCTATGCACTTACATACCGGGACAACAGCCACCCTCCGGAGAGGCCCCTGTGAGGCCCGATCCTGGGACTGCCCAGCTGCACAACCTCCCCAGAGCCCAGAAAGTCCCTAAAACCCCGCTGCCTGGGGCCCTGCCATCAGAAGCCACCTCTGGAGTCCTCCTGGGGTCCCAGGGAAGGGCCCTGTCCGTGTGTTCCTGGGCACCGGAGTGGGGAGATATTTTTATCCAAATCCACAGTCCTTCCCTTCACTGAGTACATACAATAAAAACTGAAAGCTTCCTGGTTTTGTTCGGGCAGCACGGTTCCCCACTGGTGACCTAGGGAAGCCTCCCTTGAACAGCATTGTGACCCCGAGCAGCTGACTTCCTTCTCCTTCCCTGTGCGGAGGCTGTGAGGAAACTTAAAGTGTTTCTGGTAATTTAATTGAGATCTTGGCTGCATATTCATTGGAAAAACATAAAGCTGGAGCCGGGTCTGTGGAGACCGCCGCAAAGCAGCCCCTGGAGACCAAGGCCGGCTCCTCCGACAGGCCCGTCCAGCCGCGGTCAGTGGGCGGCACAGTCGGCTCGGACGCGAAGCGCCAGGGACCCCGGCCCTGGCCCGGCGCACAAGGGATTGAGCACGCAGGCTGTGCAGGAAGACGTGAAGTCGGGCACTAGATTTCCCCAGCCCTTGACGGGAAGAGCTGCGGACAGTCTGTCGTGTTCTGAGGGCGCTGTGTCCCCCCCTCCCGTCCTCACTGGGTCACAGGGGTTGGCCAGGGACACGGCTTCCGTTCCCACCCCCCAGAGGAGAGCGTCCGGCCCCCGGCAGGTCGGGGGGCGGCACCGCAGCACCCCCCTGGGGCTCCTGGTGCCAACATGGTTGGAGTGTTGGCACAGCCAGTGCTGAGGGAGCCTCACTGGGGCGTGGGGTAGTCAGGGTTTCACAGATGAAGGGACACAAGGCTCAGAGAGGGAAGTCACAGCTTCTGACTGCTGCCTCTGCCTCGGGAAAGCTTCAAGGGTGTGTTTTAAAAGAGAGGCAGTTTCTCGTCTCAAAGATGTTTTTATTCGTTCGTTCATTGTTGGCTGCACTGGGTCTTCGTGCTGGGTGTGGGCTTTCTGCGGTGTGCAGAGCGGGGGCTGCTCTCTGCTGCCGTGGCTTCTCTGGTCGCGGGGCGCAGGTTCCAGGACGTGGGCCTCACTGCCCCGCGGCACACGGGAATCCTCCAGACCAGGGGTCGAACCCACGGCCCCTGCACTGGCAAGTGGACTCTTAGCTGCTGGGCCGCCAGGGCAGTCCTCTTCTCGAACACCATGTCAGACAAGGCTTATGTCAGCGTTTTTAAACATGAAAGTAGTATTCGTTCACTTTAAAATGGAAGGAAAATTAGAAGACACTGACCCTGTCACCCAGAAATAATCACTGAAATTGTTTCGGTCGCTCCTAGCCGGTCTTGGTCTGTGGGCTTACGGAGAGTGTCACTTGGCTTTTTTCTTTTTAAAGAAATCAGGACTGTGTTGTGTGTGTTAGTGCCCACCCCGTGCCTTGCACTCAGTCTGTGGTGCGCCTTCCCATATCCTCAGGTCAGTGTTTCTCCAGGGCACGGTCAGCTCGTGGTGAATGCCGGTGTGTCATATGGTTTGCTATGTTTGATTAGTTGGTTGTTGGACATTTAGGTGCTTTCCAGGTTTTCTCCATCATAAATGTTGGCGTGATAAATGTGCGCATACAGAAATCTTAGTGCGTAGTTATTTTCTTGGGATAAACTCTTGCACATGGAGCTTTTCAAGGCTTTCGATAACCTGTTGCCAACTTGCTCTCCAGACGGGGACCTGGCCCCCCCTTTCCATCAGCCGTGTCCGGGAATGCCTGTTCCCTTGGCCTTCGTCAGCAGGGCTGATGACGTTACCACTTTCTGCCAGCTTGAGACAAGAAAAACTGTGTCTTGTTTAAAAAAGGACCTTCATTATTTTAATTGCACTGCCTCATTTATCGAGGGTGCACTTTTAAATATTTCCTCCACCAGCTGAATTCCTTCAGCTCTAAATTGCCTGTTCCCCACGCACCTCAGTCTTCAAACTGTAGACACCCGGCTTACTAGCTTTCCCCAGGGATGTTTCACAGGGACGACCTGCGCCAGGGCCCCCGCGGAGCCCCAGGGCCAGCAGGCCGAGTGGCTGGTCCTGGAGCCGCCCCGGGACTCCTGGTTGTCCCTCTTCCCCAG
Seq C2 exon
GAGCAGGAGCAGCTCTACCGCAGGGCAGGCGTGGTGTCCTCTGCCACCTTTGAGCAGCCGAGCCGGCAGGTGAAGCTGTGGGTGAAGATGGTGACTCCGCTGATCAAGAACTTCTTCTGAGGACAGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000000675:ENSBTAT00000000897:8
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(28.8=100)
A:
NA
C2:
PF130911=PLDc_2=PD(2.9=12.5)
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:
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