BtaINT0110550 @ bosTau6
Intron Retention
Gene
ENSBTAG00000000675 | PGS1
Description
Bos taurus phosphatidylglycerophosphate synthase 1 (PGS1), mRNA. [Source:RefSeq mRNA;Acc:NM_001046395]
Coordinates
chr19:54404340-54409505:-
Coord C1 exon
chr19:54409377-54409505
Coord A exon
chr19:54406238-54409376
Coord C2 exon
chr19:54404340-54406237
Length
3139 bp
Sequences
Splice sites
5' ss Seq
CAGGTACTG
5' ss Score
9.04
3' ss Seq
GGTTTTGCTTCATCCCACAGATG
3' ss Score
10.07
Exon sequences
Seq C1 exon
GAGCAGGAGCAGCTCTACCGCAGGGCAGGCGTGGTGTCCTCTGCCACCTTTGAGCAGCCGAGCCGGCAGGTGAAGCTGTGGGTGAAGATGGTGACTCCGCTGATCAAGAACTTCTTCTGAGGACAGCAG
Seq A exon
GTACTGACCTTGGGTCACTAGGGGCCACGGGCGGTCCTCTCCAGCTGGGGTCCCGGGGCCTCTCACAGGGGCTTGGGGGCTCTCTGGTCCATCCTTGGTTACCTGCCCAGGGGTGTGTGTCTGGGGTCATGGGTGGTTATCGAAGGCTTGGAAGCCTGCTGCTAATGAGGTGGCCCTTTCACCCTCCGTCAGGTCCCAGGGCCGTGGTGGGGTCACGTGGTGGGACGTGTCTGTGCTCGCATGGGGGCCGGAGGCGGCCTTGGGGCCAGGGCCTCATGGCTGCCGGACACCGGGGTAGATTCTGTGCCCACTGTCCGTCGCGGAGCACGGGGTTCTGAAGGCAGCGGGGGCAGAGGGGCAGCGCTCATGGTGGGGGCACCCGGGCTTGCTGCCTGGGCTGTGCAGGACGGACGGAGCCTCAGACAGGCTGTGACCCCGTCTCCCCGACACTCCTGGGTTGTGCTTGCAGACACGTGGTGGTCTCAGTGACTGGCGGCGGGACTCGCTCTGCCCACCCAGGAGCCTGCCGAGAGCCCCGAGGCCCCGGGCCACCAGCTGTGTCCCAGGGGGGGACAAGAGGAAGCCTCGTGGGACGGCCCCCAGGGCTGCCGTCAGGGGTGGGGTCTCTCCTGAGTGACCCTCTGGGTTCAGATCTCATTAGACCCTGACCTGGCCCCAGGTGGATCAGTCTCGGGGTGGGACGTTCTGGGGCAGACTCCGCTGGTCCAGCCAGGCAGAGGGGCTTGTGGGGGAAGGAGAGCGAGCAGGCGGGAGCACAGGGTGGAGGCTGAGGAGGCTGAGCGGCCGAGCCTGGCCCGTGCTGGCCCCGTGTGTGTCCTGGGGTCACGGTTCTCTCCTCATCACTTTAAAAGGTTGCATTTTCTCACTTCGTTTTTTTCTCAACATTTTATTACTTTATTCAGATAACACAAAAATTCAGAGAGTAAAAAAATGCTTAAAGGCTGAGATGCAGATGCTTTCCTTTCCCCCAAGCTGCCTCTTCTACCTGCTGCTGTTTCTCTCTCCCCGGGGCCACTCCTCCCCTGCCCCTGGGGTCTCCGGGAGCAGATTTCAAAAACCTCCCAGCCTGGTGTGGCCCACTCTGCACACCTTCAGGTGCTTGAAGAGAGGACTGGTGCTTCAGGTCCAGAGAGGAGGCCTCACGGCCCCAGGGCTTGGCCCTCACCCCTGGCAGGGGCGGGGTGGTGGCAGGGAGTTGGGGGTGGGGGGAGACAAATGGGATTCCCTACCTGCCGTGTCTCCCTGCGGAGGGCTGGCAGCTCCGATGGTCACGTTCGCGCGTGGGTCCTGGGAGGCCGGGGCTCCGGGGCTAGGGGCACCCCATCTGAGCCTGGAGCGGCCCTGGCCCCGCCCCCGGGCCCAGACAGGTCTGCCGGTTCTCCGGTGGGGAGTGGGGTGGAGCCGCAGCCACGCTGCCCAGGGGCAGCAGCACATCAGTTAACACTGTCTTCAAACCAGTTATTAAGTTGTCCTGTGGACGATCAGAGGAGGGAAGCCAAAGGAATGTGCCGGGCACTGGGTTTCTGTTTGGAGGGAGGCTTTCGGTAAACAGCGTTTGCGTTCCTGCAGGGGCTGTGGGCCCAGAGCGAGCCTGCGCCACAGCCGGGCTTGAGCAGTAGGCAGCCTGCTTGCTTTGTGTCTGCCGCCTGCCTTCAGGACGGTCCTGGGGGAGGGGGCTTCCCTTCTCCCCCTGGGGCTCACCGCAGCCTGGGCCCCTACCCTTCTCCCCCGGGACTGCTGCTGGGCTCACGGCACTTTCAGATGCAGCACAGCGCTCGTCCCAGGCTCTATCTCTGAGACCGGATTGCAGCTCCAGGGTGAATCGTCTCACAGCATGGAGAGAATTTTGTTATCGACTCGCCGTGTGTGATGTAGAATGAATGACTGTCTTATTTCAGGTTCTGGAGGCAAAATTGGAAAACCTCCGCATTCTGTGGTTATCACCAGGGATTAGCATGAGTTGCGTGGTGGCCACCGGCAGGCCTGTGTTCTCCAGTCAGAGTGGTGGCTCTCCTGTCCCTCCAGCCTGGACACCACGGGCTACAGTGGCCCCTTCTGGCCAGCAGAGGCGGTTGCCCGGCATCCAGACTCTGGCCACAACCCCTGCTGCTGAAGGGGCGTGGATCCTCCAGGTCCCTGGGAGGGAGGGTTTGAGGGACACTTTTCCTTCTCCCTCTCAGCCCCACCAGACCCAGGATTGTTGTAGATCATTGGCCCCAGAGGTGGGCCTTCGAGGACTGCTTCTTTACCCATGGATTGGATGAGAATCCTTGGAAAAAGGTTTTTACAAAACTTCAGGATCAAGGTGAACTTAGAAAGCAAGGCCCTTGTTTTCTTGGCGCGGGGAGTGTGGGGTTGGGGGGGCAGGCTGCTTTACTCTGCTTTTAAGCCAGGAAACACTGAGGGTCCAGCGCATGAGCCCCCCCACCCCCCGCCCCCCCCCGGCGTCTGTTTCTGGAGTTTGCGGGCCCTGCTCGCCGCCTGCCTTGTCCGCTTCTCGCTCTGTTTGCACCCGTCCCCTGGGGCAGCCTCAAGGGCAGCGCAGCTGCTTTTCTGAACTACGTGCTTCGGCTTGGCCATGCAGAGTCAGGCAGGTCTGGGCCTTGCTGCTCTCGGTCCTGCTGAGGTCATTCTGGCTGCCGATAGGGACACCGCCCCCCAGCCGTCAGACGGGGGCCTTCCCGGGGCAGCTCCAGGAGCGGCACCAGGGCAGCCACCTGCGCCCCTTGGAGCTCAGGGTGCAATGAGATGGGCCACCTCTCGTCCCTTCCCTGCTGGCTCGTGGGCAGGCTGTGTGTGGAGGGCGTGGGGGGCCACCTTTCCTGAACCTTGTCTCCTGTGCTAGAAGCACGGGGGGCTGGGGGCCCTGGCCCTCCTGGTGCCCACTGCCATGCTCAGCCCGGGTTGCAGTGCCCGAGGACACACTCACCCCAGGGTTTCTTGGCTGCTGAGCAGCCGGCCCTCTTCGGCTGACTTGGTGTCTGTTCTTCATTTTCTGATTCTGATTCCTAGATGGTGGGTGGGTTAGGCTGTGTGAAATTTCTCTCATTTCTTGAGGTAGGCCTGTATTGCTGGGATCTCCTGGAAGTCTTAGAACTGGTTTTGCTTCATCCCACAG
Seq C2 exon
ATGCTGGAAAGTGGCGTTTTATTTTCGTCGTCTCCAGGTATTTCCTGGTCTCCTTCCTAGCACGCGATGCCTCCTGCTGAACATTCCACGTGTGCTTGAAAGAACGTACATTCTGTTTTTGGATGGAATGTGCGCTAGTTATCTAGAAAGTCCTACTGGTCTGATGCGTCATTTGAGACAACTATTTCCTTATTGATTTTTCTGTCCATTGTTGTAAATGGGTGTTAAAGCCCGTTGCTGCTGTTATTGTCTTTCTCCTTTTGCACATGTTAACGTTTGCTTTATATGTTTAGGTGCGCCTGTAACGGTTACATCTTCTCGTATTGATCCCTTTATTATGTGACACCCTTCTTTGTCTATTATGCACTTTGCTTTAAAGTCTGTTGTGGTGGCAACAAGTGAGCACTGCTGGGGAGAAGGCGGGAGCTGAAGGACAACGAAGGTGCTGCCCAGCACTGAGCACGTTTACTGTGACCTCTCAGGGCACAGACACGCGTTCATAGTGGTCCCTCCGGTTCCCAGCAATTTCAGAAAGTGGGCAGTTGACAGGGAAGTACTTGAGGTGCATGGAAATGGCCCCTCTTTGGAAACAGTTTGTTTTTCAGATTTCTGGGGCAGGGAGGAGGCATTACCATAACCGAGGGAGGTTTCCTTCCTTCAGAGAAGGAAGGACGCTTTAGGAGACAGAGCCTGTGGAGGTGGCAGCTCCTGTTTATACAGGAACGGAACGCCCTGGCCCCTTAGTGGTGGGTGTTTACATGTAGCATCAGGCCCAAGGGTGGGACTGCCTCCAGCTCTAACCCTCCAGGCCACTGATGGGGGAAGATTAACCCAGCCGCCCCTGTGGGAAGTCAGGATTTGGGGGTTTGGGTCCTGGGTTGTTCCTCCAGCTGCTGGGAATCGGGGCCTCGCCCCCAGGCCTGTGCCAGGCCCTTGGTGGCCACCAGGCGCCGAGCTGAAGGCTAGCTCCAGTGAATCAGACAAGCCTGGCTCAGTAGCATCATTGTTTTAATCCTATCCACCCCGCCTCTGATTAGTCCAGATGTGCTATGAAGTGCCTCGATTATTTAGGAGAACAAAAAGCAACCATCAGTTCCTGTGAAAATAAATGACAGTTGCAGGACTGGGATCCCAGCTGTGAATCTGAAGTTGCAGTCAGGACCTGGCCCAGGGCAGCGTGGGCCTCTCTCCAGCTAGACCTGGAGGAGCAGCGCCACGGCCGCTAGGATCCACTTCGCTGCCTTCTCCTTGGTTTTCAGGTTAAAGGTCCAGACGTAGGTGGGACCACGGATGCGTGTTTTGTACACGGGACATTCATAGATGTTCTTGGTCTCCATGCGGTCCACAGGGATGGCCTTGATGAAGATGACAGGCATGGCTGGCGTCAGCTCTTTCAGCCGCGCTTCAGCGATGACTCCGGTCTGGGTGTCCCAGCGAGCTCCTGCAGGGATGGCACACCTGAGGGTCAGGGTGGTCCGTGGTGAGGTGACTGGTTCCCGTCTGTCTCGCTGGCAGGGAGGGGCGGGGCCTGGCTCACACCCCCACCCCTGCAGCGATGTGCCGAGGCCGGACTGGCACTGGGATCACCACACGTGGGGCTGCGAGCAGAGGGTGTGGTGGGGGGCTTCTCACTGCCAACGTCTGAGGGACGGCCCAGCCCAGCCCTGGGCTCCATTGTTTACATTTGTGGTGTTGTCAGGGGCAGGAAACTAACTCCAGCTAAAAGTGACCGATTACAGCTCCCCGCTCCCCTCCCCTGTGGCGTCTGTCCTGTCCGTGCGCAGTAAACGTGTAGACACACATTGAACTGTTGCCTCCTTGAACCGGACTTATTTCTACTCACCCTATTTAATGACGCTGAGATTTCCTGTAATTCCACAATAAACATGGAGAACGCC
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000000675:ENSBTAT00000000897:9
Average complexity
IR
Mappability confidence:
NA
Protein Impact
3' UTR
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=NA
Domain overlap (PFAM):
C1:
PF130911=PLDc_2=PD(2.9=12.5)
A:
NA
C2:
NA
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Mouse
(mm10)
No conservation detected
Rat
(rn6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
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