BtaINT0109708 @ bosTau6
Intron Retention
Gene
ENSBTAG00000006529 | PDSS1
Description
Bos taurus prenyl (decaprenyl) diphosphate synthase, subunit 1 (PDSS1), mRNA. [Source:RefSeq mRNA;Acc:NM_001100331]
Coordinates
chr13:18182707-18186506:-
Coord C1 exon
chr13:18186426-18186506
Coord A exon
chr13:18183154-18186425
Coord C2 exon
chr13:18182707-18183153
Length
3272 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGA
5' ss Score
9.22
3' ss Seq
TTTTCTTCCGCGTCCGGTAGAGT
3' ss Score
6.93
Exon sequences
Seq C1 exon
TTCCCAGAAATGAATGCTATGATAATGAGACGGTTCGGTTCACCAGGAGACGTGGACAGAGCGCTACAGTACGTATTACAG
Seq A exon
GTGAGACGATTTCAAAAGGAAGAGTGGCAACAGTAGGTATGGTGCAGTGGAAGAGTCCTTTGGTAACCAAATTAATGTAACGAGTTTTAGACGCAAGACCAAGTTTGGTCAGGGAGTGTTCTATGTTTTCCTCCAAGAGTTTTATTATGTCTGGCCTATGTTCAGGTCTTTAATCCATTCTGAGTTTATTTTTGTGTGTGGTGTTAGGGAGTGTCCTTGCTAATTTAGTTTTACATGAGGCTGTCCAGTTTTCCCAGCACTGTTTACTGAAGAGACTGAAAATCACTGTATAGTCTCATCTCTTTTGTGAGATGAGGTGACCATAGGTGCGTGGGCTTTCCATCCTCTGCCACTGACCTGCATTTGCTTTCATGCCAGTATCATACTGTCTCGATTACTATAGCTGTAGAGTAGGTACAGTCTGAAGTCAGGAAGCCCGATTCCTCCAGCTTCATTTTCCTTAAGATAGTTTTGGTTATTGAGGGTCTTTTGTGTTTCCATACAAATTGTAAAATTTTTTGTTCCAATTTTATGAAAAACACCATTGTTGGTAATTTGATAGGGATTGCACTGAATCTGTAGCTTGTCTCAGGTAACAGAAGTCCTTCTGACAATATTCTTTCGAGGACGTGGTATGTCTCTCCCTCCGTTCATGGTGTCTTTCATTAGTATCTTCGTTTCCTGCATACAGTTCTTTTGCCTTCTTATGTAGGTTTATCCCTAGGCATTTTATCCTTTTTGTTCCAGTGGCAAATGGGACTGTTTCCTTAGTTTCTCTTTCTGATCCTTCATTATTAGTGTATAGCAATGCAAGAGATTTATATGTATTTTCTATTATGCAACTTTACTATTTTCTGGTGGCATATTGAGGATTTTCTATGTATAGTATCATCGAAAAAGAAAGAGAGTTCCAGAAAAACATCTACTTCTGCTTTATTGACTATGCCAAAGCGTTTGACTGTGTGGATCACAACAAACGGTGGAAAATTCTTAGAGGTGGGAATACCAGACCACCTGACCAGTCTCCTGAGAAATCTGTATGAAGGTCAAGAAGCAACAGTTAGAACCGGACATGGAAAAAGACTGGTTCCAAATGGGGAAAGGAGTATGTCAAGGCTGTATATTGTCACCCTGCTTATTTAACTTATATTCAGAGTACATCATGAGAAATGCTGGGCTGGAGGAAGCACAAGCTGGAGTCGAGACTGCCAAGAGAAATGTCAATAACCTCAGATATGCAGGTGACACCACCCTTATGGCAGAAAGTGAAGAACTAAAGAGCCTCTTGATGAAATAGGAGAGTGAAAAAGTTGGCTTAAAACTCAACATTCAGAAAATTAAGATCATGGCATCTGGTCCCATCACTTCATGGCAAATAAATGGGGAAACAATGGAAACAGTGACAGACTATTTTTTTGGGTTCCAAAATCACTGCAGATGGAGACTGCAGCCATGAAATTAAAAGACGCTTGCCCCTTGAAAGAAAAGTTATGACCAACCTAGACAGCATATTAAAAAGCAGAGACATCACTTTACCAACAAAGGTCTGTCTAGTCAAAGCTATGGTTTTTCCAGTAGTCATGTATAAATATGAGAGTTGGACTGTAAAGAAAGCTGAGTGCTGAAGAATTGATACTTTTGAACTGTGGTGTTGGAGAAGCTTCTTGAGAGTGCCTTGGACAACAAGGAGATCCAAGCAGTCCATCCTAAAAGCAGTCAGTCCTGAATCTTCACTGGAAGGACTGATGCTGAAGCTGAAACTCCAATACTTTGACCACCTCATGCGAAGACCTGACTCATGTGAAAAGACCCTGATGCTGGGAAGGATTGAAGGCAAGAGGAGAAGGGGACAACAGAGGATGAGATGGTTAGATGGGATCACCAACTCAATGGACCGTCCCCAGACACGAGTCCGAGTAAGCTCCACGAGTTGGTGATGGACGGGGAAGCCTGCTGCAGTCCATGGGGCCACAAAGAGTTGGACAAGACTGACTGAATGAACTGAACTGACTGATGTGTAGTATAGTATATCATCTACAGACCATGATGGCTTTACTTTTCTATGCGAGGCAATCACTGTTGAGTAATAGCAGTGAGTGGACATCCTTGTCTTGTTCCTGATCTTGGCAGAAATGCTTTTTCGCCAAGGAGAATGTTGTTTGCTGGTGGTTTATCATAGGTGGCCTTCATGTTGAGGTAGGTTCCCTCTACGTCCACTTTTCTGCAGTTTCTGTCAATTTTGTCAAAAGCTTTTTCTGCATCTATTAGAAATGATCATATGGTTTACATTCTTCAGTTTGTTAATATGGTGTGTGACACTGGTTGAATTGCATATACTGAAGAATCCTTGTATCCCTGGGATAAATCTTACTTGGTCATGATGTATAAACCTGTTAATGTGTTGTCAAATTCGGTTTGGTAGTACCTTGTTGAGGATTTTTGTGTCTAAAACGTGTCATATTTTGAAACACTTGGTAAAGAAAATCTGAGTCCTTTCAATCATGATGCTACAGATATCTTGTTCTGAATGACAGGGAACCAAGCAGAAGAAAATAAAATCAACTATATGTCTTGATATTTCCATAAACATTTTGACATAATAGAAATAGTAAATATAATTATTTTACTAGTGTTTAGCTTTTTGAAAGAACCAACATAAAAACATGGTTACAAAATGGAATGCAAATCTCTATAGGGTAAAGATAGAGGAAAGAGAAGGAGCAGTGGTTTCCTCGTCTCAGATGAGATGAAGTCAGAAGTTGATGCTACATGACGACAACAGTGACCAATAGAAGGACTGAAGACAAACAGTCTGGTCAAGCTGGGAGACAGTACGGCTGGGCTTAAACACGTCTTAACAGAAAGGCAATAGATAATTAAAACCAACAGACAAAACTGGTGCCTTTGGAAGAAGAAACTTGATTTTCATTTAAGCTCTTCTATATTATGAATGTATTATGTTAAGTTGCACTTAGAGTTTTACTGTATCAATTTTAGTGTATGTGTAACTTAAAAACTAATACTTAAATGAAAAATAGGGGGAAAATAGATGGCTACTTGGTATTAATGAGTTCACTGCTTGGCATGGTAATAGAATAAAAATGTGCTTCAGTCTGAGAAAGTGGGAGAGACACAGAGAACATTAGAAACAACGTCCAGCTCTTAATCAGATCTCCAGAGGATGTTTTAACTCACTGTAGCAGGACTTTAAAGAGCTGACCCCAGTGGCTGACGTGCATCTGTTCTGTTGTATTTTCTTCCGCGTCCGGTAG
Seq C2 exon
AGTGATGGTGTGCAGCAGACAACCTACCTCGCCCAGCGGTACTGCCACAAAGCGGTGAGCGAGATCAGTAAACTTCGACCATCCCCAGAAAGAGACGCCCTCATACAGCTTTCAGAGATGGTGCTCACAAGAGACAAATGACACCTCTTTCTGGTATTTCTGGCAGCTATTTTACCAGATTGTGCCTCAAAAATTCTGTGGAATACACTTTGCTTCATGTGCAGATAACCAAAAAAATCATTTAAAAAGATCATTTCCTTATTAATGGGACTTTTTTTTTATTGGCAAAGTTTTTCAGAAAACTTTCTAAATGTATTTAAACCATCTGAATCTGTCATTCTAGTCCTATAAACTCTAATCGAGGTATCTTGATGGTTATATGTGGTATTGTTTACACAGTTATAGTAGCCACATGTAAAGCCATTACACAAATAAATAATCAATGTT
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000006529:ENSBTAT00000008576:10
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0034812=polyprenyl_synt=FE(9.9=100)
A:
NA
C2:
PF0034812=polyprenyl_synt=PD(4.2=23.4)
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