BtaINT0109709 @ bosTau6
Intron Retention
Gene
ENSBTAG00000006529 | PDSS1
Description
Bos taurus prenyl (decaprenyl) diphosphate synthase, subunit 1 (PDSS1), mRNA. [Source:RefSeq mRNA;Acc:NM_001100331]
Coordinates
chr13:18216330-18217607:-
Coord C1 exon
chr13:18217543-18217607
Coord A exon
chr13:18216451-18217542
Coord C2 exon
chr13:18216330-18216450
Length
1092 bp
Sequences
Splice sites
5' ss Seq
ACGGTAAGT
5' ss Score
11.81
3' ss Seq
TTGTGTGCATTTCTGCTTAGGTT
3' ss Score
8.46
Exon sequences
Seq C1 exon
ATGTCCTATTGTAGTCTTATGAAGAGTTTAACATCTGCCTTTCGAAATATGTATGGTGTATCACG
Seq A exon
GTAAGTTTATTATCCATATTGCAGCTAAAATTATTAGTTATATATATTGCCGGTAAATGTCTATTCTAAATTGCGGTGGGCTATTCAATTCAGGAAATTGACTGTGCTATTTAAGTGCCATAATACCTGCTTTGTGTGATCTTGGTCTTCTTAAAAAAAAAAAACAGTCGTCCATTGGTGGGGGCGGGGGAGGGGACATTGGTTCTAGGGTACTCTCACCTCAGATACCAAAATTAGGGATGCTCAAGTCCTTTATATAAAATGGCATAATATTTGCATATAACCTACACACATCATCCCTTATACTTTGTCATTTTTAGATGATTATAATACCTAATATAAATGCTAGCCAAATAGTTGCCTAAGCATGGTAAATTCAAATTTTGCTTTTTGAAACTTTCTGGAATTAAATATACACACACACATATATATTTTCAAAATGAGGTGGTTTGAATCCAGAGATGTGGAACCCGTAGACAGAGAGGCCCAACTGTAAAATAAAATTTAAACTTGGACTTCTCTGGTAGCTCAGGGTAAAGAATCCGCCTGATTCGATCCCTGATTGGGGAAGATCCCATACGCCTCAGAGCAACTAAGCTATGCACCACAAGTTCTGAGCCCGCGCTCTAGAGCCCAGAAGCGGAAACCAGTGAGCCTTTGTGCTGCAGCTGCTGAGCCTGTGCACCCTAGAGCTCATGCTCTGCAGGTAGAGAGGCCACTGCACTGCCAACCTGATACATTGCACCTGGAGAAAAGCCCTCACAGCAACTGAAGACCCAGCATAGCCAAAAAAAAAAAAAAAATCTGACCTTTAAAAAAAATTTTAAAGTCAGAACACAGTGAACATGGTTTATATTTCTTTTCATTTTGTGGCTCCCTAGGTCCTGGTTATGAAAATTGGTGTAGTGTTGAGCAGGATCAGAATTTTATATGATCTTTGAAATTATAATGACCTTTTTTCATTCATGCTTAATTCCCAGCAAGTGTCTAGGCTTCAATTTGCCATCCTCCAGGTCTGTGTAATTCTTACTTTAAAATGAAGTAACTCGGTAAAACAGTGCCCAGTCTTCCATTGTGTGCATTTCTGCTTAG
Seq C2 exon
GTTCCATCACACGACGCCAGTAGCTTGCTGCTTCAGTGAAACACTGAGCGGTGAGAAGTACACCGACCCTTTTAAGATTGGCTGGAGAGACTTGAAAGGTCTCTATGAGGACATCAGGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000006529:ENSBTAT00000008576:2
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:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGTCCTATTGTAGTCTTATGAAGAGT
R:
TCCTGATGTCCTCATAGAGACCT
Band lengths:
183-1275
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development