MmuINT0117559 @ mm10
Intron Retention
Gene
ENSMUSG00000026784 | Pdss1
Description
prenyl (solanesyl) diphosphate synthase, subunit 1 [Source:MGI Symbol;Acc:MGI:1889278]
Coordinates
chr2:22895522-22901345:+
Coord C1 exon
chr2:22895522-22895762
Coord A exon
chr2:22895763-22901280
Coord C2 exon
chr2:22901281-22901345
Length
5518 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGG
5' ss Score
10.07
3' ss Seq
TTCATACTTTTGTTTTACAGATA
3' ss Score
10.58
Exon sequences
Seq C1 exon
GTGGGGAACAGGGTGCGGCTTCGCGCTTCCGGTGCCCAGCTTCCGGCTCCGGGTTTGGGCTTGGGGCAGAGGCGGAGCTACGGCCCGCCGCGACTTTCAGACTTGAACCATGGCTATGCGCTGGTCGTGCTGGCGGCGTGGCTGCTCCTGGAGGCCGACCGCGGTCGGGAGCCCGCGGCGGGAACGACCTGGCTGTGTGGAGCCTCTCGGAACACGTGCCGCCTCGGACACCCGCGCGCAG
Seq A exon
GTGAGGCCGGGACGCGCGCGCTGTCCGCGGCGTAGAGGTCACCATGCCAATGACAGCCGGCGATCCAATGAATGGGAGGATGCGCACGTGCGCCGGGGCCTGCAGTCCCCACTGGGTGGGACACCCGGGAAGTGGGACTAGTCGCGGGGCCAGAAGTGCGGAGCTGCTGATCGGGCATCCAGAAGACATTGGGGTTGAGGTAGAGGGAGCGGCGGAGCGCAGCCCTGTTAAGCCGGGGCTACCCGGGTGTGTCGAGAGGACAACCAGAGCCAAAGGGACCTCTGCTTTCACTTTCCTAGCAATTTCGGGTTTCGGATCCAGTTAGCCTCAAAATTCGGAAAGGGTGTTGTAGCGACGCAAAGTGATGCTAGCCAGGGTGGACTTCAGTGCTGCAGGTGCTTACAAGAGAACGCACGCCTGAAAGGCGCTGGAAGGACACTAGAAGGAGAAGAGCCGAAGGGTGTCATGAGAGACCTATGACTTCTTTGAAGTAAAATCATTATCTAATTAGTAATTGCGGATTCTTAAAACTGTCTCCTACTGCGTTTGATTACAAATTCATTTTCTTTTGGTTTTTAGCCCTGTAAATGACTCTCGCTTCTGTGTGAGTTGGGTCAGTCCGTGCCGTGCTTTACCTGGCAGTATCTGCAGACTGACTTTTGAAGTTAGTGTTTTTTTCACTTTGGGTTTTGGAGACCTTTCCGGCCACCGAGTAATTGTATAAGTAATTCATCTTTCATTTTAAAAATAATCACCCACCTCTTAAATTTTAGTACTATTTGGTACATTTCATATGTCAGTGTACTTATCAAACTCTATACTAGGAGGAGATGTGTAACATTTATAAATATGTGGCTTGTACTAAACAAGATGCATAAAACGGATTATCCAAAAAAGAATTTGGAGAGAAAATGCAAGCTGCTCTAAATAGAAAGAATAACAAATAAGAGAAAGAGAGCATGTAGGAAGAATCTTAGAGGAAGATAGGCTTTGTAGGGATCCATTTTGATACTGCAAGCTAGACTTTAGAGGGTTTGGGGTTTTATCTCTATAGAAAGGAAGGAAGGAAGGAAGGAAGGAAGGAAGGAAGGAAGGAAGGAAGGAGAAAAAGGAAAGGAAAAAGAAAAGAAACCTCACCTGTGAAAAGAGTTTTTCTGGAAAGAATCTTTGTCATTGGCATCCATATCCGTTTCCTTGAGCAAAAAGGGAGACTACTTGACCGTCCAACATCATGTTTTTCTCATTCATGTGTTAACTTTCTACTATAAACATATTTAGAATTCAGGTGTCTACTTCAGACATGAGTGCTTTCATTACTTCAGGTCTCTCAAGGACTACAAGACTTAAGGACAATTATTAAAACAAATTTGTTTCTCCAACATAGTATCGTACTGTAGCCCAGAGTAGCCTAGAACTTACTGTCAAGCTAAGCATGGCCCCAGATACATTATAGTAGTCCTGCCTCAGTTTCCACCCCCATCCCTATCCCTATAGCAGTGCATTAGACCTAAGCAACCACACCCGATTTTGTCATTAATTCATATTGAGCACTTTCTCTTATTTTAAAAAGTCAATTCTCAACTAGGTCTGTAATACTAGCATTTGTTAGAAATCAGGAGTTCAAGGTAATCTTTGGCTACAGAGTGAGTTGAATGCCAAACTGGGCTGTATGAGACTTTAAAAACATCTTAAGGGGCAGAGTTGCCTTTCAAAGCGAGTAAATGATATAGAGAGGGAATAGAATCTGAAGTGGAAAAATTATTTTCACTGCCATCCTCAGTGAGCCCCAGAACTGGTTGTAAAGAACTGGTTGCCATTTTAAAACATGATTCTTTCCCTTTGAAAACACTGCCCTGAGGTAGCTCTAAGTAGAATACAGGTTGACTGAGGACCTGAGAATATAATTGAATAGATACTATCTTGTGTTTCTGCAGAACTAATAGTTATAGTTCAGTGGTAGAACACTTGCCAGTCATTGGCAAAGTTCTGAGTTGAGCCCAAGGACTGCAGAGTAAATAAAAATAAGTGTATGCTGTACATTGGATTCTCAAGTTAATTATATATATATATGTATGTATAATATGTTTGAGTATTCTATGTATAATGTGTATGTGATATATATATATATAATTTCTAAGAGTAGTTATAGAGAGAAAAATGTTACAAAGTGGCCCAGCCAGAAATTTTTGATATTTTCACCAAGCTCTGTCCTCTAAGACTGCAATTAACAGTATTTAAGCTACCTAGTGGCAGAGAGTAGCCTGTATTAATCATGCAGTTTTAACTCTTAGATTGAAAGCTGTTACTCTTCCATTAAGATGTCACTTGTTATGGCGGAATGGTACACTAATGCTAACCCAACACTTGAGAGGCCGAGGCATAAGGATCAATTCAGTGTCAACTTAGGCTGTGTAATAAGATGCTGTCTTAAAGCATTGGAGGGAGGCATGATCCTTATTTATATGTTCCATAATAAAGCATTACATTTGTATATGAACTACTTAAGGAGACCAAAAGAAGTAAGTATATTGTCTAAAGAGTGTCCTGTAATCCTAGCTACTATGGATTGAGTCAGCCAGACTGTGAGGTCAAAGGCAGCTTGTGCTACATATCAAGACGCCCATCCCAGAAGGGGGGAAAGTGGGCTGTCCTATGGTAAAATCAAAAGAGAGAACTCCTGCTATGTTGTGGGAACATTATAATTTTCTGTAACTCATAAATGTTCTTAATATTTTAATGAATAGATAATGCAGTGGTGGAGACAACAGACCTCAGTCTTCTTAGCCACTGTTTAGCAAAGTCAACATTTGTGTTCTTTTAACAGCTAAAGCAATGTATGGTTCATTCAGGCAAAGTCAGAAAATACATACTAAAAATGAGTAACTAAAGCAAGACCCCCCCCCCCCCACACACACCCCAATCCTATTTGGTTCAAAATAACTACTTGTAACGCTGGTTCCTGTGTTTCTAAACCCTGTTTTTGTCTCTATGTGTTTTACTTTTGGATGCTTACATAGAGGGTTGTTTGTTTGTTTGTTTGTTTGGGTTTTTTTAAGACAGGGTTTCTCTGTACAAACCTGGCTGTCCTGGAACTCACTCTGTAGACCAGGCTGGCCTCAAACTCAGAAATCCGCCTGCCTCTGCCTCCCAAGTGCTGGGATTAAAGGTGTGCGCCACCACGCCCGGCTCTACGTAGAGGTTTTTAATGAGATGACGATATGCACAGTTCTGAGGGTATTTTTTGCTTATAATTATAATCATGCTTGTCAGTCAGTTCTTCATTCTTGAATTTTCTGGAATCCAGGTTTTCTAACTTTTAAAATAAGTGGGCTGGTTAGGTGACTCTGGGTAAAGCCTGCGTTGTCAAGCCTGATGACCTGAACTTGAGCCTCATGATCCACATGGTGGAAGAAGAGAACCTCCAAGTTGTCTTCTGACCTCCACATATGTGCCATGGCATGTGCCTATGTACAAAAAGATACACACACAAAATAAATAAATGAATAAGTATAATTTTAAAAACCTAGTTATGACCAGATGTGGATATGATGGTGTATACCTTTAATCTCAGCACTCAGGAGGCAGAGACAGTAAATCTGTGAGTTTGAAGCCAGCTGGGGATATATAGTGAGATCCTGTCATGGGACAAACAAAACTGTAGTTGTGAAGCTCTTTGAAAGAAAAAAAAAGGTTTTAAAACATATAACACTTTATTATCAAGAAACACACATTTTATTTTCATATTCATCTTTTTTTCCAAGAAGTGTCTTCACATATTTTATATAAAAGCCCTTGCCAGACTAGATTAGTAAATTAGTTTTTAAAATGCTTTCATCCTGTCTTTAAGAATAGTAATATATAAGCTACAGACAATAGATAAGAGCACTGACCATTATTCTGAAAGACCTGCCTTCAATTGCCAGCATCCACATGGCCTATAACTCCAGTTCCAAGGGGCTCTAACTCCTTCTTTGGTCTCCTTGGCACTGTATATATGTGGCGTATAGACATATTGGGAGAAGTTGGCCAAGTTGCCTCCTGATTCTCCTGCCTCCTGATCTGTCCAGGAGAACCGAAGCAGGAAACCAGGGAACTGGAGGCGACCAAGCACTTGAATGCAATGTGCGTGACAAGACTCATTTTTTTTTTATCACAGCTCCTTTGATAGCAGGAGTTTAGAATTCAGCAGAGAATCCTGCTTCACAGCCCAGTATGGCCAAGGTAATATAAGCACGACGCCATGCAGCTCCTGAAGAACATCCGCAGTTACCCGAACCAGTCTCTGGAAATTGGGAAAGGCAGTTGTTGGCATCCAGATCCCCTTCTCGAAAAATAACAGCATCGGGCCTTCCCATGCCTGTGCCATAAATTCATTATATCCCTATATAACCTTGCCAACCCGAAATACATACATTCAGGCTAAACACCCATACGCATAAAAATAAATCTCTCTTTTTTTAAAGAATAGTAATATTAATTGTTAGAAATAGTATTTGTTTAGAAGTGTTAAACGGTAATTCTTTGATATTCTCTTTCAGCCTTTTTTATGTACTCCAGGCTGACCTTGAACTTGTCCACCTGCTCCCTTAACCTCACAGTGCTGAGATCCCAGGTCTAACCTACCATGCCCAGGTGATTCCTGGCTCTTTGATCGCACTATTATCAAAATGCCCCTGAGGTTGCTAGTGCTTTGTATCATCAAAGCACATAGTCTACCTGGGCTGTACTCGAAGTCCATTCATTTGCTAAACACTACTTACCCTGAAGCACCATTTCCAACTATGTGTAATAACAATAGCATAGGCAGCATTGTGTAAATGTCAGTCCCTTCCTAATGGTAAAAATCTTTTCTTAGTCATCCCAGATACTTTTGGCATTTGTGTGTTTTAAGAATTTAAAAGATACCCTAGGCGTCCCTGTTCTGTGACCAGTCTTAGTTAAATGGAAAGAAATTGTTTTGCTGCATCTTTTCTGGTGTAGAGAGGTAGAAACAAATATGGACACAGCTTAACAAATATGGACTCAACTTTTAGAGGGATGGATGTATTATTACAGATATTTTTATTTTCTGCTTTTTCTGTTTTCTCACTGCTGGAAATTAGACCTTTAACCTCTGAGGACAAAGCAACTGCTCTTCTACTGAGCATTCCCTAGCTCTCTTTATTTTGAGATAGGGTCACTAAAAGTGCTCAGGATGACCTTGAACTCAATGTTGCCTAGGCCAACCTTGAACCTTGATCCTCCTACCTCAGCTTCATTAGTAGCTGGGATTACAGGCCTGCCACTCTGGGACTGACTTCTGCTTTCCTCTAATTCCTGTATTCTGATATGACACATTACCTTTATAATCAGGTAAGGGAACTTCTAATTGTCCTTTTAAAAATCTATCAAAGATTTCCAACCTTTTATAAGTGGCTGACTGAACAATATCTTTTGTTCTGAGTTATGGGGATATTTGTTGTTATGAATGAGTTTCCAGGAATATTCTCAAAGGTTTCTTCATACTTTTGTTTTACAG
Seq C2 exon
ATACCCTATTTTAGTCTTATGAAGATTTTAATGTCTGCCTCCCCAACTATGCATAGTATATCACA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026784:ENSMUST00000053729:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.293 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF073657=Toxin_8=PU(35.3=27.3)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
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
- Ribosome-engaged transcriptomes of neuronal types
- Neural differentiation time course
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types