MmuINT0117560 @ mm9
Intron Retention
Gene
ENSMUSG00000026784 | Pdss1
Description
prenyl (solanesyl) diphosphate synthase, subunit 1 [Source:MGI Symbol;Acc:MGI:1889278]
Coordinates
chr2:22791079-22795779:+
Coord C1 exon
chr2:22791079-22791159
Coord A exon
chr2:22791160-22795342
Coord C2 exon
chr2:22795343-22795779
Length
4183 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGA
5' ss Score
10.77
3' ss Seq
TGTTTTGTTGTTTCCTATAGAGT
3' ss Score
9.68
Exon sequences
Seq C1 exon
TTCCCAGAAATGAATGCTATGATAATGAGACGGTTCAGTTTGCCAGGAGATGTGGACAGAGCACGACAGTATGTATTACAG
Seq A exon
GTAAGACTACTTTTAAAGGATGGTTTTAAATCTTGCTTGTGCACATGCATATGCCCAGCGGTTGGTGAAGGTCAGAGGACAACGAGTAAGCGTAGGTTCCTTCCTACTGTGGATATTCCAGGGATCAACTCAGCTTATCAGGCTTGACAAGCAGGCCTTTACTCACTCAGGGTTAGGTCCTTGGTCTATCCCTAAGATAAGACAGACCATTAAAAAAATATAGAAAAGGCAACAGCTGGTACGGTAACAAAATTTTATATAGAGCCAAGTTGGTCAACCCTTACCTGATTTGACAATAACTAGGGCAACTCATTTAAAGTACTAATTATTTTATATTTAACTGTGGTGCCTTGGTGGTAAATTTGCAGGAGTTGGCTCTCTTCTTACACCATGTGGGTCCTGGAGACTCATCAAGCTTGGCAGCCAGCTCCTTTACTTGCTGAGCCTTCTCAGAAGCCACCAGCGCCCCACCCCCCCCAAAAAAACTGAATATAATTTCTCTTTGAAGTTATTCAGTAGTCTTCCTATGCAGGCCAGACCATGTTAAATCTATTAGATTGAAATGAGCTGTCCCGTGTCCATGAATATCATCACTGTACTGTGCTTAGGATCGACCCCATCCCTGTCCAAAGCTCACTTCCTATAGCTAGTCAGTTATAAGAGCCTACCATAAATACCCTTCCTGCTAAAAGCAAGTGAGTTATTAAAAACAACTTGAACATAGTGAACAAGTCATAGTCATAGGACCTAGACACATTTTAAATGTGTTGCTGTATATATTTCTCCTAGATGCTAAAGGCTTTGTTTTCTTTAAAGGATTATTTCCAGAGCCAGTGGGTAAAGGAACTTGCTGCAAAGCCTTCTGACCTGAGTCTGATTTCAGAGACTCACATAGTGGAAGGAGAAAGTCAACTCCTGCAAGTTTTCCTCTTACATCCGCATGTGCCCTGCTGTATGCATGCCCACCCCCACAAACTAAACACAAACATAAATGGATTGGTTTTTTGTAAAGGGATCAGTTTCCAAATTCAGTTATCTGGAGGTCACAGGTTAAATGGAATAGAGTAAGAAAACAAGATTTAGTAAGCAAGTACAGTCTAAGATCTCTATTTAGTGTCCAATACAAGAAAGAATTCCAAATAATGTTTCCAGTATTTTAGTGAGTGCTTGGCAGTGCTATAAAAACTCAAATCCAATATTCATCTCTAGCCTTAGAAACAGTCCTTTGGTATCCCTGAGGGTTGCAGAACCCTCCTTGGATCTCAATGATGAATGGATGTTTAGATATTTAGAATACTGCTTTATACTTTATATTGTTTATAATACCTAGTTATGATTGCTTAGATGCACAGAGAATGGACAAAGGTGTACATGCTCAGGTTATGTCCAACATGGTTTTAGAAAGCGAATCAAGACTCAAGTGATTGGTGAGAATGAAGAGCGAAATTAATTGTAGTTCTCACAACTTCTACACTGTTCCTTTAAAAAACCACCCTTTTTGTCTTTGTGACGGTGCACTTAGAAATCACAAGTAAATTTGTCAAAGGGGTCTAAATTCTGATCCTTATACACTCAGTGGGGCTTCTAAATCCTATTCATTAAGTATGTGTGGACAATTGAAGATTACTAAAGAGTTGGTTAAAACTTGCTGAGCAGAAGAAAATGTGAATATAAACTGAAAAATAAACAGGAAAATCTACAAAGATACTGAATTCTTAAAACAAGACCTTTTTAAAGCTCCCTTGTGCCAGTTTTGCACACGGTAACAAGGGCTCCAGCACCAAGCCTATTCATCTCTAGCCCATTATTCAACTCAAACAGAACAGGAAGTTCTGAGAAGTGACAAATGGGACTATATTGTAAAAGCTGCTGCATGATCAACAGACAGCATGCACAAGAAAATATCTAACACCCCAAATATATAAAGAACTACAAAGTTAAATGCTAATTTAATCATTCACTAAAGAAATACAAATGGCCAATAAGTATTTGAAACATGTTCAACATTCTTAGCAATTAGGAAAATGACACTAAAACTGAGATTCCATTTTAACCACCATCAGAGTGGCTCTTATCAAGAAGGCAGGTAATGCTGAATGCTGGTGAGGGTGCAGAGTTAAAGGAACCCTTATTTACTGCTAATGGGAATGTAAAGTCATGTAGCCACTATGAAAGTCAGTGCACAAAGCACATGGCCCGGCTGTGGGCTTCCCTTGAGACAGCATACAGCCAGAGAAATCTGCAGTTCGTGTTTACTGCTGAACTGTTCACCTAGGTAAGAAATAGACTGAGCTGGTGAATAAAATATGATACATAAGCACAGTGGAATTTTATCAAGCCATAAAGAAATGTCAAATAAGCTGCAGAGATGCCTTACTGTTCTCTAAGAGGACCCATGTTTAGTTCACAGCATCTAAGTTTGGTGGCTCACAACTGCCTGTGTGAGCCTCCTGAGTTCCAGGAGCTCAGACATCATCTAGTCTACATGACACCTATACTCAACAGGTACATACCCACATATAAATTTATATTATAGTATTTTACTGGAGAATGGAGATCATTATGATAGGCAAAATTATCCAGTCTCAAAAAAACAAAAATCGCTTCTCATAAACAGACTCTAGTACATGTGCCAGTCATACAAGGAGATAAAAGATCTTAAGTGAAGGAGGAAGGGTTGATGAAATATATTTACATGAAAGCAGAAAGAGATAGATACCCTTAAGAGGACCAGTAACAAGTGGGGATTGGGAACAACAGTGGGAGGTATCAGTAAGAATAAAGTGTGACTGTATGTATGCATGCATAAGCCATAATGTAACTATTTCAGGAAGAGAATGTACAAAGTGCTCACTACAAAAGGCAAAGATACCAAAACTGGCCCTGTGGGGGGAAAAATACTGAATGCCAGACGACAGTTGGAATAAGGCCTTCCAAATAGACATCCAAGTGAACACTTTAAACCTGAGATTGAGTTGAACTATTGGATAAGTCTTCAGGCAAGTGAAATCATACTTGGAGAAGAAAAAGCTGGTTTCTAATTGGTTGTGATCATGAAAGCCTTTAATGCTTGCACTTGGAAGGCAAAGGCAGATGGATCTCTGTTGAGTTTAAGGCCAGTCTGATCTATATAGTAGGCTCTAGGCCAGCCAGGGTTACAGAGTGAGATCCTGTCTCAAAAAGGAAATAAATAAATGTTGGTTTTTCACATACCCTTTGTGGTAGGTTATTTGCACAAGTCCTTAAGCAGGATGTGCTGAAACATTAAGGAGAAAAAAACATACTTCTATGCAAGATGGCACTGAAAACTAAACTCTTACTAATGTTTTAAGGAAAGCATTTTCAACTGTATACTAAGACTATTGTAATCTGATTGAGAACCATGGAGAAGGATTTTAGTATTCTATCAGAAAAATAAAAATGTTTTATTACTGCTCAGCTTCTAGAAAGAACCACCATTAGAAACATAGTTACAGAATGTAACCATCTTTAACATAATGGCAGAGTGGACAGAAGCAATGGTGTCCTCATACAAAAGGACACCAGAAGTTAACCATGCTGGCAAAGGTAATCTGCAGAAGAACTCAAGATGGTGAGATTACGATTAGACTAGGAAATGCTGCAAATGGGCTATGTGATTTCCAATAGGAAAGGCACCAGTAAAAACTGGCATTTTAGCCGGGCATGGTGGCGCACACCTTTGATCCCAGCACTCGGGGGGGGGGGGGGGGGGGGCAGAGGCAGGCAGATTTCTGAGTTTGAGGCCAGCCTGGTCTACAACAGAGTTAACGTTCCAGGACAGCCAGGGCTACACAGAGAAACCCTGTCTCAAAACAAAACAAACAAACAAAGAAAAACCTGGCATTTTCATTGTAAGCCTTTTAGATTTTCATTTTAAAACAGGATTTTATATAGACAGAACTTCTTCAGTGAAAACAAACAAACAGAAAATAGCTGGGTGCATGACAGAGTTGATTTCTTTGTGTGCTAATAGAACTAGAATGTTTCCATGTGAGAAAAGTTGTAGATGAAAGCAACAGCCACTTGGTGGGAAGGGAACTTCAAGACATAGTCTGATTATTATCTGTCCAGCTCATCTGATCTCAAACTGTGTCCTTCTCTTGTGGCAGCAATTCAGGAGCTGATCAGGGCAGTGATCTGTCTGTTTTGTTGTTTCCTATAG
Seq C2 exon
AGTGATGGCGTGCAGCAAACAACCTACCTCGCCCAGCAGTACTGCCACAAAGCTGTGAGAGAGATCAGGAAGCTTAGACCATCTACAGAAAGGGACGCCCTCATTCAGCTTTCAGAAAGTGTGCTCACCAGAGATAAATGACAATTCCTCCTCTTCTTTCTGGCAGCTATTTTACCAGACTGTGCCTAATGATTTTGTGAAACACTATTTGCTTCATGTGCAGAAAACCAAAAATCATTTTAAGAAATAATTTCAACCTTATTGATGGGCAATTTTTATTGGCAAAGTTTTTCGGAAAACTTTTTAAATGTAATTAAACCAGTGTCATTATAGTCCTATAAATTCTAATCGAGGTATCCTGATGGTTATATGTGGTATTGTTTACACTGTTAATGCCCACATGTAAAGCCATTACACAAATAAATAATCAACGTTAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026784-Pdss1:NM_019501:10
Average complexity
IR-S
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
Other assemblies
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
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types
Other AS DBs: