MmuINT0117562 @ mm9
Intron Retention
Gene
ENSMUSG00000026784 | Pdss1
Description
prenyl (solanesyl) diphosphate synthase, subunit 1 [Source:MGI Symbol;Acc:MGI:1889278]
Coordinates
chr2:22757273-22762445:+
Coord C1 exon
chr2:22757273-22757393
Coord A exon
chr2:22757394-22762314
Coord C2 exon
chr2:22762315-22762445
Length
4921 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAGG
5' ss Score
10.51
3' ss Seq
AGAAGGAAACTGTGTTTCAGGAG
3' ss Score
1.95
Exon sequences
Seq C1 exon
GTTTCATCAAAGGACACCAGCAATGTGCAGTTGTCGTCAAACTCAGAGTGGTGAGAAATACAGTGATCCTTTTAAACTTGGCTGGAGAGACTTGAAAGGTCTGTATGAAGACATTAGAAAG
Seq A exon
GTAAGGCTTTTATTTTCCTGAAACTTGATAACATTTTAGAATTAGAAATCAACACACAATGCAGCCATTTTATGGTGGCTCACGCCTATAATCCAGCACTTGGGAAGCTGAGGCAGGAGGACCACTGCAAGTTCAAGTCTAGTCAGGGTGATATAGTAAGTTCTAAGCTTGGCTAGGCTACCACATGAGACCCTGTCTCAAATAACAAACAAATGAAAAGGCAGCCATGCCAGTGCCCACTGAGTTCGATGTGTTACTCAGGAACAACTGTGAGCCCGATGCTGGACAGGACTGTATAGGGAGGGGATGGAGTACATGGTACTGCACAGAAAGTTGTTAGTGCAGAGTTGGAAAACTAAAGAAATAGGTTCAGGAAACATGCCTGTTCAGTATCTAATTCTGAATGCCATCGCTAAGCTGCTCCAAATATGACTTTCTTCTTTCAACATATATACATATACATATATATATATATATATATATATATCATGTGGATTATATAGCACTGCTCAGTATATGGATTGGATTATGGCAAACCTATTCTCCTGGGCCTCTCATAATGTCACGTGTCAAAGCAAATCATGACCTTAGCCTCTGTCTATAGGTTGCTAACACTGATGTGAATTGTGCAGTGAAAAACGAACTCGAATCAGGCTACAGATCTGGCTCAGTTAGAAAAATGTTTGCTGTGAAAGCATGAGGGTCTGGATTTGATCCCCAAAACCATATTAAAAAGCTGGACCTGGTGGCTTACTCTTGTTATAGTGATGGAGATAGATGTGTACTTGGGGCTCACAGGCCAGCCAGCCTATCCTTCTTGGTGAGCTCCAGGTCAGCAAGAGATTCTGTCTCCAAAATGGAAAAATGAATGACATCTAATGTTGTTATCTGGCATGCATGCACAAATTAAAAAATAAAAATGAATAAAATCCTTCTCCAAAATGTTCATATGACTCTTTGTCAACTTAGTACCCCATTTAGAATTTACCATCTTTTCCCTGAGGACTCTAGCCTAATGCCTCACAACAGAATAGCAGTGTCACAGAGGACTCTGCACATGCTAGGCAGGTGCTCTATCATCTAGTAGTACTCAAAGCCCTTGTGTGGTGCTTTGTTTTGAGGCAGAGACTCCCTGTGTAGTCCAAGCTGGACTTGGACTCATGATCTTCTTGTTCTGCCTTCTGAATGCAGGATTAGAGAAGTATTCTACCACTGTCTTTCATATTCTGGGTTGTTTGTTTACTTAGATTATTTTAAGGTAAGCTCTCACTATGACGCCTCTAGGCAGACTTTAAACTTCCTGTGTATCAAGATAGCCTTAGACTCACCATCCTCCTGCCTCCAGAATGCTGGAATTATTAACATATGCTACCACACCCAGCCTATCTTCATTTTCAGCCTCCTTCCTTTCCCACAGTATCTGAACCCCTTTGCATTACCCCACCACTGCCTGTGCCTTTCTTTTCAAATCACAGGAGCAGTCTCTCACTGACTGCAGTGAATGCTTTGTTCTTCCCCTGCCTTAACCCTTTTCACTACCATTTTCCTTCCTTGAAACTGTTCATGTAGCTTCCATAATTTCCTGAGTCACCTAGTCTTTAGGCCATCCTGTGTTGATTTCTGTGATCTTCTTCTATCTCATCTACCCTAACCCCTTTAACTGTGCTGTTGTTTGGACTTCTGACAACCCCCACTCCCGTGTGTGTGTGTGTGTGTGTGTGTGTCTGTGTGTTCATTTTTATTCTTAATCCCCCAGATAGCTTTATTTCAGGTTGAATTGTCTATTCTAAACCTACATAACTAACTACTTAGCATACTACTCCATGAAGTATCTATGACTATGTCAAACTTAATGTGTTTGGAATGCTGTTCTCACCCCATACATAGTTTGGTTTGGTGTTTTGATTTCCTCCCTGGTATCCCTGACTATTGACAGGATCACCTAGGATCCTTGGAAAAGCCCTTGGACCCTTCTTGTCCTTTCTTCCATGACCTTCTAGTCTATCTCTTGCCTCCAGAACCCTTCAGGTTCCAGGACACACTATATCCTCCCTTCTGTTATTTCTCTCTTAATCTCTTCTGGCCTGAACCAGCCTTTCTGTGTGTTCCCAGAGTGGTTTTCTTTACCCTAAATGATATTACCCATTATACTGTATTAACTGTAGTTGTTAGTCTTGTCCCATCTAGACCCTGGGCTCCTTGTGGGCAAGGGTTGTTGTCATGCTTATCTTTAACACCTGTGCCTTTATCTTAGCAATTGCACTCCATAACTTTGTGTGGCTCTGATTCAAGCTATGTGCTTCTTGAGTGGCAGATATTACAAGTGCATGCCCATGGAGAACCCTTTCTGTTCTTATCAAGTCAAACCGAGCCAGGGTTTCGTGGAGCTCATCCCCGTGCAGCAGGCCCAGTTTCTGCCCCACACCAATCTCTTCCTTTTTCTGGACTTTTATTGTTACCAACCTATTGCCCACTGAATCAGTCTTTTGGTTTTGGGTGGGTTTTTTTGTTTGTTTGTTTTTTCTGTTTTGTTTATTTTGTTTTGTTTTTGAGGCAGGGTCTTACTATGTAGCCCAGCTCATACTTGAACTCATACCATCCTCCTACAGCTTCCCATGGGCTAGAATTAGTGAGTTATAAGCATGCATTACCATATACAGCTTCCCCCCCTGTTTTTTATGCTTGTGTTTTGTTGAATATTATTTGCAAAAACAGGGGCATTGTTATATTTTCATAAATTATATAATTTGCATTGCCCGTGACTTTTTTATCTTCCTCCTCCCACTTGACTCTGCTCTCCATCTTCCCCATAGTTTTATTTTCCAAGCACATCACACATTTTGCCCCTACACACTTTACTCCTTTCCCCTTTCTCCCTGCTGTTCTCCATAGTTTCATGTGTTTACTTTTAAAAAGAAATTAGGATCTATAAGTGAGAGAAAAACATCTTTTTTTTTCTGAGTCTGTTTTGTTTCACTTAATAAAGTGAGCACCATAATTTCATCCTTCAACGCTGAATAAAACTCCATGGTATACGGATATCACATTGTCTTGATTCATTCATCTCTTGATGGGAGCATAGGCTGGATGCATACTTGGCTGTTGTGAGTAGTGTTGCAGTAACATGGCCATAAAGTATCTCTGTGCTAGGTTGACTTTTGAGTTCTTCAGGTATATACCCAGGAGTGGCATCACGAGGTCATATGAAGTTCCACTTGTAATTTATGGGGTTGTTTTTGAGGAGTGGGTACTTTCATATTAATTTCATAGTAGTTAAATTACTTTACATTACTGTCAACAATATGTGGATTACACATATGAACACACATCCCCACAAGCATTTGTTGTATTTTGTTAGCTAGCGTGACCAGGGTATGCTGAACACTGATTCTCAGCCAGATATATAGCTAGTGAGATTTTCTCCCATTCTATAGGGTGTCTTTTTACTCATTTGTTTCTTTTGAGTTGCAGCTTTTTATTTTGATGCATTCCCATGTGTCAGTTTTTGTTATTATTTTCCAAGCAACTAGAGTCCTGTTGAAATCATCAGCTATGTATATCTTAAATCATTGTCTGTGTATTTTCAGTTTTGGAGTTTCAGATCTTATGTTAAGGTATTTGATTCATTGGTTGTCTTTTTGGAGATAAAAATCGGGGCTCTAGTTTTATCCTACTATATGTGTATTTCCTTTGTTCCAGCCCTGTTTGTTGAAAAGGATTTTTATTTTTGTATATGTATTGAGTCTATAGCTCTTCATATATAGCCGTTTTCATTATCCATGCGTGAGCCTTCCATTTTCTAGTGTCTGTTTTATTGCTATAAAACCTTCACTGTAGAGCTCTTCCCCTTCTTTGCTTAGGCGTATTACTGTGCTGAAACTTTTATCATTTCTGAGTTTTCTGATGGGATCTTGAGAGTCTTATATGATCACATGAAGTGTATTTAGGGATCATTTGGCCTTTTCCTTTTCTATCTGTATCCTTTTCTTTCTTTCTCATCTTACTCATCTAGCTAAGACTTCAGGCACTGTATTGAATAAGAATGGAGAAAATGAATAAATATTCTTTTCTGAGTTTAGAAAAAGTGTTTTTTGGGTTGTTCCCCATTTAGACTAATGTTAGAAATTGTTTTTAGTTTATTCTATTCTACTTTAAGGATATCTGTTTTTGTGCCAAGTGCTGTGATTTGTTACTATAACTCTGGAGTATACTTTGAGATCTTGGCTCAGGTTGCTTTGTTTTTTTAGTTTGTTTTTTTGGTAAACATTATTATGTTCCTTTTATTCCTAATTTCTTCAGGGCTTTTAAAAGATTCTATATTTTAAGTGTTTGTCTCAGGCATAGTGTTCCTGTTTCCCAACACTTGATAGGTAGAAGGAGGAAGAGCTTGGCTTCAAGGCCATCTAGGGCTTCACGGCAAGAACATAACTCAGATAACAATAACGATAAATTATCTCTCCCCACCTCATAGTAAGTTTCTCACAGTTAAGTAAACCATGCCTTTTCTACATTTCTTCTGTGAACCTTTGAAATGTCCTCTGCTAAATACAGCCCAGACACACTTCCTGACCTGTGCTTCATCCTAGCTGTCTGCCCCCTTGCCTGTTGACTCCCCACTGGGGAGATTCTTGATCTGCTTCATAGGATCCCACACATTATATTGTCTGATCTCTGCCTTCCTCGCTGCTTCCTCCCCCCTTTCAGTTTTTCATCCTATGGTCACTAGCTACCCATCAGAAAAGTGGCAATACTTGCCCTAGTACTAATACCATACCACTTGGGGCAAAGCCACACATTCTTTTTGTGTTGAATTTCTCACTTGAAATGAGTACACTAAAATAAAATTGAAGTTTTGATGAAAACAAGATTCCTGTCTGCATGTCTGTAATGCCATGTTAACAAGAAGGAAACTGTGTTTCAG
Seq C2 exon
GAGCTGCACATCTCCACCAGAGAACTAAAGGACATGTCCGAATACTACTTCGATGGCAAAGGAAAAGCCTTTAGACCGATTATTGTGGTGCTAATGGCCCGAGCGTGTAATATTCATCATAATAATGCCCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026784-Pdss1:NM_019501:3
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.073 A=NA C2=0.006
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0034812=polyprenyl_synt=PU(13.7=81.8),PF073076=HEPPP_synt_1=PU(5.9=18.2)
Main Inclusion Isoform:
NA
Other Inclusion 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: