MmuINT0116617 @ mm9
Intron Retention
Gene
ENSMUSG00000006007 | Pdc
Description
phosducin [Source:MGI Symbol;Acc:MGI:98090]
Coordinates
chr1:152175446-152178001:+
Coord C1 exon
chr1:152175446-152175530
Coord A exon
chr1:152175531-152177855
Coord C2 exon
chr1:152177856-152178001
Length
2325 bp
Sequences
Splice sites
5' ss Seq
CAGGTAACT
5' ss Score
8.63
3' ss Seq
GTTTAAATTTTTAATTTCAGGAC
3' ss Score
8.83
Exon sequences
Seq C1 exon
ACTACACCAAACCCAACCCATAAAATGGAAGAAGCCGCCAGCCAAAGCTTAGAAGAAGATTTTGAAGGACAGGCCACGCACACAG
Seq A exon
GTAACTAATGTGCAGAGAAAACATAATTATTGAAGTAAGATTAAATCTATAAGTATCTCCTGTTCTTATAGAGACTTTTACTGAATTTAAGTAATACCTCCATCTAGTCAGAAAGAATAATTTAAAAACATTTGACTAAATAAATTAGCTTAAAATGAAATGACCCGGGATTTGTTATTTGTTAATTCAGTATCAAAGAGTTTGAAAAAAACACAAATTGTTGGTAATTTCCTGCTACCCTGGTATCATAAAACTCCTCTATCTACAAATTAATAAGATTCTTTCCATTCTGACAATCCTCCTGCCTGTACCCACTACAGCCTTCCTTGGTATGCTATATATAAATATAGTGATCAAAAGTAAGTAATACATAATTTTAGCTTTATGAATGTGAAAAAAACCAAGGGTCTAATAAAGAATTCTTGAATCAATCTACCTCCAGAATATCCAAACTATCATTTCATCAGGAGGCATTCTTAACTTGTTGAATTGTATGTGGTTGATTATATGCCACTACCAAGAGCTTAGCTGTTAAGTGCTGTGACTTGAGTTTTGCATTCAGAAGCCTTTTGACTCTACAGAATCTATGTCACTAGTACCTCCCATGTCTGTAAGCATGGACAGGAACCTTTGAATTCAGTCATAGGTTTGAATGCCTTAACACTTGTACCAGAATAAGTCTAAGGGAATTTATTTAATAACAGCTACGGTGAAAGTGTCTTTCTAAGTATGAAATAAGCAAAGCAATTGTAAGAGAAAATATAGGTCAGTCTGCTGGAAGGAAACAGGGATTACAGGAGGAGGGACGGAGTGAAGGAGATAAATGGAGGGTGAGAAAAAGCAGATGCACAGAAGAGGAAAGGGAAAGAAACAAAGGAAACGCCCATTGTCTGGTAAATGTTATCAGAAGAAAATATTAAAGGAAAAATCTAACATACTTAGGAGAAACATGTACAATACAATAGACAACAAATTAATATTTTAATATAAAGAGTTTCTACAAATAATAAGAAATTAAACGGCAACCAAGTACAATAGGGATGTACTAGTTACTTGGTGTGTTTTTGTGTTACTGTGATGAAATATCCAGCCATAAACAATTTCAGGAAGGAAGAGTTCATGTGTACTCACAGTTCTAGGTACAGTCATCACAGTGGGGATGTCAAGACCAGGCACTTGAGGCAGCTGGTCCATTGTATCCACACACAGTAGGCAGAGCAAAGTGGATGGTAATGCTTAGTTACCTGTCTCCAGGACCTCGGACCATGGAATGGTGATGCTCATAGTTAAGGTTTGTCTTCCCACCTCAATTAGCTCAACTAAATAAAGTCTTACAGACGTGCTAAGAGGCTTATCTCTTAAGTGATTATAGATCACATCAGATTGATGATCAGTGTTAACCATCACAGTGGGCAAAAGATTCGCAGAGAAAAAAATAACCTAAAAAAGATACAGACATAACTTTGGCAAGATGCATTTTTTTCCACAGTAGAAAAACTGTAAGTTTAACACATCCTCTGAATGAAGCACTGGGAGGAGGACAAATCAAAGTGGTTTGACCTCTGCAAGGGCAGTTAGCACCATCACACCCAGGAAGAGGCACGTTCTTCAGTGGAGGCATTTCACTTACACTTGACAGATAGGATAAATAATTGATTATAAGATGCCTCATTCAACATCATACATGATAGAAAAATGAGGAAACAATACCACCTGTAATAACTGACTAAATTGTATAGAAATTCATAATAATTTACTGTGTTCTATAATGAAAAGAAAAAGAAGAGAAAGGATGGCGACTTGGGGTGGAGATAAGGCTCAGTGGTTAAGAGCACTTGCTGCTCTTCCAGAGGACTGTAGAATAGTAAAAATAGAAACAGGGTTGCCTGAATCAATAAAATCAGTTGTAATCACTTTATTTAAATTTATACAATCTATATCAGAAGTTAATATACAATATAATATACAATGTGAGAAAGAAAGAATACACCCAAATGTAGAATACTATGTTAATGAGGAACAAGACTAAGCCTTAGTATGGGTAGCTCTATTAATATATATAATGTAATATATATATATGGTATTGATATATATTAAATTGTTAGAATATCAGTAATATATATTCTGCCCTAATGTATGCCTACATGACAGAAGAGGGCACCAGATCTCATTACAGACGGTTATAAAACATCATGTAGTTGCTGGAATTGAACTCAGGACCTGTGGAAAAACAGCTAGTGCTCTTAGCCTCTGAGCCATCTCTCTAGCCCATGTAAGCAGTAATTTTCAGAATTAAGAGAAAAACGTTTAAATTTTTAATTTCAG
Seq C2 exon
GACCCAAAGGAGTAATAAATGATTGGAGAAAGTTTAAATTAGAAAGTGAAGATGGTGATTCAATTCCACCCAGCAAGAAGGAAATCCTCAGACAAATGTCCTCTCCTCAGAGCAGAGATGACTCAAAAGAAAGAATGAGCAGAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000006007-Pdc:NM_001159730:2
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=0.755
Domain overlap (PFAM):
C1:
PF0211411=Phosducin=PU(8.2=95.2)
A:
NA
C2:
PF0211411=Phosducin=FE(19.7=100)
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: