MmuINT0116618 @ mm10
Intron Retention
Gene
ENSMUSG00000006007 | Pdc
Description
phosducin [Source:MGI Symbol;Acc:MGI:98090]
Coordinates
chr1:150330726-150333906:+
Coord C1 exon
chr1:150330726-150330871
Coord A exon
chr1:150330872-150332974
Coord C2 exon
chr1:150332975-150333906
Length
2103 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAGA
5' ss Score
10.57
3' ss Seq
TTTCTTTCTTGCGTTCTCAGATG
3' ss Score
11.68
Exon sequences
Seq C1 exon
GACCCAAAGGAGTAATAAATGATTGGAGAAAGTTTAAATTAGAAAGTGAAGATGGTGATTCAATTCCACCCAGCAAGAAGGAAATCCTCAGACAAATGTCCTCTCCTCAGAGCAGAGATGACTCAAAAGAAAGAATGAGCAGAAAG
Seq A exon
GTAAGAGAAGAAAAGACTGGCTATGAGTTCTGTATTACCTAGTCTAAGTCCCTCAAGAGAATCACTTTAGAGTATTATGAAATGTTTTCCTTGTAGTATAAATCGAATACTGTGATTAAGGTATTCTATACTAAGAAACACATGTGGGAATCAAAAGAATGAATTATGAATATATGAACTGTTGTAGAGAAAGTTTAGAAAAATGAAAAAACAAAACATAGAATTTTAAATTATATAAACTATTCCATTCTCTGGGGCAACAAAAAACACCGTTGTGTGCTTTCACTACTGCATGATTATAGACAGGTGAATCTGTGTGCAGAGAAGTGTGAAGAGAGACATTCGCTGGGCTGAGGGTATTCGTAGTTTAGAAGAATAGGATCTCCTGGGAAGATCCGGGAGGACATAAGCAGAAGAAGCTCAACACTAGGAAAGCCAGCATTGCAAGAGTCTTAGTTACACAAGTGTGTGTCTGTGTCGTAAAGATGCAGAGTCAAAGAGGGCCTCTAAAATGTCAATGGAGATTATTTGAATATTAAATTTGTATATTATCAGTATTTTTATTTCCTTTTTAAAAATTTTAGTCCATTTTAAAATCTCCATTAGTATTTCATATTTATATGAGAAAATTAATAATGATAGAAGCAGTTAAGAGATTTTCATGTGTGGGAGATCACTCCAGTGGATTATTTATCACCAAATCAGTTTATATTGGGAGTATACTGAGTTAAGAGACTATGAGCAGAAATGTGCCTTGGCAGATGGCTTCAGACCATGATAGTGATCTTTAGTCTAACGGTGTAACACATAAAGACAGAAGTTGGTTCTTTATGTAACCATGCAGTGTGGACGAGACAATCACATTTTCTAAAGGGAGGAATTGTAAGAATGTCCTCTCCTCATTTGTTTCAAACAGATTGTGAAGGGTAAATAAATTTTAAAAGTGTCTTAAAACAAAATGAGTATTAAATCTGAGTTTTTAGTATTAAAGATTTTGTGCTGGTTGAACTTCAGAAATGTGCCTGTATGCCTAAGTATCTATGCCTCCATGTATAAACAGAACAACTTCTGACAGGGATTCTCGAATGTATCTCCAAATCAATATTCATGAGGCTTGGTTGCTTGAACTAGCAGGACTATGATGGCAGCTTATGAAATATGCAAAACATTTAATAATTTTAGGCCTAAAAGAATGGAATTGAGATGATAATATTAACATAGAGAAACTATTAGAATAGGAAAGAGACCTAGGTATGGTGGCACATATTGGCACTGGGGAGGTTGTGGTAAAAGGACCTTGAGTTCTAGGCTAGCCTAGAACAAGACCATATCAAAAGAAAGAGAGATGAAAGACAAAGGAAGAAAGAGGGAGGGAGGGTAGATTGGAAGGGAGAAAGAATTGGGAATATCAAGAAAACATACAAGAGGCAGAAACAAGTATTATAAAACAGTCAGCAGATGCAGTGACTACCATCCTTAGGGTCCCCAAATGCCAGCTTCCAAGTTTCTGGGCCTTTCTACACTTTTCAGTGAGCCGTATGACACTAGACAGCATCATTTCTTTATGTCTATTTTTTCTTGGTTGAGAGTAAGAGGTGATTAATTGTCTATCAGATATATTAATAATGGAGTCCATATTATGAAAGGGTATTAAGATAATTTGATGTTTTAACCACAATAGAATGTAACTCAGTGGTAAGGAATAACCTAGAAGGCTTGTTAAAATACAGACAATTCAACATCACCCTTATAGGTTCTGAGTCAGCAGATCTGGGTAGTGCCTATAATCGGAAAACAAAACAAACTGCTGACACTGAGCATTAATTAATTAATTAGTTCATCAAATATATAGTACAAGCTCCAACGGTACTTATTTCAATGAAAACCAAAACAGACTAAAGTGTAGAGAAAAGGTTCTGCAAGTGGCCTTTGAGCCAGTGCTTAAATGAGACACCTATGTTAGAAGCAGGGGCAGCGTGGTCTAAGCAAAAGGAGGCGTGGTCAACAAGTAAAAGCTGCTAGACTTGAGAATGAGTTTGATGCACCTAAAGACGAAACGTCCGTCGTTGGATTATCTCTATTATTTCTTTCTTGCGTTCTCAG
Seq C2 exon
ATGAGCATTCAAGAATATGAACTCATTCATCAAGACAAAGAAGATGAGAGTTGCCTTCGCAAATACCGGAGGCAGTGCATGCAGGATATGCATCAGAAGTTGAGTTTTGGGCCTAGGTATGGGTTTGTGTATGAGCTGGAAACAGGGGAGCAATTCCTGGAAACCATCGAGAAGGAGCAGAAGGTCACCACAATTGTGGTTAACATTTACGAGGATGGTGTCAGGGGCTGCGATGCACTCAACAGCAGCTTAGCGTGCCTTGCAGTAGAGTACCCAATGGTCAAGTTCTGTAAAATAAAAGCTTCTAATACCGGAGCGGGGGACCGCTTTTCCACAGACGTACTCCCTACGTTGCTGGTGTACAAAGGTGGGGAACTCATAAGCAATTTTATTAGTGTGGCTGAACAATTTGCTGAAGAATTTTTTGCTGTGGATGTGGAGTCTTTCCTAAATGAATATGGATTACTACCAGAAAGAGAGATACATGACCTAGAGCAGACCAACATGGAAGACGAGGACATTGAATAAGCCTTCACCATGTCAGTATCTCATGTCTATCCTTTACACAGTGAACACTGATTTTTTTTTTTGGTAGTATCTATATTCCTTTAGCAAACACTAAATATGGGCCTGGCTATTTAAACTCGGGGGGGGGGACACACTAAAATTATGTACATAGCACTTTTTAGTACTAATTACTCAAATTGAGATAATATTTTACTGCAAGGATATTGTGGTTTTTAGCAAATAACTAGTAAGCAGAGGAGGTGGGTAATGTCAATGTTTAGATCATTGTAAAAATCCCTTTCAAGTTCCGTGTTAGATTTTGCTCCTCATTTTTCCCTTGGCATTTTTATTTGGGCTTTTCAAACTGAATACTGCTTATAAACTGGTTTGTACAATAAAAATAAAATCCTATGAAGAAACAAGTA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000006007:ENSMUST00000191228:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.765 A=NA C2=0.080
Domain overlap (PFAM):
C1:
PF0211411=Phosducin=PD(73.4=92.1)
A:
NA
C2:
PF0211411=Phosducin=PD(71.3=98.9)
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
- 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