MmuINT0116618 @ mm9
Intron Retention
Gene
ENSMUSG00000006007 | Pdc
Description
phosducin [Source:MGI Symbol;Acc:MGI:98090]
Coordinates
chr1:152177856-152181036:+
Coord C1 exon
chr1:152177856-152178001
Coord A exon
chr1:152178002-152180104
Coord C2 exon
chr1:152180105-152181036
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-Pdc:NM_001159730:3
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.755 A=NA C2=0.086
Domain overlap (PFAM):
C1:
PF0211411=Phosducin=FE(19.7=100)
A:
NA
C2:
PF0211411=Phosducin=PD(71.3=98.9),PF141751=YaaC=WD(100=35.8)
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: