MmuINT0052589 @ mm10
Intron Retention
Gene
ENSMUSG00000035711 | Dok3
Description
docking protein 3 [Source:MGI Symbol;Acc:MGI:1351490]
Coordinates
chr13:55527332-55528538:-
Coord C1 exon
chr13:55528449-55528538
Coord A exon
chr13:55527638-55528448
Coord C2 exon
chr13:55527332-55527637
Length
811 bp
Sequences
Splice sites
5' ss Seq
AAGGTGGGA
5' ss Score
6.03
3' ss Seq
AAGGGTCTCCTTTCTTACAGAAA
3' ss Score
8.04
Exon sequences
Seq C1 exon
CGGAACTTCAGAACTGCGGTGGCCATGGAGTCTGTGGAGCCCCCGGTCAAAGACGGCATCCTCTACCAGCAGCACGTAAAGTTTGGCAAG
Seq A exon
GTGGGAACCCCAGGCTGCCAGCCGTGGGCAGAGGAGGGAAACCCCTGCTTAGCCACAGCTTAACTAGACCTGAGGGAACTGGGGACGGGGTCTGGGTGAGGTGAAACCCGGCAATTTGAGAGTGGAGGCTCTTGGCCCAAGAAGGTTAGGGATGAAGCATCCTTTGTAAGACTGCTTCATATAGTGGTAGAGATGCCCAGACCACGAGAGGACTATAAGAATCAAAACCTATGTATATAATGGCTCCAAGGCTCCTGGAGAAGGCCAGGGCCTGTATGGCAGGAGCCCTCCGAGGATGGAGCAGACAAAGGCTGGTTCTCCAGGTACTGGGGAGGAGATGGGGTGAGGATTCGTTTTTTTATTTTTTTCTCCTTGAGCATCAGACTGTACACCCACAGTTGAGCTACAGCTGCGCCTGGGCAGATAAACCGTCTGTTTCCTTCGCTAGATGTCATTTGCATGTTTCCTTCCTTACCAGCATGAAGCAGAGGCCGGCTTCCCACCCCACCCAGCCCATGGCCCAAGTGCCCTTTTGGGTTGTGTAACAACAGTGTCAGTTGCTCTGCTCCAACCACTAGATACTATTAACTGTGCAGGTCATCCAGATGAAGGCAAGGTGTGATTTGAACTCAGGGCTGACCAACCCCAAGTATGGACTTCTCCTTGCCTACCCCAGCCCCAGCAAGGCCTCCTCCTTCCTCTGTAGCCCAAAGTCTTAGGAAGGCAGAAGTCAGCCAGCCAGTTGCTAAGCAGCTTGCACAGAGCCAAAGGGCAGGGGTGGCTTTCTTCCCAAGGGTCTCCTTTCTTACAG
Seq C2 exon
AAATGCTGGCGCAAAGTGTGGGCTCTGCTGTATGCGGGAGGCCCATCAGGGGTAGCTCGGCTAGAAAGCTGGGACGTGCGTGATGGTGGCCTGGGACCAGCAGGCGACAGGTCCACAGGGCCCAGCCGTCGAGGGGAACGCCGGGTCATACGCTTGGCTGACTGTGTATCTGTCCTGCCTGCGGATGGCGAGAGCTGTCCCAGGGACACTGGTGCCTTCCTGATTACCACCACTGAGCGAAGCCACCTGTTGGCTGCACAGCACCGCCAGTCCTGGGTGGACCCCATCTGTCAGCTGGCCTTCCCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000035711:ENSMUST00000047877:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.091 A=NA C2=0.186
Domain overlap (PFAM):
C1:
PF0016924=PH=PU(12.8=68.2)
A:
NA
C2:
PF0016924=PH=PD(85.5=98.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AAGACGGCATCCTCTACCAGC
R:
GGAAGGCCAGCTGACAGATG
Band lengths:
345-1156
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