MmuINT0142236 @ mm10
Intron Retention
Gene
ENSMUSG00000071350 | Setdb2
Description
SET domain, bifurcated 2 [Source:MGI Symbol;Acc:MGI:2685139]
Coordinates
chr14:59415699-59417525:-
Coord C1 exon
chr14:59417409-59417525
Coord A exon
chr14:59415869-59417408
Coord C2 exon
chr14:59415699-59415868
Length
1540 bp
Sequences
Splice sites
5' ss Seq
TGGGTAAGG
5' ss Score
9.08
3' ss Seq
CTTATGTGTATTATTGCTAGCAT
3' ss Score
3.04
Exon sequences
Seq C1 exon
AAAAAAATGTGCATGTCTTCAGTTGACAGCAAAGAATGCCAAGGCATGTCCCTTGTCATCGGATGGAGAATGTGCTGGATATAAATACAAAAGACTGCAGAGGCTCATACCTACTGG
Seq A exon
GTAAGGAACCTTAGATTTGTGGCGGGTTGTTTGTATCTACAAAGGACGTTATGTTTCTTAAATCATATGCCTGTGTGTGCACATGCTAAGCCAGGTGTCTTCCTCAGCCACTATCCACCTTGTTTGTTTTCTTCAGATAAAGTCTTTCACTGAGCCTGAGCTTCCCACTTTGGCTAGACTGTCTCTGCTGTCTGCCTGAGGCTAGAGCTACATGTGAGCTCCACCATGCTCAGCTTTTATATGAGCTCTAGGGATCCAAACTCAGGGCCTCCTGCTTGCATAACAAGCATTTTACCCACTGAACCAGTACCCTGCCCCAGAGAGGACTTGTTTTTATTATGGTCTACAGTCTTACAGGTTTCATTTATATTTGTTTCTAATACTGAAAATCTAAATTATTAAGAAATAATAACATGAACCCATTGTATATTAGGAATGGAAATGAGTGACCACGCACACATTGGAGTGTATTCACTCTGCTGCTTCAAGTCTGGCTCTTTAGGACATGAGTGACTCTGAGTAGCCATTTTTCCATTAAAACATGTCTGTAGCACGTAGGAGGCAGAGGCTAAATGAGTCGAAGACCAGCCTCAGCGACATGGGGAAGCTGTTTCAAAAATGAATGAAGGGGCTGAAGGCTAACTCAGTAGCAAAGAGCATGAGGACTTGAGTTCTAATCCCCAGAACCTATGTAAAAAGCTATGCATGCCTGTTAGCATAGTGCTATTAGAGTCTGGAGATATACGATCCCTGGGGCTTGCCTTTAGGCTCAGTGAAGGGATCCTTCTCAAGGGAATAAAGCAGAGACTAGTAGAACAGACAGACACCTGACCTTCTCTGGCATCTGTGCTTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTAACATATGCATGAGCATTATCCCACACACACACACACTAATATTAAAGATATATACTTATTAAAAGAAAAAGTGATTGAAAGAAGCTAACTTGACAGTTGATAATTTTAAGCTTGTTGACTAATACTAAGAAATAGCACCAGTAGAACTAGAATTAGAAGAATTTGACCCTAGACATGTCCTTTACACATTTTAAAAGCTAACATTTACTATGTACTGAGCACCAGGATCCATATCTTGTAGATATTGACAGTGGAGGTTAATGAACCAGCTCTGTGGGTTAGGCTCTGGTGTGTAAGCTGCTTGCTTGAGGTTGGGAAGGTGGCTCAGTACTTGCTGTTCTTCTAGAGGACTCAGGTCCAAACCCCAGCACCCACATGAGCATTCACACTCATTGTAGCTCTGGTCCCAGAGATTCAGTCCCCTCTTCTGGTTTCTGTGGATACCAGGCAAAACACTGACAGACAAAACATAAATAAAAATAAATTCCACCTTAAAAATAGAAACTGCAGCTAGTCAACCCAGGCAATCTAACCTTACACTACTTTCACACTTCCCTCAGTTTCGTTATTAGTTGAGTGAAGTAGCAATATATACTTCATTTTGCTTTTTTTAGACTAATTGATACCATCTTATGTGTATTATTGCTAG
Seq C2 exon
CATTTATGAATGCAACCTGCTCTGCAAGTGTAACAAACAGATGTGTCAAAACCGAGTTATCCAGCATGGTGTCCGGGTGAGGCTACAGGTGTTCAAAAGTGAGAAGAAGGGCTGGGGAGTACGCTGCCTGGATGACATTGACAAAGGGACATTTGTGTGCATTTATTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000071350:ENSMUST00000161459:7
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0503311=Pre-SET=FE(34.2=100)
A:
NA
C2:
PF0503311=Pre-SET=PD(15.8=31.0),PF0085623=SET=PU(13.2=34.5)
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:
TGCATGTCTTCAGTTGACAGCA
R:
CTGAATAAATGCACACAAATGTCCCT
Band lengths:
278-1818
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