MmuINT0142226 @ mm9
Intron Retention
Gene
ENSMUSG00000071350 | Setdb2
Description
SET domain, bifurcated 2 [Source:MGI Symbol;Acc:MGI:2685139]
Coordinates
chr14:60030928-60031648:-
Coord C1 exon
chr14:60031549-60031648
Coord A exon
chr14:60031022-60031548
Coord C2 exon
chr14:60030928-60031021
Length
527 bp
Sequences
Splice sites
5' ss Seq
ATGGTAAAA
5' ss Score
4.79
3' ss Seq
CTTTCTTATTTTCTTTGAAGGGA
3' ss Score
9.09
Exon sequences
Seq C1 exon
GGAAATGAACCATAGAAATATTTCAAGAACTCAGCATCATTCAGTCATTAGAAGAACTAAATCCAAGACAACTGTTTTTCATTACAGTGAGAAAAACATG
Seq A exon
GTAAAAATCACAAAATGAGACTGAGCTCACTTGCAGTGTCAGCACCTGGTGGGGGAGGGGCAGTTCAGGAGCATCATGAGTTTGAAGTCAGCTTGGGGTACATAGCAAGACACTATCTTGAAAACCAAGAGAGATGCCTCTCCAGGGAAATCAACCATTGTCTTACCTTTCTAGCCTTTACTAAAATATTTATGCTACGTAATACTATGTAGGATCTATTTTGTTGTTTTGAACATACAGGCTATATGGAAAAGTCTGAGATATAAATTTATTATGTTTTTAGCCCAAATAATAGCTTGACAATTTTGTAGTTGTAGCTTACTAATGTGCCTAGGAATAGACAGTTTAGAATGGTTGCTGTGTTGGCCCCACTAATGCCAGGGCTCCTTATAATGCCAGCTTTGCAGCGTTTCAGATCTAACCAACCATATGTGACCTATAAAGAGTGATACTTGGTGAAGAGGCCCAGCTGCTAATCCTTTTTCCTGGCTTAGAAAGCACAGCTGCCTTTCTTATTTTCTTTGAAG
Seq C2 exon
GGATTTGTTTGCTCAGATTCTGCCGCCCCAGAAGATAAGAATGGATTTAAACCAGCTCAAGAACACGTGAACTCTGAAGCTAGGAGAGCTCACG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000071350-Setdb2:NM_001081024:11
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.735 A=NA C2=0.906
Domain overlap (PFAM):
C1:
PF0085623=SET=FE(10.7=100)
A:
NA
C2:
PF0085623=SET=FE(10.1=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
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: