MmuINT0023114 @ mm10
Intron Retention
Gene
ENSMUSG00000047617 | BC029214
Description
cDNA sequence BC029214 [Source:MGI Symbol;Acc:MGI:2442831]
Coordinates
chr2:25460655-25461094:-
Coord C1 exon
chr2:25460787-25461094
Coord A exon
chr2:25460716-25460786
Coord C2 exon
chr2:25460655-25460715
Length
71 bp
Sequences
Splice sites
5' ss Seq
CTAGTGAGT
5' ss Score
7.43
3' ss Seq
TGACAGCCCCTCCCACCCAGTGT
3' ss Score
3.57
Exon sequences
Seq C1 exon
GGTACCCGGAAACAATGTCAACCTTGAGTACCGCCCATCGCCTCGTCCTTCCGTCCCTCCAGAAACCAGAAGTTCCGCCGCCGAGCGAACACCTTAGATTGTGAGTCACCGAGTTTGTACTTCTGCGCAGGCGCCCTCAGCCCACATCTAACTTGGCTCCTGCGGCGAGACCGCCCTGCTGTCATGGCTCCTCCGTTGTTGTCGCTGCCGCTTTGTATTCTGCCGCCGGGTTCGGGCTCCCCCCGCCTGGTGTGCTACTGCGAGCGGGATAGTGGTGGAGACGGGGACCGCGACGACTTCAACCTCTA
Seq A exon
GTGAGTGGAGTCTAGGGATGTGGGGTGCGGGAGCATAGCGGGCACGGTGCCTGACAGCCCCTCCCACCCAG
Seq C2 exon
TGTGACGGACGCCGCCGAGCTCTGGAGCACCTGCTTCTCGCCTGACAGCCTGGCGAGGCTC
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000047617:ENSMUST00000114261:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF153841=DUF4610=PU(17.3=81.0)
A:
NA
C2:
PF153841=DUF4610=FE(10.2=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TTGTCGCTGCCGCTTTGTATT
R:
CCTCGCCAGGCTGTCAGG
Band lengths:
168-239
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