MmuINT0023115 @ mm9
Intron Retention
Gene
ENSMUSG00000047617 | BC029214
Description
cDNA sequence BC029214 [Source:MGI Symbol;Acc:MGI:2442831]
Coordinates
chr2:25315965-25316235:-
Coord C1 exon
chr2:25316175-25316235
Coord A exon
chr2:25316015-25316174
Coord C2 exon
chr2:25315965-25316014
Length
160 bp
Sequences
Splice sites
5' ss Seq
CTCGTGAGT
5' ss Score
8.41
3' ss Seq
CAATTCCTTGTTCCCAGCAGAAA
3' ss Score
5.18
Exon sequences
Seq C1 exon
TGTGACGGACGCCGCCGAGCTCTGGAGCACCTGCTTCTCGCCTGACAGCCTGGCGAGGCTC
Seq A exon
GTGAGTAACAGTGCTGGGGATAGGAGACAGCTGGTAGCTTGCCACCCTCCCCCTCCCCGTGGCAGTGGTTCTAATAGCATTTCCAGGGTAGGGCAGTTTGGAATGTCCAGTGGGTCCAGGGTCCTGGGCGGGGTTAGTGACAATTCCTTGTTCCCAGCAG
Seq C2 exon
AAAGCCCGATTTGGCCTAAGTGGGGCTGAAGATATCCATTCCCGGTTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000047617-BC029214:NM_153557:2
Average complexity
IR-S
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:
PF153841=DUF4610=FE(10.2=100)
A:
NA
C2:
PF153841=DUF4610=FE(10.7=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Human
(hg38)
No conservation detected
Rat
(rn6)
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:
CACCTGCTTCTCGCCTGAC
R:
GAACCGGGAATGGATATCTTCAGC
Band lengths:
82-242
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: