MmuINT0022524 @ mm9
Intron Retention
Gene
ENSMUSG00000015087 | B230208H17Rik
Description
RIKEN cDNA B230208H17 gene [Source:MGI Symbol;Acc:MGI:2442633]
Coordinates
chr2:25447818-25448427:-
Coord C1 exon
chr2:25448287-25448427
Coord A exon
chr2:25447924-25448286
Coord C2 exon
chr2:25447818-25447923
Length
363 bp
Sequences
Splice sites
5' ss Seq
CAGGTGGGT
5' ss Score
8.56
3' ss Seq
TTATCTTTCTTTGAAAACAGACC
3' ss Score
6.78
Exon sequences
Seq C1 exon
GACCTTCAATTATGTTCTCCGGGAGCTTCCCAAAGTGCCAACCCATGTGCCGGTGTGTGTGCTGGGCAACTACCGTGACATGGGCGAGCATCGAGTCATTCTACCAGACGATGTGCGGGACTTCATTGAGCATCTGGACAG
Seq A exon
GTGGGTGCTACCACTTTTGCTCCTGTGACGTGCTCTGGTGGTGTTGGGGGCAGCACAGGCAGGGTCTTATCCTGTGTTGGAGATAAGATGACAGCACCTAGCCAGAGAGGGTAAGGAATTCCAGGTTTCCACGAGATGGTAATGCTGCAGAAGATGTGAAGACCATATGCCAGGACTATGGGGCCTGCCTGGCTCTTGTCTGGTTCTTCAGACCACTCCCAGAGGAGTATGCTGTAAAACATCCTTAGGAGCTGGCTGCCAGAAGGAAGCTTGGTGGCGGGATGCGTAGGCTTAGGTGTGACCCTTGACTTTGAAGTCAAGCTACACTGCCCATCAAGTTCCTTTATCTTTCTTTGAAAACAG
Seq C2 exon
ACCTCCAGGTTCCTCCTATTTCCGCTATGCTGAATCTTCCATGAAGAACAGCTTTGGTCTAAAGTACCTGCATAAGTTCTTCAACATCCCATTTTTGCAACTACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000015087-B230208H17Rik:NM_001024616:6
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:
PF084778=Miro=PD(19.3=54.2)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACCTTCAATTATGTTCTCCGGGA
R:
CTGTAGTTGCAAAAATGGGATGT
Band lengths:
246-609
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: