MmuINT0022527 @ mm9
Intron Retention
Gene
ENSMUSG00000015087 | B230208H17Rik
Description
RIKEN cDNA B230208H17 gene [Source:MGI Symbol;Acc:MGI:2442633]
Coordinates
chr2:25442388-25443147:-
Coord C1 exon
chr2:25442795-25443147
Coord A exon
chr2:25442539-25442794
Coord C2 exon
chr2:25442388-25442538
Length
256 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGC
5' ss Score
9.88
3' ss Seq
GAAACAGCATTTCTCTGTAGAGC
3' ss Score
3.17
Exon sequences
Seq C1 exon
CTTCCTTGAAATGATGGAGGCTCGAAGTCGAGGCCACGCATCCCCTTTGGCAGCCAATGGGCAGAGCCCATCCTCAGGCTCCCAGTCGCCAGTTGTGCCTCCAAGTGCTGTATCCACAGGGAGTTCCAGCCCCAGCACACCCCAGCCTGCCCCTCAGCTGTCTCTAGGTGTCTCCTCCACCTGTCCCTCAGCACCATCTCCTGTACCCTCTTTGGAGGCCATGCCCTCCTCTGTACACTCTTCAGCCCCAGCCCCAACCCCAGCTCCAGCCCCAGCTCCAGCCCAGCGTCGCAGTATCATCTCTCGGCTGTTTGGGACCTCACCAGCTGCAGAAGTGACCCCTTCACCTCCAG
Seq A exon
GTAAGCCTGGGAGCAGCTCTCTCATGTGAATTTGGGGCCACCTTCTGGCATCTTGAGCTTCATATTCCTCACTGGAATGTCCCTATGCCCCTGAAAAGTCACATGGGCCAGCCAGTCCTTAGCCTGGTTCTAAAATAGCCTGGACCTTGAGCCTGGGTGCATGCCTTGTTAAGTCCCAATCCCACAGGCACAGTTTTAGGGCTTGCCTAGCATGGGGGCAAGGACCACATAAGGAAGAAACAGCATTTCTCTGTAG
Seq C2 exon
AGCCAGCTCCAGCTCTCGAAGCTCCAGCAAGAGTCCAGAATGTTGAGGATTTTGTCCCTGAAGATGGCCTTGACCGAAGCTTCCTGGAAGACACAAGTGTGCCTAAAGACAAGAAAGTTGGAGCCAAAGGTCCCCAGCAGGATAGTGACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000015087-B230208H17Rik:NM_001024616:9
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.958 A=NA C2=1.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Human
(hg38)
No conservation detected
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCCTCCAAGTGCTGTATCCAC
R:
TCTGGACTCTTGCTGGAGCTT
Band lengths:
296-552
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: