MmuINT0022526 @ mm9
Intron Retention
Gene
ENSMUSG00000015087 | B230208H17Rik
Description
RIKEN cDNA B230208H17 gene [Source:MGI Symbol;Acc:MGI:2442633]
Coordinates
chr2:25442795-25444232:-
Coord C1 exon
chr2:25444129-25444232
Coord A exon
chr2:25443148-25444128
Coord C2 exon
chr2:25442795-25443147
Length
981 bp
Sequences
Splice sites
5' ss Seq
CATGTACGT
5' ss Score
6.32
3' ss Seq
TGCCCTTTTGCCCCTCCTAGCTT
3' ss Score
7.58
Exon sequences
Seq C1 exon
AGGGAGACACTACTGAGGCAGCTGGAGACAAACCAACTAGACATCGATGCCACACTAGAGGAGCTATCAGTGCAGCAGGAAACCGAGGACCAGAACTACAGCAT
Seq A exon
GTACGTGAGCTAGCATCTACAGCTATGCTGGCCTTCACTACCCTGAGCGGGGAGGATGGGTCCTGTACCCTGTTGCCAGTAGGCCCTAGTGTTCACAGATAAGAGCTGAGTGCCAGACTTTGGTCTGAATCTATGAGGCAGTGGAGAAAGCACCACATACAATCAGCCTGAGTGTCCTTCAGCCAAGACCTTAGCAGTACTCAGTGTAGAGCAGTGTGGGGAGCATCGGACTAACACAGCTCAGCAGCTCCTCTCAGCGGTCTAGGACCTGCGTCCATGCTATTTGTCCTTGCCCAGAGCCCTTCCTGTTCACCTGTTGGGGTATAATTATTAATATGAGCTAATTAATAGTCAGATCAACATTTTTCTAAAACAGATGGACTAGTACTTTGAATTGAGCTATGCTGGCCTGGGAGCAGCCTCAGTCTCCCTACATCCCCTCTCAGTTCTTATAGAAAGTGAGGACAGGTACTCCTGAAGATGGGTTGTGTCGACTCTGGCACTCTACACCCCCAAGTACTTTGGAGCCTACAGAACTTACAAAGTGCTTAGACATACGTTATGGTTCCTACGTGTGGGTCAGCACATGCCTGTGATGAGAGCCACTCCTCGTGTGCGATTGCTAACTTCCTCACTGACCATAACCAGCCACACTACTTCACTGTTGTTTGGCTAACAGCTACTGGCCTACCCAGATTCCACAGGAGTGGGTGGTCCTGCACCTCTGCTGTGCAGCTCAGTTCCCCAGGCTGAGGAAATGCCAGTGCAGAGGGAGAGCATGGGCTTGGGAGCTACAGTGCTAAAGAGACAGGATAGGCAAGGAATTAGTCTGGGTACCAGGGACGGGACAGTTGACTGGCAGACAGGCCCTATCCTCTGCCTAAATATAAATGTAAAAGACACACTGATGCCTGAAAACCATGGAAAAAGAGGGCCGAGAAGAAGCAGGTTCCTCACTCCATGCCCTTTTGCCCCTCCTAG
Seq C2 exon
CTTCCTTGAAATGATGGAGGCTCGAAGTCGAGGCCACGCATCCCCTTTGGCAGCCAATGGGCAGAGCCCATCCTCAGGCTCCCAGTCGCCAGTTGTGCCTCCAAGTGCTGTATCCACAGGGAGTTCCAGCCCCAGCACACCCCAGCCTGCCCCTCAGCTGTCTCTAGGTGTCTCCTCCACCTGTCCCTCAGCACCATCTCCTGTACCCTCTTTGGAGGCCATGCCCTCCTCTGTACACTCTTCAGCCCCAGCCCCAACCCCAGCTCCAGCCCCAGCTCCAGCCCAGCGTCGCAGTATCATCTCTCGGCTGTTTGGGACCTCACCAGCTGCAGAAGTGACCCCTTCACCTCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000015087-B230208H17Rik:NM_001024616:8
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.457 A=NA C2=0.958
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:
AGAGGAGCTATCAGTGCAGCA
R:
CGAGAGATGATACTGCGACGC
Band lengths:
354-1335
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: