MmuINT0006614 @ mm9
Intron Retention
Gene
ENSMUSG00000035279 | A430110N23Rik
Description
RIKEN cDNA A430110N23 gene [Source:MGI Symbol;Acc:MGI:3606211]
Coordinates
chr7:4879498-4880295:+
Coord C1 exon
chr7:4879498-4879611
Coord A exon
chr7:4879612-4879986
Coord C2 exon
chr7:4879987-4880295
Length
375 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAGG
5' ss Score
10.51
3' ss Seq
CTCCCCCCACCCCTCCCCAGAGC
3' ss Score
9.12
Exon sequences
Seq C1 exon
CTCCCCAACCAGCAGCAAGCTCCCAGAATGGCCCCCGGAAGAAGAACCCCCGGCCACCCAAGCAGACCAAGTCCACCCGAGCCCCTGTACTGACAAATGGAGCTCCCCACCAAG
Seq A exon
GTAAGGCTCTACATTTCCCTGTCTTCCTGATCTGTGTGCTACGAGACCCTAGACCCTGCCAAACTGAGGACCCTAGACCTCCATTCAGCCTGTGACTCTCTAAGGAGACCGGCGTTCACAGTGCCCCTTCAGATCCAGTCAGGGCTGGCCACCTCCTCTTCTTTATCCTCCCTCTATGAGACCCAGGGGGGTGGCCGGTCTCTTTTCTGAATTAGGTACTTGGCAGACAAATCTCAGTCTTCTGCTCTTCCTGGGCCTCAGTTTCCCCAGTTGTAAACAAACAGGAAGCTGCCCCCTCCAAGCTGACATTAGACTAAGCCTTTTACAGTCTCTCATCTTCCCTGGTTGTATTCCTCTCCCCCCACCCCTCCCCAG
Seq C2 exon
AGCGGCTGCGACTGGTCTCAGGTCCCCACGGATGTGCCGGCCGCCTGGAAGTCTGGCACGGTGGACGTTGGGGCACTGTCTGTGATGATGGATGGGACCTCCGAGATGCAGCGGTGGCCTGCAGGGAGCTGGGATGTGGGGGAGCGCTGGCCGCCCCTGGGGGTGCCAGATTTGGACCTGGTGAGGGACCTGTGTGGATGGATGACGTGGGGTGTGGAGGAGGAGAGGAGGCCCTCCGAGACTGTCCCCGAAGCCCCTGGGGCCGGAGCAACTGTGACCACACCGAGGATGCAGGGCTGGTCTGCACCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000035279-A430110N23Rik:NM_173008:5
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=0.192
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0053013=SRCR=WD(100=94.2)
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:
CAAGCAGACCAAGTCCACCC
R:
ATCCTCGGTGTGGTCACAGTT
Band lengths:
346-721
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: