MmuINT0001242 @ mm9
Intron Retention
Gene
ENSMUSG00000026809 | 1700026L06Rik
Description
RIKEN cDNA 1700026L06 gene [Source:MGI Symbol;Acc:MGI:1917237]
Coordinates
chr2:28548432-28549346:-
Coord C1 exon
chr2:28549144-28549346
Coord A exon
chr2:28548580-28549143
Coord C2 exon
chr2:28548432-28548579
Length
564 bp
Sequences
Splice sites
5' ss Seq
CAAGTAAGT
5' ss Score
10.08
3' ss Seq
ACCTGCTCACTATCCTGCAGGTA
3' ss Score
10.4
Exon sequences
Seq C1 exon
GTGCAGAGCTACATGGAACACTACTGCAATAACTCCACCCACCGGCGGATTCTGATCATGTTCATGGACATCTGCTCCGAGCTCAGCAAGCTCTGTCAGCACTTTGAGGCCCTGCACTCTGGCACCCCTGTCACCAACAGCCTTCTCGAGAAATGTAAAACCCTGGTCAGCCAAAGCAATGACTTGAGCAGCCTCAGAGCCAA
Seq A exon
GTAAGTCCATCACGGGGCAGAGTCTCTGCTGAGAGGACAGGGACCTCTGAGCCAGCTCTACCCCGCTGGCACGGGTCACAGCCTCTAGTTCATACAAGTCTTAGACCCCAACTACCTACTGGAATTACTTAATCAAAATGACTTAAAACTGGGTCACAGACACAGGAGGACAAAAAAAAAAAAAAAAAAGGTCTCCTGGGACTTAGAACTAGACTAGTGACATGATGACTACAGAAAGGACACTGGAGCTATATCCCCCTGGGATTCCATTGTGATACTGAAGGATCTGGAGTGCCATGAGCCATTTCCATGGGCTCTTAAGATGTTAGCGTGAGAAGGGTTAAAGGTAGTACCCAGTATTTTACAAAGGACCAATCCCTGGTCCTGGTAGTGGGCAGCTCTTGCCATTCAATACCACAAGTACCTGGGGCTCTTGGCCTTGAACTTTCTGAATCAGAACACATAAGGACAGAGCCTAAGTTTATGTGTGTCTAGTTCTTACACCTCTAGTCCATGAGATCAAGTTCCCTCAGTAAGTCTCACCACCTGCTCACTATCCTGCAG
Seq C2 exon
GTATCCGCACGAAGTGGTTAACCACCTCAGCTGCGATGAGGCCAGGAACCACTATGGAGGCGTGGTCAGCCTCATCCCTATAGTCCTGGACTTTATGAAAGAGTGGATTGCTCATTCTGAGAAGCTGCCTCGCAAAGTGCTGCAGCAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026809-1700026L06Rik:NM_027283:3
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=0.040
Domain overlap (PFAM):
C1:
PF151201=DUF4561=FE(52.8=100),PF0061118=FCH=PU(89.6=63.2)
A:
NA
C2:
PF151201=DUF4561=FE(29.3=100),PF0061118=FCH=PD(8.3=8.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AACACTACTGCAATAACTCCACCC
R:
CACTTTGCGAGGCAGCTTCTC
Band lengths:
326-890
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: