MmuINT0001243 @ mm9
Intron Retention
Gene
ENSMUSG00000026809 | 1700026L06Rik
Description
RIKEN cDNA 1700026L06 gene [Source:MGI Symbol;Acc:MGI:1917237]
Coordinates
chr2:28547600-28548579:-
Coord C1 exon
chr2:28548432-28548579
Coord A exon
chr2:28547673-28548431
Coord C2 exon
chr2:28547600-28547672
Length
759 bp
Sequences
Splice sites
5' ss Seq
CATGTGAGT
5' ss Score
7.83
3' ss Seq
GTTGATTTTTCCCTTCACAGGGG
3' ss Score
8.7
Exon sequences
Seq C1 exon
GTATCCGCACGAAGTGGTTAACCACCTCAGCTGCGATGAGGCCAGGAACCACTATGGAGGCGTGGTCAGCCTCATCCCTATAGTCCTGGACTTTATGAAAGAGTGGATTGCTCATTCTGAGAAGCTGCCTCGCAAAGTGCTGCAGCAT
Seq A exon
GTGAGTGAAATCCCGGGTAACCTGGCAACCGCAGCACCAGCCACTACCAGACCTGCCCAGCCCACGGTTACCCAGCAGTGGTTAGGAAAACACAAGTATAGGCAGCTTGCAAAAGAGAGCATCAAACCTAGTGGGAAAGACAAAGACACCCCGAGACCACCCTGGAGGCCACCTGGTGGGAAACTGTAACTGCTGTCAATGTACTTGGCTTCCACTGGTCATCCATTCTCGCTAGGGCCAATACACTATTGAGAATCTCTCTCTTGCCTTTCACTTCTAACATTTCCGCCTCTTGACCTCCGTGTTGATGAAAGGATCCCCTCTCATGGAGCTGCCCAGACAATATGGTGTTGGCAGGGTGCGTCCCAGAGGAAGGACGATGTGCTGATGCCCAGGCCTCCTGCCCACACTGTGGCCTCTGGCTCTGTAGAATGCCAGCTGGAGGGGAGCCCACTTAGCTCTTTGACCCACAAAGGCAAACTGAAGATGAGCTGGAAGGTCTCTCATCAACAAGTGTGTGGATTAGAAGGCTGAGCTCACTTGTGTTCAGGTCTTGAGACCAAAATAAGGGATGTTTGCTCTTTTAGTTGAGAGAGGGAGACCATGGCAGAAGTCAGAAGAATTCTGTTTTGTGTCTCGTGAGGAGGACAAGCAGCCTGGTCTTGATGGCAGTCTAGTCTACCCACACTATAAGATGTATAATCCTGGCATCTCAGCTTGACAGATGTGAGGTCTGACTGTTGATTTTTCCCTTCACAG
Seq C2 exon
GGGACGACATAGCTTCTGTACTGTTGCTTCCTCAGGGGGAGACATTCAAGAATAAAGTGTTCTACCACTTCTC
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026809-1700026L06Rik:NM_027283:4
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.040 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF151201=DUF4561=FE(29.3=100),PF0061118=FCH=PD(8.3=8.0)
A:
NA
C2:
PF151201=DUF4561=PD(0.6=25.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Human
(hg38)
No conservation detected
Rat
(rn6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTTAACCACCTCAGCTGCGAT
R:
TGGTAGAACACTTTATTCTTGAATGT
Band lengths:
199-958
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: