MmuINT1000158 @ mm10
Intron Retention
Gene
ENSMUSG00000044320 | 1700001O22Rik
Description
RIKEN cDNA 1700001O22 gene [Source:MGI Symbol;Acc:MGI:1923631]
Coordinates
chr2:30796145-30796566:-
Coord C1 exon
chr2:30796401-30796566
Coord A exon
chr2:30796284-30796400
Coord C2 exon
chr2:30796145-30796283
Length
117 bp
Sequences
Splice sites
5' ss Seq
CGTGTGAGG
5' ss Score
4.04
3' ss Seq
GGCCCCCCTCTCCCCATCAGGTC
3' ss Score
8.94
Exon sequences
Seq C1 exon
TCCGGCAGAATATCTTTCCGAGTGAGCAGACGGCTTTGCCAGCTGTATCTGTGTCAGAACGGGTGCTCGGGAGTGTTGGGAGATGGTTGGACAGTCTGCCCAGAGCCCTTTATCCCAGGGTCCAAGACACTGTGGCCGGCTCCTCATTCTGGACCTGCCCCCGCGT
Seq A exon
GTGAGGCTCTGTGGGTAGAGGAAGCAGAAGGGTTGTGGTCTAGGTCCTCCAGCTACAAACTGTACGTGGGTCTGGAACTCAGGGCCAAAAAGCTATAGGCCCCCCTCTCCCCATCAG
Seq C2 exon
GTCAGCTCAGGAACCTCAGCTCTACCTTTCTGAGGACTCCTCCGTGAGCAGCCACCTACCCTTCATCTCCAGGGCCACCATCCCAAGGCCACGGGGAGGCCTCAGAACCTTCCTGGACACCCCTAACAATGTGGATCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000044320:ENSMUST00000050003:5
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.170
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ATCTGTGTCAGAACGGGTGCT
R:
TGTTAGGGGTGTCCAGGAAGG
Band lengths:
248-365
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Ribosome-engaged transcriptomes of neuronal types
- Neural differentiation time course
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types