MmuINT0000788 @ mm9
Intron Retention
Gene
ENSMUSG00000044320 | 1700001O22Rik
Description
RIKEN cDNA 1700001O22 gene [Source:MGI Symbol;Acc:MGI:1923631]
Coordinates
chr2:30651089-30651803:-
Coord C1 exon
chr2:30651629-30651803
Coord A exon
chr2:30651326-30651628
Coord C2 exon
chr2:30651089-30651325
Length
303 bp
Sequences
Splice sites
5' ss Seq
CTGGTGAGC
5' ss Score
8.05
3' ss Seq
AGGCATCTTTCTCCCTCTAGGAA
3' ss Score
10.71
Exon sequences
Seq C1 exon
GTCAGCTCAGGAACCTCAGCTCTACCTTTCTGAGGACTCCTCCGTGAGCAGCCACCTACCCTTCATCTCCAGGGCCACCATCCCAAGGCCACGGGGAGGCCTCAGAACCTTCCTGGACACCCCTAACAATGTGGATCAGGTGGGCAAATGGCCCCATCCCTGGAACCAGAAGCTG
Seq A exon
GTGAGCAGCCCAGGGCGGGCAGCCCGCCAGCAGAAGCACCAGCCCTCAGTGACTCTGTAGGGGACCCTCTCTGTTGAGTCACCATGGGGTTTATGGCTTGGATTTGTGTGGCCTGGCCTCCTCAGCGTGGAGCCAAGGGGGAGGAGGCCCTTGAGCCAGGCTAGTGAGTGGGTGGGCTGTGCTTCAGCCTAGGACAGCTGTAATGTGGAGCCACCTGCCCCCCCACCCCCGCCTGCCCCTGCTCCCTGTCTCCTCCCTGGGGTCCCCTCAGCAGTGCCATGCCAGGCATCTTTCTCCCTCTAG
Seq C2 exon
GAATCCTTTCTGCCCAGTTTGGTGCTGCAGTCTGTCCTGAAGCAAGGCCGCCCTAAGGGCTACCAGCTGCTCCTGCCGTCCACCACAAACCGGCAGCAGGCTCACAGGTGAATGCCTGCCAGAGCTCCCCCCAGCTCAGGAGTGTACCCATGCCAGGCAATGAAGAGAGTGCTTCTTCACCCCACAAATAAACACACCTCCCAGGTGGCTGGGATGGATCACTAGGTCTCCCAGTAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000044320-1700001O22Rik:NR_028486:6
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact
5' UTR
No structure available
Features
Disorder rate (Iupred):
C1=0.170 A=NA C2=0.361
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
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:
AGCCACCTACCCTTCATCTCC
R:
CCTAGTGATCCATCCCAGCCA
Band lengths:
352-655
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: