MmuINT1000157 @ mm10
Intron Retention
Gene
ENSMUSG00000044320 | 1700001O22Rik
Description
RIKEN cDNA 1700001O22 gene [Source:MGI Symbol;Acc:MGI:1923631]
Coordinates
chr2:30800914-30801707:-
Coord C1 exon
chr2:30801140-30801707
Coord A exon
chr2:30801002-30801139
Coord C2 exon
chr2:30800914-30801001
Length
138 bp
Sequences
Splice sites
5' ss Seq
ACCGTGAGG
5' ss Score
4.23
3' ss Seq
CTCCTGTTGTCCCCACCCAGCAC
3' ss Score
6.21
Exon sequences
Seq C1 exon
CACAGCAGGCTAGGGTCCTGCCGGAGTCGGCTTCTGCTGCCCCTTCCCGGCGCTATGGACTGCGGGCTGGAATACGACCTTCCTGCGGCCCCGCTCGCCCCTGCGCGTCCCCCGGGCGCGAAGGTGTCCTGAGCCGAGCTCTGACTCAGGATGTTCCGGCGCCAGTCCATGGAGGGGACCCCGGCCTACAAGCCCAAGGGATATCCCGACGGGACCACCCAGCGCCGCCCTGTTAAGCGGCTGCCGATGCTGCTGCCAATGCTCGAAGGCCGTGTGGGGCGAGATGTAGACGGCGCGTGGCGGCGGGACCGCAAGTCCCAGCGCCTGCCTTGCGGGTCCCCCGAGTCCCCGAACGCTCGGCGAGACCGTGGGACCGCGCGCGCACTGCTACTGCCGTCGCTGCAGCCGAGCAGCTCGGCCCGGGAGGCGGGAACTCGGGGGAACCGGCAGCCTGCAGCCCGCGACAACCCTGACTCCCTGGGCACGCTGCTGGGGAAGCTGCTGCCCAACAAGTTCCGCCACTTCCTGCACCACCTGAGCGCCGAGAGCGCAGACCCAGAGGCGGACC
Seq A exon
GTGAGGCCGGGGGGATGGGGTGGGGAGTGGGTGTGTGTGCGCGGAGTCTGGGGTTCCCAAGCGAGGACTGTCTCCATCTCAACGGGCTCTCCTCCTCCCCCTTCTCCTTTCCTTCCTCCTCCTGTTGTCCCCACCCAG
Seq C2 exon
CACCCTCAGCGCCACATAACCCTAGGAGTACATCAAATCACTGCCTAGCTTCTCGGTCTTCCAGCTGCTTATTCCTCCCAGACCTGTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000044320:ENSMUST00000050003:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.896 A=NA C2=0.467
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:
CACTGCTACTGCCGTCGC
R:
ACCGAGAAGCTAGGCAGTGAT
Band lengths:
243-381
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