MmuINT0003025 @ mm9
Intron Retention
Gene
ENSMUSG00000020491 | 2810021J22Rik
Description
RIKEN cDNA 2810021J22 gene [Source:MGI Symbol;Acc:MGI:1917194]
Coordinates
chr11:58680742-58682508:+
Coord C1 exon
chr11:58680742-58680811
Coord A exon
chr11:58680812-58682316
Coord C2 exon
chr11:58682317-58682508
Length
1505 bp
Sequences
Splice sites
5' ss Seq
CTGGTGAGT
5' ss Score
10.1
3' ss Seq
TCATTGATTGTGTTCTTTAGATC
3' ss Score
8.88
Exon sequences
Seq C1 exon
GTTGGATTGTGGCCTCAGTCCTGTGCCAGCCTGTCTGGGCGTCTGTGTGCAGTCAGACACCTGCCTTCTG
Seq A exon
GTGAGTACCGCTGGCTTCTGCCTGCAGGGGCGGGCGCCGTGCGCTGTGCAAATGGTGCGATCCGGGGAGCCCTGCGCGGGGCTGAGTTCCCAGTCTCTGTCGCCCTCGGTCCTTGATGCTGCAAGGAGACTTGTCTTCAGCCGTATCTCGTCTCCTCCTCCTCCTCCTGACCCCAGTGCCACAACTGCCGTGTCTAGTGTCCCGTTGTCTGGCAGTGACAGTCCTAGATCCTGGAGCAGCCCGACGTGTGGGGTGAACCTGTGCTGGGGCATCCCCTGGCCTCTCCCTTATCTGGAAGGCTCCTGTGTGTATTGGCTTCTGTGGAGAGTGCACGGTAATTGCACAGACTTTTTACTGCAGCAAGAACAAATGTCTGCTCGCCTCAGGTGGGCCCTTGGGGATGACCAAGGAAAGGACTCCACCACAGCCCAGCTTGGTTCTCCAGTGAGTTTGTTGGACTTATACAGAGAGAATGGATGACTCCCAGACCACCACGTCCTAACCCAGTATAGATGCTGACCTCATGGAGCCCCACATTCAGCTAACTTGTAATTTCCTGCATACTCTAGCTCACTAGGAAGGTGAGAAGTGTCATGGGCGATAATGGTTGGAATCCCAGATGAAGGTCCTTAGCTCCACTCCTCTTCTACCTAAGAGTGTAACAGTTACCACTAGATTTGTATAACTTGAGCTCCATGACCACTAGACCTGTGTTACTTGCAGTTTATTGCAGTACCTCGTGGAGTCATTGTTACAGACTTCTGGTCAGGCTCAGCTCCAAGATGGAGAGAGGCGATAGTGTTGTGCCCAGAGGGAAGCCACAAGTACAGTGGTAAGCTGTGGAGCGTGCTGCTTTGCACAGTGTGATTGCATTACTTGTAGAAACATGCAATGTCCCTGCGATTCCTGGATCCTGTGGCTCTTGTACTTTTAGTTTCTTTGAGGAGCCTTGATTAAAATTTCGATGTATGAACAGGGCATGGTAACACAGAACTATATAACCATAGCCCGCTAGCATGAGAGACCTCATTTGAAAACTATACTTTTGTCCCACTGAGGCCCTGCTGGCCAGAGCACATGAAAAGGCAGAGCTAATGGGCATTGTGGGAGGGAGCGACACCATCTGTAAACACCACAGGCAGGCACCGCTTCAACAGTATTTCCAAGGTAGTGCAATAAATCAGGGCCATGTTCATTTAAATGTACAGTCCTGGACTGAAAGCTTAGATTGCACAAAGCATTTTGTCCGTGAAACTTAAATATGTGAACCAGGAGCTGTGGATGGAGTCCTGTGTGGTACCTCTGCACTGACGGGAAATAGGAAACCCTGTTCAAGTGTTTTCTGTAATTCCTGCATCACGTTCATGATTCACGCCATGCCCGTTAAACACCCATTCCTACAGCACTGCGGTACGTCTTCATGGTAATAAAAAGCAAGCAGCAGCTACTCTCACTAAGCTCTGCATAAACTGCAGGTTTAATTTCTCATTGATTGTGTTCTTTAG
Seq C2 exon
ATCTGCCGTGGTGGCGCTCACCTGTAAGGCACCGTTCTGGCTTTTTGACTCAGCAACTATGTAGAGATATTGGAATCCACAAACGAGGCGTAGCGAGGACCTCACTTCTCACTTCTGTTGCCCAGCTTCTCCAGCTACAATTGCTGGGCACTCCATGTGCCTTGGCGAGTGAGGAGAATGAGCAGTATTGTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000020491-2810021J22Rik:NM_172403:1
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
5' UTR
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=0.000
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
Human
(hg38)
No conservation detected
Human
(hg19)
No conservation detected
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
No conservation detected
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:
GTTGGATTGTGGCCTCAGTCC
R:
CACAATACTGCTCATTCTCCTCACT
Band lengths:
262-1767
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: