MmuINT0005540 @ mm9
Intron Retention
Gene
ENSMUSG00000072591 | 5930412G12Rik
Description
RIKEN cDNA 5930412G12 gene [Source:MGI Symbol;Acc:MGI:2442398]
Coordinates
chr5:129090039-129091281:-
Coord C1 exon
chr5:129091147-129091281
Coord A exon
chr5:129090172-129091146
Coord C2 exon
chr5:129090039-129090171
Length
975 bp
Sequences
Splice sites
5' ss Seq
AAGGTCAGG
5' ss Score
6.23
3' ss Seq
TGTGTCCCTTCACCCCACAGATC
3' ss Score
13.21
Exon sequences
Seq C1 exon
GCCCCAGTATCCTGAGTTCTTCCAGGAGAAGGAAGATGGCGAAGACAGTGAGGGAAGAGAGCAGACGTCTGACTCCGGGGTGCTTATCTGTGTGGAAGAGACCGGTTCTTCCTGACTGGCTTCATGTCCCTCAAG
Seq A exon
GTCAGGCTAGTGCTGGTATGGGGACCTGAGTGACTGAGGGCAAAACAGGTCTCTGGGCTTCTGTTTGTTTGTTTTGTTTTTAAATTAACTAATTTCTATTTCATGTGCATTGATGTTTCGCCTACATGTATATCTATATGAGGGCATCAGGTCCCCCAGAATTGGAGTTACAGACGGTTGTGAGCTGCCATGTGGGTGTTGGGAATTGAGTCTGTCCCCTGGAAGAGTGATCAGTGCTCCTAACCTCTGAGCCATCCCTTGAGATGCACCACCCCCCACCCCCCCACCCCCCCCCCGCCGCCACCTCCAGGTCTCTGTTTTGATGCTGGAGGCAAGGCTGACTTTGGTGGAGATAGGAAGCACCTGTGAGTGTTCATAGAACTTGGGTCAACCCAGAAGGGTCTTCTGGACACCCTCTGCTGGCTCCCCTAGTCAATGTTAAAATTGAAATCAGAAGAAAGGCACCGAAGATCTCTGATGGGCCCAGTCACTGCAGGTGATCATTTGCTCTCCTGAGGAGTTGCAAAATAAGAATGTGTTTGACAAAGCCATATTGATATCGCTAGAGGTGTGTGTTGGTGGATAAGGGAGGTGTCTGGGGAGCCAGATGAAGGAGATGGTATTCCAGCTCAGCCTGTCCCCCAGGTTCTTTTTAGCCGCCCCCCGCCCCTCACCCCCCACTCCCGTCTATGTCACCTACCGTCTGAGCTCTTGACCTGGTCCTCACGCTCACACTGACTAGCTCTTGAGAGTATTGCCTCCTTGATGCATGGCTCCCATTCGAATGTATTCCATAAGCAATGGGTATCTCTGCTATCCAGGCCAGGGCTGGAAGGTCACAGACTCTTAGACAGACAGGCAAAAGAATGCTATGTGTAGGAGTCTGGCAAGCTCTTGCTTTGCGTTGCCTTTGTTCCTGAGAGACCAGTTCCAACCCAGTGTCATTTTTGAACTCTGTGTCCCTTCACCCCACAG
Seq C2 exon
ATCCCAAAGAAGGCTATGGCTATTTCAAAGCCAGAGAATAGGGGCAGAGACTCAGCAGCCTGCTCCTGGGTGCAAAGAGACAAGGCCAGGTGCAGCCTGTGCTCACAGTCTTGGAAGCTTGGTGGTGGTGGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000072591-5930412G12Rik:NR_015517:3
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
NonCoding
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=NA
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
NA
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
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:
GCCCCAGTATCCTGAGTTCTT
R:
CCACCACCAAGCTTCCAAGAC
Band lengths:
263-1238
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: