MmuINT0003951 @ mm9
Intron Retention
Gene
ENSMUSG00000051278 | 4930422G04Rik
Description
RIKEN cDNA 4930422G04 gene [Source:MGI Symbol;Acc:MGI:1918893]
Coordinates
chr3:127319177-127320941:+
Coord C1 exon
chr3:127319177-127319438
Coord A exon
chr3:127319439-127319584
Coord C2 exon
chr3:127319585-127320941
Length
146 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAAA
5' ss Score
8.38
3' ss Seq
CGTGTTCTGTATCTTTTCAGGAA
3' ss Score
12
Exon sequences
Seq C1 exon
ATTTGCAATTTACTCAGTGCTGTGGACGTCGGCCATCCTGATGTTAAAGCTGTGCAGGTGTCCACAGTGGATGCCTTTCAGGGTGCCGAGAAGGAAATCACTATTCTGTCCTGCGTGAGGACAAGACAAGTAGGGTTCATTGACTCAGAGAAACGAATGAACGTTGCTTTGACCAGAGGAAGGAGACACTTATTGATTGTAGGAAGTTTGTCCTGTTTGAGGAAAAATCGACTATGGGGGCGTGTGATCCAACACTGTGAAG
Seq A exon
GTAAAAAAAAAATGCAATTAAAACTGACTCAGGGGCGATTTGTAAGGAATCACTGGGCCCATGGCCCCTTGGGAGATGCCAGAGGGGACAGTAATGTGGAAGCCCCTTTTGGTAAGGAACGATTCCCGTGTTCTGTATCTTTTCAG
Seq C2 exon
GAAGGGAAGACGGATTGCAGCATGCAAGCCAGTGTGAACCACAGCTGGACCATCTTCTTAAAGACTATTTAGAAAAACAAGCAGAAGAAAAACAGAAAAAAAAGGAGAAAGAGAAATCAAAGGATAAATCTCATTAACAACGACAACAAATCTGGGCAAGGGTGTTTCTATTGTAAATTCAGAATCTTTTTGTACTTATTCTTAATGTTTTTCTTTACTCTAAAGTCCCTGATACAAACAAGTTTCATTACTTAAAATAATGTACTGAATAAGTGCATGCGAAAATGTGCTCTTTAAGGTGTGCTATACATTAAGATAGGCAATTGCAGATGCTTGTGTGACAGGCAGATATTTTGCTTGTGAAAGTAACAAGTTTTACAAGAGGCTGGAAACCATTCCTGAGATTATCTGTATGCATAAAAAACACACAACTGAGTAAAAAACAAAAAAACATAAAAAACCCAAAAGTCTGCGTGCTGAGCACAGCTCCCACAGTGGATTCTTCTGACAGACTGGAACCCGTGCATCGCCCCACCATTTTACAGCTAAAACTACTGATAATAAAAAGCTAAATAAAGAAGCACGAGAGGAAAGGTGGACACAGCACTGTCCTTTGCACTGCTGCTCGGTAAGTCAGGTTTCTTCACATCTCCTTGGACAGAACTTACTAGTATATATGTAGTAGAATAAATGGATAAAGTCCTTTTTATTCTAAAGCTAACATGTTCTTATAGAAAAATATACAAAATACAGATTATATAAAAGAAACCAAAGTTACTTAGAAATCCACTATTCAGATAATCATTAACATATTCAGTCTTTTTCTGTATATTCTCTCTATAAATATATACATGTAAGTTTTGAACCACTTGAGTCTACACGATTCTTAGGTATTGTTAATAAAGGAATATATTCATATCCAGGTAGAAAAAAATGTCAGTCTTAATCCTAATTGGTATTATTTTTAGCAAGGAAAACATTTAGGGACAACCCAAGTCATTTAGTATTTATTCTGAGAATCATTTTAGAAATTATTTTAAGAGTACTGAAAATTGTGTCCCCAGATTTCCTTGTAATAAAAACTTCCCAGTCTAGGGCTGGCAGGATGGCGAGGTAAGCAGAAGCACTTTGCTGCCAAGCCTGACAACCTGAGTTCAGCCCTGGATCCCCCACATGGTACATAGCAGGGCAAGCTGATCCCTGCAGGTTATCCTCAGACTCCACACATGCAGTGGCTCACAGCGCCCATCCTTCACAATATGCTAAATTAGTATAGTTTTAAAATGGTTATTTATGGTTATTTATTTATAGTTATAACGGTTATTTACTTATTAAAAAATGATAACTGTCTCTGGAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000051278-4930422G04Rik:NM_197997:25
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.378
Domain overlap (PFAM):
C1:
PF130871=AAA_12=PD(37.4=79.5)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Human
(hg38)
No conservation detected
Rat
(rn6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CAGGGTGCCGAGAAGGAAATC
R:
AGAAGATGGTCCAGCTGTGGT
Band lengths:
242-388
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: