MmuINT0003947 @ mm9
Intron Retention
Gene
ENSMUSG00000051278 | 4930422G04Rik
Description
RIKEN cDNA 4930422G04 gene [Source:MGI Symbol;Acc:MGI:1918893]
Coordinates
chr3:127314702-127316384:+
Coord C1 exon
chr3:127314702-127314829
Coord A exon
chr3:127314830-127316260
Coord C2 exon
chr3:127316261-127316384
Length
1431 bp
Sequences
Splice sites
5' ss Seq
AAGGTACGC
5' ss Score
10.4
3' ss Seq
TCTGAATTGTTTCTTTTTAGGTT
3' ss Score
10.64
Exon sequences
Seq C1 exon
GTCCGAGTGGTTGGCGTTACCTGTGCAGCCTGCGCATTCCCGTGTCTGAATGACCTTAAGTTCCCCGTGGTTGTGCTGGATGAGTGCAGCCAGATGACAGAGCCAGCCTCCCTTCTTCCCATTGCAAG
Seq A exon
GTACGCTGGACGGCTCTTCCCAGCAGTGCACACAAGTCAAGTATGTCAGACATTCCCTGAGTCAGACTCTCCGCAAACATGTCAGAAGTTTTAGCAATTCAGTTACTAACATTACTTTTGTAAATAACAAACTTTTTGAAGTAAATATGTCAAAATTTTGTGAGCTCATAGTTTAGCCATTGGACTTACCTCACAGTCTTTAAAACTATTATCATACTACTGGTGGCTTTATATATAAACTATTATAGCATTCCCCTTATTTGTCAGCTAGATTAATGGTTTCTACTCCACTGGGCAGTGTTATTCAGTTTCCTTTCTTTTGTATGATTTGAATGCTTTAGCTTCTGAAAATATTTTTTAGTTTATGAGAGAATATGTTGAAAATGAAGATTTGTCCCCAGAAACTAAGCTGTTATAACCATTAGAAAGTTGTGCTTTTAAAACATCTTTGGAGGCTGAGATACAGGTCAATGGATAAAACATGTTTAATGTGTTACCTGAGTTTCGTCCCCAGTACCATGGAGAATAAAGTAAGTCATGTCTTAGGGAAGAGTCACCACAGTGAGACTCGAGACCTTGCTCCTCCGCGGTTGTCAGGGTTTGCCTGGGACCCTGGGCGTGAGGTTTTAGCCTTTACTGAGATGATACTGGGCAGTCAGGCCGGCTTGGTCACTTCCCAGAAGACAGGTTTGCAGGAACACTGAGTACCGGGGAGTAATGCAGTTGTGCTGTATTCTGAACACATTGTGACCATGTGTGCTGATAGCTGTGTGCGCCTGTGCAGGACAGAGGGAAACAGCCCGTGCCTTCCTTCCGACCTCCTCACATTCTTTTCTTCCTTTTGTTATTTTAAAAATGTGTTTGTTTATTTTATTTCCAGTGTTTGAGTCTTGCTCGTGTCTGTGTGTCATGCACATCCTACATCTGGAGTGCAGTTATGGACCATTGTGAGTTGCCCTATGGGTGCTGGCATTTGAGCCTGGGTCCTCTGCAAGAGCAAGTGCTCTTAACCACAGAGCCAGCTTTCCAGCCGCCTTCACCTTGTTTTTTGAGGCAGTGTCTCTCACTGAATCCAGAGCTCACTGTTTCACTAGACTGGCCAGCGAGTCCCTAGAGTCCTCCTGTCCCTAAGCGCCCGGCACTGGCATTATGAATTTGTGCTGCCGCCACTGTGCCTGGCTTTCTGTGAGTGAGAGGGATGTGAGCTCAGTTCTTGAAGGCACTTTAACCACTGAGCCATCTTCCTAACCCGAAGACTCTGCGGTAACTTTTCAAAGCCTTCAGCTTGCTAGTTAGCACCACTGAGCCCCGCTAGGTCTGAGGACTTGTCCTGCCTTTGCATTTGGAGAACACATTTTGGAACGTACAATGGATGCTGTCTGTTTATCTTTTCTCTTTGCTTAGATTAATTTCTGAATTGTTTCTTTTTAG
Seq C2 exon
GTTTCAGTGTGAAAAGCTAATTCTTGTTGGAGACCCCAAACAGCTGCCTCCTACAATTCAGGGTTCTGATGCAGCTCATGAAAATGGACTGGAACAAACTCTCTTTGATCGGCTTTGCTTAATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000051278-4930422G04Rik:NM_197997:21
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.143
Domain overlap (PFAM):
C1:
PF130861=AAA_11=FE(17.9=100)
A:
NA
C2:
PF130861=AAA_11=PD(9.4=52.4),PF130871=AAA_12=PU(5.9=26.2)
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:
GTCCGAGTGGTTGGCGTTAC
R:
AGCAAAGCCGATCAAAGAGAGT
Band lengths:
247-1678
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: