MmuINT0003935 @ mm9
Intron Retention
Gene
ENSMUSG00000051278 | 4930422G04Rik
Description
RIKEN cDNA 4930422G04 gene [Source:MGI Symbol;Acc:MGI:1918893]
Coordinates
chr3:127286502-127287712:+
Coord C1 exon
chr3:127286502-127287088
Coord A exon
chr3:127287089-127287573
Coord C2 exon
chr3:127287574-127287712
Length
485 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGG
5' ss Score
10.07
3' ss Seq
CTGGTTTCATTCTATTTCAGGAG
3' ss Score
9.77
Exon sequences
Seq C1 exon
GATTGAAAACCATTGGTTTCCAGGACAGTAAGAACCTCCAACGGTTTCCGTTTCTAAGTGGAGCCTCAGCTCCCTTTGCCACTTTGCCAGCTGATGATGGCCCAGCTGTCTTAGATCCCTGTTCATTCATGATTGATGATGACGCGCGAGAGCCTTCTGGTTCTTCCATGTTGAACCTGTGTGAAGAGTCAGGTCTTTCATTCGACCTTGGACTTGAGGGCCAGGGTGGGACTCCAGGAGGTGTTTCACTGCTTCCTAAGAGTTCTACTCAAAGCAAGTGGCTGAAATATCAAAACCCACCCCAGTGCAACTCAACTGCTCCGAACAGACTTGCCAGCGAGGTGACCGAGGGTCTCTTTGCTGAAGCGGTGTCTGGCTTGCATTTTAGCCACACAAGTGAGAGTGAAAGTTCTGTTGACCCTGTGCGCCTGCAGATGATAAAAGGCTTGCTCCATCAACAGCAGCAGGATTTGGTTTCCAGAAAGCAAGCTTTTTCTCTGACTTTAAATCAGACTTGCAAGACTCAGGAACATGAGACTGTGTTAGGAAGCTCTGCCAGCAAGAACTGCAGAGCCAAAGATCTACAG
Seq A exon
GTGAGGTTTCCTCGTGTGCGTTGTCACCCTCAGGTGCTGTGTGGATTCCAACAGAAGATAAGCACTATAGCTTGGAGACAGTTTACTTTTTGATCAGATAGTTGTTTCGTACACCTTTCCCAGTAGTTATGAATATTGAATTGTATATTTGAAAGTCTCTGGTTGCAGTCCTGGCCATATAAAAAGTATTTAATAAGTTTTAGCTATTATCTCTCTTTCTGCCATGACTTCCAGTACTGATCTCCCTGTGATTGTTTTTATTTTTGACAATCAAATCAATCTTGCTGATTGAATTATTAAAGATAAGGCACACACATCTATTCCAAATTTGCTATGAGTCATTATCCTACTCATGACAGAAATAGAAATGTAATGTGATCCACTTGTAGTAAAACATATTCAAAATCATATTAAGAGGCTGATGAAAAGAATTAAAAGTGTCATGTCATGTCATTCAGCCTCTATCTGGTTTCATTCTATTTCAG
Seq C2 exon
GAGATAAATAATTCTGATCTGTGCTTCCCAAATGGGCAGAAAATAATATCAGCTTATCTCCCACAAAGGCAAGTTCACATACCTGCTGTTTTCCAGTCTCCTGCTCACTATAGGCAGGTCTTTACAGCTTCCATCATAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000051278-4930422G04Rik:NM_197997:10
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.214 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion 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:
AACTGCTCCGAACAGACTTGC
R:
TGTGAACTTGCCTTTGTGGGA
Band lengths:
353-838
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: