MmuINT0003954 @ mm9
Intron Retention
Gene
ENSMUSG00000051278 | 4930422G04Rik
Description
RIKEN cDNA 4930422G04 gene [Source:MGI Symbol;Acc:MGI:1918893]
Coordinates
chr3:127263814-127266136:+
Coord C1 exon
chr3:127263814-127263999
Coord A exon
chr3:127264000-127264392
Coord C2 exon
chr3:127264393-127266136
Length
393 bp
Sequences
Splice sites
5' ss Seq
ACTGTACGT
5' ss Score
6.33
3' ss Seq
AATTGTTTTAATTTGTTTAGGGT
3' ss Score
6.97
Exon sequences
Seq C1 exon
GTGAAACCTGGAGATGACTTGGAAAGTGAGCGGTATTTAATCACAGTTGAGGAGGCTAAGGCTGTTGGAAGCAGAGCTGTTGAACCGGATGGCTCTAGAGAAGCACTGGAGTCAGGCTCAAGGACGCTTGTATCCTCCAGCAGGTCTCTTGGGTGTCAGCCCTCTGGCTTAAAAAGGAAGGCTACT
Seq A exon
GTACGTTTCTATGTGGGAACCAATATTTCAATGTATAGTTATAAAGAAGTTATTTTTAAAACCAGTAAATTTTTATTATAGGTTGCTGTTAAAATGGTGCTTCATTGTTTACTTAGGAACACAAAAGTAAATCCAAATTAGAAAAGTCGTACTAATATATCTTTATATTTTAATATAGCAAATTTTAAATATTTTTTACCTTAGGCAAAGCATACATACTGTTACTCTTTTTAGCAAATTAATTTTACATTTTCTTTAGAAATAATGGTATAGGACTTTTGGGATAGCATTTGAAATGTAAAATAAGAAAATACCAAATAAATAAATAAATAAATAAAAATTTAAAAAAAAAAGAAAGAATGGTATAGCTGACAATTGTTTTAATTTGTTTAG
Seq C2 exon
GGTTTTCAAAGACCATATAAGATGCCAAAGAAAGTGACTATTACTGAGAACAGTGAACCTGCTGCCTCACTTGGTGATGAGAACCCTGGCCCGCCTGGCCCGAGACTTCTTCCCACATTCTCCAGCACACTTCCTTTGTTTCCCACTGTTGGTCAGAAAGATTTAACTCCTGTGTCAACGGATAATCAGAGTCCCATCACATTCAGCAACAGAGAGAGAAGCGACACACCTTTATCACTTCCTTCTTCATACTTCAAGATTAACACAAACACACTAGGTAAAGAGGACAAGCTTTGCTTTCCTGTCAGTTCTGAAACCAAACATTCAGACTCTTTACTGGCCAGTGAACCCATGAGAAGAAATGGTTTAGACTCTCACTGTCCTGGAGTTTCACAAAACGTCAGAAGCAAAGCCCAGATATTAGCTCTTCTGAAGTCCAGCTCAACTAACAGGAAGGATCTGCATGGTGAGATTCCAGGACACTTTCCTAAGATAGAACCACAGGGGTGTTTGAATATTATTTCTAAGCCAGAGGAAGACTATGCAGAAACACAGAGCATAGGGAATTTACGCTGTGAGCAGCAGTCAGAAAATCCTACAAGAACCACAAGCCGGTGGGCCAGGTATTTACCTTCCCAGAGATCACCTCCCTGTTCTGCTGCAGATGAGAATGATACAGAGGACAAACCAGAAGCCCAAGAAGATGTGAACATTTTTAACTTGTCTGAACTTTTACAAAAAAAGTCAGAGCTCTTTGAAACATGTTCCAAAAAGGGAGAATTACACAGTGAGGACAAGCCAGTAGATAATACTTGCCAATACTGGAATCAGGAGGATAACTTAGCACCTTCATTCTGTAAGAACAGCAGTGTCCTGGTTAGCTGCAGCAGTAAAGAGAATGCCAGTTTATTATCAGAATCTGACATTCAGTACAGTAGCAAAGTACCAGTTAATCAACATGAGAAGGTGTGGACTCGAGAAGGTTCTCAGGGGGCAGATGCGGATGCAGCATTGGAACCGGAGTATAGACCAGTGTCACCTTTGCCAGAAATAGGACATAAACAAACTGAAGTTGAAGCTTCTCTAAGTACCAGCTCTAGGATCTCTGACGACATTGCTGACATGGGTTCTAAAAGCAATGCTGATAGAGAAGATCTGAAAACTGTTCATAAAGCTGTGCAACCATTTTTGGAGGTTTCTTTTAATCTGAGCAACTTTGAGACCAGTGACACTGATGAGGCGTCACAAGAAGACAGCAGACTTTCCCAGGATTCAGAGCGGTGGGAGAAGGAAGCTGTGCTTACAGATGATTCTTGTGTTCAGAAGAGCTGTGAGGATATAGGCTGCCGAGAAATTGTAGGAAAATTGCCACTCCTGTCATCTACCGATGACGAGCCTAAAGAGGCCCTCCCTGCTGATGGGACTCTGTTGTCAGAGTTCTGTGATAGAACCTGTGTGGGTTTCAATTCAGGACCTCATGGAGATGTAAAAACTGGCAAAGCACTAGAGGGACAGTGTCATAGTGACACAGGGAGCAGTTTGGACTCGTCGCTGGAGTGGAGTGAGGATGTAGCAGGGGACAGCAGAGAAGATGCTAGTCAATCTATCCAAGGCAATGCAATTAATTGTGGTGGTGTTTCACCCTCAAAGAAACCCAGAGGTGTAAACAGAAGCTTATACAGTCCTTATCTTCTAACCGCAGTCACTGACCCAGCGCCTGAGAACAGTGACCTGCTCTCAGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000051278-4930422G04Rik:NM_197997:5
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.387 A=NA C2=0.641
Domain overlap (PFAM):
C1:
PF103824=DUF2439=PD(33.8=43.5)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGGAAGCAGAGCTGTTGAACC
R:
AGGTGTGTCGCTTCTCTCTCT
Band lengths:
352-745
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: