MmuINT1001667 @ mm10
Intron Retention
Gene
ENSMUSG00000096405 | 4930474N05Rik
Description
RIKEN cDNA 4930474N05 gene [Source:MGI Symbol;Acc:MGI:3586330]
Coordinates
chr14:36095322-36096857:+
Coord C1 exon
chr14:36095322-36095494
Coord A exon
chr14:36095495-36096396
Coord C2 exon
chr14:36096397-36096857
Length
902 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGT
5' ss Score
10.03
3' ss Seq
TTCTGTCTGGTCTTCTCTAGGTA
3' ss Score
11.73
Exon sequences
Seq C1 exon
GATCTGAGGGAGCCACGTAGAGAGTCTCCCATCAGTGCTGAAATGGTTGTTAAGTTGGTGAACAACCTGGTGCCTTCACTGCAGGAAGGAGACCACTTCTTTGTCTCTATATTTCTCTCCACATACAGAAGCTTTGTTACCCCCCTACAGGTACTGGGCCTGCTGTTCATGAG
Seq A exon
GTGAGTGCCCATCTCAAAGCCTATAGTTCTTCCATCCTATTGCTGGTTCTGGGATATCTTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTATCTTTCTCTCTCTCTCTGCCTGTCTCTCTGTTTCTGTTTTACTCTGTCTGTCTCTCTTTGTCTCTGTTTCTCAGTATCTGCCTCTATATTTCTGTTTGTCTATCTGACTCTCTGTCTATCTGTCACTCTGTCTGTCTCTATCTCTCACTCTCTCTCTGTCTCTATCTCTCTCTGTCTCTCTCTGATTGTCGCTGACCCTGTAGCTGTCTCCGTGTCTCTGTTTCTCTGTCTGGTGTCTCTATGTCTGTCTCTTTCTTTCTGTCTGTCTCAGTCTGCCTCAGTCTCTCTGCCGCTGTCTCTCTGAATCTCTGTCTCTGTCTCTTTCTCTCTCTCTCACTCTCTGTGCCTGTTTATTGTGTACAGAATTGTCAGGGCCCAGTAGCTGGAAGTGAGAAACTTTGTCCAGGTTTGGGTGAAGGGATGGCATTTAGGAGCTGAGACCCTCTTTGATGGGCCTTTTACCTAGAAAATGCACCCTATCCCTCACTCAATATTTTTGACACCTTGGTAATTCACTTCCCTGAAATGTAAAGGAGGTTCTAGAACTATTGGAGTACCCAGTAGAGATTTGTCCAAAGTGGAGATCTGTGAAGGATATTCCAGGCAACCATGTGATCAACCAGAGAGATGTCTGGATAGAGATAGCATTTGTTCAAACTTTGCACAGATATATTTAGAGCACCGAGTTTGTCCAGGTAAAATAATAATATATCTGACAGCTGAAAGAACTGCCAAGATTTGGTAAGGTCGGGGCTGGGACTTTACAGGTGATATTCTGTCTGGTCTTCTCTAG
Seq C2 exon
GTATCCATACTTCCACCCTCATTCTGTTGAGCATAGACAAGTAAGGAGCAGCCTCTGTAACTTCCTGCACACATGGATGGACAAGAACCCTGAGGACTTTTGTGACCCCTCAGACATGTTACCTCTGACATACCTGAAGGCCTATTTGAGTGTGCACATGCCACACTCTGAGCTTTTTATCCGTGTCGATAGGCTTCTGAACGAGTTGTGGGAAGAACAGGACAAGGATTCCCATGCCAAGAATGAGGAAGACTCAGATCTGGGAAGACATACCTCCTCCGATCCAGAACTTAAACGTTGTAAATAGCAGAGGGGGCCAGGCCTCTGTTTTAATCTACCAAGATTATCAAAGATCAAGAGGGTAAAGAAGAAACCAGCCATCTTGGAAGTCGACTATTGTTATTAACTCAATGTCTCCTTTCACAATCTGTCTTCCTAACAGTGAATCTATTCAACTCCAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000096405:ENSMUST00000177985:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.286 A=NA C2=0.235
Domain overlap (PFAM):
C1:
PF0061815=RasGEF_N=PU(48.5=81.0)
A:
NA
C2:
PF0061815=RasGEF_N=PD(50.5=47.6)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGAACAACCTGGTGCCTTCAC
R:
GGCATGGGAATCCTTGTCCTG
Band lengths:
353-1255
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Ribosome-engaged transcriptomes of neuronal types
- Neural differentiation time course
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types