MmuINT0003185 @ mm10
Intron Retention
Gene
ENSMUSG00000030385 | 2900092C05Rik
Description
RIKEN cDNA 2900092C05 gene [Source:MGI Symbol;Acc:MGI:1920340]
Coordinates
chr7:12554618-12556323:+
Coord C1 exon
chr7:12554618-12554775
Coord A exon
chr7:12554776-12556012
Coord C2 exon
chr7:12556013-12556323
Length
1237 bp
Sequences
Splice sites
5' ss Seq
CAGGTGCTT
5' ss Score
4.83
3' ss Seq
ATATAATTTCTATATTTTAGTTA
3' ss Score
6.8
Exon sequences
Seq C1 exon
TCGACTGGTAAAAGTTGAGGAAAAACAGCAGCTTGCAATGTTGTATGAAAATATCGAGATTCCACTTGTAGATGAGAAAGAGGCCTCTGAAGATGATGGTTATGATGAATCTCAGTTGCATCCAGAGAATGAGGAGCTGGGAAAATTCATTAGCTCAG
Seq A exon
GTGCTTTTTCCTATTATATCCAAGGCTGTCAATGGTGATTTGCTCTTTTCCAAAGAATATTTAAGTGGGATCAAATATAATCTGAGTTAGGAAAAAAGGATGTTCATATAGAAATGAGCCATTCTTATCAAATCCCAGGGGACAATGAGGAGCTGTCTTGTTGATTCCCAATGTGGACAATTCCAAGAATCTAAGCCAGACTTTGGGAAACAAATCTTGTTTTGAATGAAACTTTACCTTGAACATAATTATTATTGTTGCAGTATTCCTGCATTTAGAATATCTACAAGCAGACACTCTCATTTGCTTCAAGATGGTATAGAAATGGGTTCCAGGTCTGTACAATAGAGATCATTTCTCCCAAATGGAAGGACACTATGTGAGACACAAGCATATGAGAGATGACTATGTGCATTTGTGAAGAGAGGATGTCATAAATTCTCCAGAAGCTTGGTTTTGTAAAAAAAAAAAAAAAACTTTCAGGTTCCTGATCATATGTTCTAGAAGAACACGTAATGTTCAGTGTCTGATCCAAACACAATGACATCCTCTGCTTGGTTCCTTTTAAACAACCCTAGCCGGGCGGTGGTGTCGTGCGCCTTTAATCCCAGCACTTGGGAGGCAGAGGCAGGCGGATTTCTGAGTTCGAGGCCAGCCTGGTCTACAAAGTGAGTTCCAGGACAGCCAGGGCTACGCAGAGAAACCCTGTCTGGAAAAACGAAAACAAAAACAAACCAACAAACAAACAAACAAACAAAAAACCAACCCTAGATGTGCCCAACCTGAAAGACTCAGATGCTAAGAGCAGAAGTAATGGTTGATGCTGCCTGAGGTTAAGCCTTTATAACCTGTAAAATAATATTTTCCAATGCCTTTTTAATTACATTGAATTATTATTGGATAATTGAAAGGCTTGAATACAAAATATAATCATATTCAAATTCAAACTTTAGCTGAGGGTGATGACTCACACCTCAACTCACAGCACTTGGGTAGCGGTAACAGGCAGATGGTGAATTCAGGGCCAGCCTGGAATGTATAGTATGATCTTGCTCCAAAATTCAAACAAACAAACAGAAAAAAATACATATTATTAAAAAAAAATCACCATCCTTATAAGTAACATTTAGTATTTTTTTGAAATACCTTTATTTTTTTCTGATTTCCCCTAACCCCTTTGTCTTCATTTCTGACCTTCATTTACTCCAATCTTAGTAATATAATTTCTATATTTTAG
Seq C2 exon
TTATTAAAACAAAAAGAATGGAAAACTTAAGAAGAAAATGAAGGAAGAGCAAAATGTATTGAAGACCATCAGAGAACTCCAGTTATACCAAAAAAGTGGAGTCATGAAAAAATGGAGAAAGATGAAAACTCAGGAAAGCTGTGAAAACAAAAGAAAGGTGTACCATGTGCTAGACAATGTAGAGACCAAACTGAAGAGATAACAGACAACTGAGAACACAAACAGGACTTCTAGAGAACTTGTTCAAGAATGTTCTACATAAAGAAACATGAGAATCATATAGCAGAAAATAAATTCATATAATACCAAAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000030385:ENSMUST00000032541:5
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.185 A=NA C2=0.077
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCAGCTTGCAATGTTGTATGA
R:
TCCTGTTTGTGTTCTCAGTTGTCT
Band lengths:
358-1595
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- 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