MmuINT1001666 @ mm10
Intron Retention
Gene
ENSMUSG00000096405 | 4930474N05Rik
Description
RIKEN cDNA 4930474N05 gene [Source:MGI Symbol;Acc:MGI:3586330]
Coordinates
chr14:36094917-36095494:+
Coord C1 exon
chr14:36094917-36095171
Coord A exon
chr14:36095172-36095321
Coord C2 exon
chr14:36095322-36095494
Length
150 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAAC
5' ss Score
7.82
3' ss Seq
AGAATATTTCTCCCCCACAGGAT
3' ss Score
9.81
Exon sequences
Seq C1 exon
CATAATGAAGCCCTACATAGCCAAGTTCTGAGAGGCAGCCCCACAGACTCACTTTTCAGAGACACTAGAGAGGGCAAGATGTTCTCTTGGTGTCTTAGGACTACTAGAGGCTTGGGCCTCAAGAAAGAAAACAGAGAAGGCCATGGAAGTGTCTGGAGGCACAGGGTTCACTCTTGCCTTCAACGCCTGTGGCCATTTTCCAGAAAGGGAAAAACTGTGACCAAGGGTAAGCAAGACCAGAACCACACAGACCAG
Seq A exon
GTAAACACTTTCTTTTCTCTCTGTGTTTGGCAGAATGATAATTTAGGAAATCTTAGAATGAGAGGAACCAATGAGAATGCTGCAGACCTATGTCTATTTGAGTCCTTGATCTTAATCTTTCCTAACTGTGAGAATATTTCTCCCCCACAG
Seq C2 exon
GATCTGAGGGAGCCACGTAGAGAGTCTCCCATCAGTGCTGAAATGGTTGTTAAGTTGGTGAACAACCTGGTGCCTTCACTGCAGGAAGGAGACCACTTCTTTGTCTCTATATTTCTCTCCACATACAGAAGCTTTGTTACCCCCCTACAGGTACTGGGCCTGCTGTTCATGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000096405:ENSMUST00000177985:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.203 A=NA C2=0.286
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0061815=RasGEF_N=PU(48.5=81.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
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:
AGGACTACTAGAGGCTTGGGC
R:
TGGTCTCCTTCCTGCAGTGAA
Band lengths:
254-404
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