MmuINT0004521 @ mm10
Intron Retention
Gene
ENSMUSG00000041068 | 4930596D02Rik
Description
RIKEN cDNA 4930596D02 gene [Source:MGI Symbol;Acc:MGI:3588288]
Coordinates
chr14:35811463-35811978:-
Coord C1 exon
chr14:35811798-35811978
Coord A exon
chr14:35811660-35811797
Coord C2 exon
chr14:35811463-35811659
Length
138 bp
Sequences
Splice sites
5' ss Seq
CAGGTAACC
5' ss Score
8.66
3' ss Seq
CCATCTTGATCTCTCACCAGGGT
3' ss Score
8.14
Exon sequences
Seq C1 exon
CTCCCTTGTCTGAGACCCTAGAGGAAGGAGGATGTTCCTTTGCTGTCTTCGGACTACTCGAGGCTCAGGCCACAGGAAAAACAACAGGGAAGGCCGTGGTGGTGTCTGGAGGCGTAGGGTTCACTCTTCTCTTCAACACCTCTGGCCATTTGCCCGAAAGAAAACAAACCACAAAGACCAG
Seq A exon
GTAACCACTCTGAAATCTCCATGTTTTGATCTTTGTGTTTGGCAGTGTAATAATTCAGGAAAACATGGAATGATAAAACTCAATCAGAATGTTGCAGGCCTGTGCCTGTTTGAATCAACCATCTTGATCTCTCACCAG
Seq C2 exon
GGTGAGAATGTATCCGCCCCAGAAGATCCAAGGGAGCACTGTACACAGTCACATGTCAGTGCAGACACGTTGAAAAAGCTGGTGAACCACTTGGTGCCTTCCCTGCAGAGTGGGGACCCTTTCTTCATCCCTGCATTTCTCTCCACATACAGAAGGTTTGCCACCACCCTGCAGGTGCTAAATCTGCTGTTCAAACG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000041068:ENSMUST00000043266:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.340 A=NA C2=0.258
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0061815=RasGEF_N=PU(49.0=72.7)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCTCTTCAACACCTCTGGCCA
R:
AGCAGATTTAGCACCTGCAGG
Band lengths:
242-380
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