MmuINT0005549 @ mm9
Intron Retention
Gene
ENSMUSG00000015488 | 5930434B04Rik
Description
RIKEN cDNA 5930434B04 gene [Source:MGI Symbol;Acc:MGI:1924317]
Coordinates
chr2:26873893-26874499:+
Coord C1 exon
chr2:26873893-26874000
Coord A exon
chr2:26874001-26874407
Coord C2 exon
chr2:26874408-26874499
Length
407 bp
Sequences
Splice sites
5' ss Seq
AAAGTGCGT
5' ss Score
5.93
3' ss Seq
ACCTGCTTTTCTCTCTCCAGGGG
3' ss Score
12.6
Exon sequences
Seq C1 exon
GATGGCCATCGTCCCCATCGTCATGAGCCTCACCCTGACTACACTGCTGGGCAATGCCATCGCCTTTGCCACGGGGGTGCTGTATGGACTGTCTGCCCTGGGCAAAAA
Seq A exon
GTGCGTCTACAACCTAGTCCCGGGGTGGAGCCTCCTCTGCTGCCCCTGCTGCCCCATCTGAAGTGGGAAAGGCCTGAGTGGGACCCTTTGTCTAGTTATGCAGTGGCCACAGGTGACTTTATCTGTGCCCTCAGGAACAGAGGCAAGAAATGAGGGGACAGCCTAGGTGGTCCCTCTTGCCTAGTTTATACACAGTGAGGTATGCACCAGACATTGCAGCCAGTTGCAACCCCTTCCCTTCAGCTCAGTCAGTGCCAGGCAACGTGTATCTGTCTCAGAGTAACAGTGCTCTGCCCCCTTGACCAGGGCCTCTGGGGAGCACAGTCTACAGGTCATGCCTGGGGTGCAACCTGGGAGTGGGAGGTGGGAGGGCTAGGCCCATAGAACACCTGCTTTTCTCTCTCCAG
Seq C2 exon
GGGCGATGCCATTTCTTATGCTCGGATCCAGCAGCAGAGACAGCAGGCAGATGAGGAGAAGCTGGCGGAGACTTTCGAGGGGGAACTGTGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000015488-5930434B04Rik:NM_029862:4
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF102334=Cg6151-P=FE(32.7=100)
A:
NA
C2:
PF102334=Cg6151-P=PD(0.1=0.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GATGGCCATCGTCCCCATC
R:
TCACAGTTCCCCCTCGAAAGT
Band lengths:
199-606
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: