MmuINT0003722 @ mm9
Intron Retention
Gene
ENSMUSG00000026940 | 4921530D09Rik
Description
RIKEN cDNA 4921530D09 gene [Source:MGI Symbol;Acc:MGI:1924308]
Coordinates
chr2:25471665-25472129:-
Coord C1 exon
chr2:25472052-25472129
Coord A exon
chr2:25471833-25472051
Coord C2 exon
chr2:25471665-25471832
Length
219 bp
Sequences
Splice sites
5' ss Seq
GAGGTAACG
5' ss Score
9.65
3' ss Seq
GGGCGCCCTCCCGGACCCAGGTG
3' ss Score
6.43
Exon sequences
Seq C1 exon
CATGATCAATGGACCATCTCCAAGGCCTGCGGAAAGGATACGTCCATGAGGCTGGCACACGGCCGCAGTACTTTGGAG
Seq A exon
GTAACGAGGCAGGCGAGGACCGAGAGGATCCCTTGCCCCTCTCGGGCCCCATTCCCCGAGGCCCGCCCCCAGTAAAGGCTACAGAGCCGGCAGAAGGCAAAGCGCGTCCCCACCTCTTGCTTCTCAGTGGGGCAGCCACGGGTCCCCAGCCTGCTACCTTCCTGGGGTCCCCGCAGCGCTCCCTCTCGCACCCACGCACGGGCGCCCTCCCGGACCCAG
Seq C2 exon
GTGGCTCGGGAGAAGCTGCGCAAGTACGTCTTTGACCGTGTGAATACACACAACATACTGATCCACCTGGTTCGGCGACGCGGACAGAAGTTGGAGAGCTTGCAGCTGGAGCTGGCCAGCTTACGGAACCAACCTGATGCTACTAAGGACGAACTGCGGCAGCTTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026940-4921530D09Rik:NM_029859:3
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.038 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Human
(hg38)
No conservation detected
Rat
(rn6)
No conservation detected
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:
GGACCATCTCCAAGGCCTGC
R:
CTGAAGCTGCCGCAGTTCG
Band lengths:
236-455
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
Other AS DBs: