MmuINT0003719 @ mm9
Intron Retention
Gene
ENSMUSG00000026940 | 4921530D09Rik
Description
RIKEN cDNA 4921530D09 gene [Source:MGI Symbol;Acc:MGI:1924308]
Coordinates
chr2:25464780-25465061:-
Coord C1 exon
chr2:25464951-25465061
Coord A exon
chr2:25464877-25464950
Coord C2 exon
chr2:25464780-25464876
Length
74 bp
Sequences
Splice sites
5' ss Seq
GAGGTAACC
5' ss Score
8.55
3' ss Seq
TAATGGGTGCTGCCCTGCAGGTT
3' ss Score
7.13
Exon sequences
Seq C1 exon
AAAGAAATAGCAGTCTCTAACACTCTTGATGTGTACGGCAAGCTGGATTATTGTGAGGGAAAGCTTATCTACCTGGCTGAGCGCATGCAAACGTTGTCCAGAAATGAGGAG
Seq A exon
GTAACCCTGGGCCATGGAGGGGTCCCCACAAAGCCCATGTGCTCTCCAAGATGATAATGGGTGCTGCCCTGCAG
Seq C2 exon
GTTGACACAAAGGTGAGGGACACCTTGGAGTCATCAACTCTAAAAGAGAAACATAATACCAGAATTACCTTTGAGGACCCAGAGGAGGACATGATAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026940-4921530D09Rik:NM_029859:12
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.081 A=NA C2=0.636
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
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:
TTGATGTGTACGGCAAGCTGG
R:
CTCCTCTGGGTCCTCAAAGGT
Band lengths:
173-247
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: