MmuINT0003718 @ mm9
Intron Retention
Gene
ENSMUSG00000026940 | 4921530D09Rik
Description
RIKEN cDNA 4921530D09 gene [Source:MGI Symbol;Acc:MGI:1924308]
Coordinates
chr2:25464951-25465313:-
Coord C1 exon
chr2:25465145-25465313
Coord A exon
chr2:25465062-25465144
Coord C2 exon
chr2:25464951-25465061
Length
83 bp
Sequences
Splice sites
5' ss Seq
CAGGTATCA
5' ss Score
7.33
3' ss Seq
GCTGCTCCTCTGACCCACAGAAA
3' ss Score
7.67
Exon sequences
Seq C1 exon
CTTTAACTCTATCCAGAAGAAGATGAAGAACATGCTAGAAGAGGAAGAAGCAAGACTCAAGCAGGCCCAAAACAACATGAATAAGGGCCAGCAGCTGCTGCTGGTCATCCAGACAGGTATTGACAACCTCTACATCCGGCTCATCGGCATCACCTTGCCAACCTTCCAG
Seq A exon
GTATCAGCCCCCGGGGAGGAGATGCTGTGTACAGGGTCCCTGTGTGGGACCACAGGAAAACCAGCTGCTCCTCTGACCCACAG
Seq C2 exon
AAAGAAATAGCAGTCTCTAACACTCTTGATGTGTACGGCAAGCTGGATTATTGTGAGGGAAAGCTTATCTACCTGGCTGAGCGCATGCAAACGTTGTCCAGAAATGAGGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026940-4921530D09Rik:NM_029859:11
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.158 A=NA C2=0.081
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:
AGAAGCAAGACTCAAGCAGGC
R:
CCAGCTTGCCGTACACATCAA
Band lengths:
170-253
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: