MmuINT0003720 @ mm9
Intron Retention
Gene
ENSMUSG00000026940 | 4921530D09Rik
Description
RIKEN cDNA 4921530D09 gene [Source:MGI Symbol;Acc:MGI:1924308]
Coordinates
chr2:25464149-25464876:-
Coord C1 exon
chr2:25464780-25464876
Coord A exon
chr2:25464314-25464779
Coord C2 exon
chr2:25464149-25464313
Length
466 bp
Sequences
Splice sites
5' ss Seq
TAGGTGAGG
5' ss Score
7.65
3' ss Seq
TCCTTTTCTTGCCTGTTCAGAAA
3' ss Score
9.76
Exon sequences
Seq C1 exon
GTTGACACAAAGGTGAGGGACACCTTGGAGTCATCAACTCTAAAAGAGAAACATAATACCAGAATTACCTTTGAGGACCCAGAGGAGGACATGATAG
Seq A exon
GTGAGGCTCTACATGCCGGCCACAGGAAGATGGAGAAGGACGACAAGAACAATAGCTGCAACTAGATAGGGTCTGAACTCAAGACAAGAGATGGCATACATGGTGACTGGGCGCTGAAGGGAAAGGTTTTAATCGATAGACGTTACAGAGGTTTCTTTTTCTGAGACAAAAGGGACGTATATCATGGGATGGGCCAGAAGGGAGCCCAGACCGAACTTTTAGAAGAATTTCTGCTACAGAGGCAAGGTGGGGTGAAAGGATAAGGACAGCTAGTGTGGATAATCTTGGCAAATCCTAGTTGTCTGGCACCTGGCCTTAGGTGACTTAGGGCAGGGGTCTCCAGTCATTGATACATGTCTGAAATGAGCTCCCGGCAGGAGATGGCCTATGGCAGCAAACGCCAACAGGTAGAGGTGGGAGGCTTCTGGAAAGAGGGTGGCAGCCACTCCTTTTCTTGCCTGTTCAG
Seq C2 exon
AAACCTTCCAGTTTGCGGATGTGGACCATAGTTACGTCCCTTCGCGGGCGGAGATAAAGAAACAGGCCCAACAGCTGATCGAGGCGAAGCTCAAGGGAGCCAAAAAGAAGAAAAAGTAAACCTGTCTGGGCTGTAGTACAGAAATAAACATTTTTCCAGAACTAC
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026940-4921530D09Rik:NM_029859:13
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.636 A=NA C2=0.000
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:
GGGACACCTTGGAGTCATCAAC
R:
TGTTTATTTCTGTACTACAGCCCAGA
Band lengths:
231-697
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: