MmuINT0006472 @ mm9
Intron Retention
Gene
ENSMUSG00000030111 | A2m
Description
alpha-2-macroglobulin [Source:MGI Symbol;Acc:MGI:2449119]
Coordinates
chr6:121607398-121608026:+
Coord C1 exon
chr6:121607398-121607565
Coord A exon
chr6:121607566-121607950
Coord C2 exon
chr6:121607951-121608026
Length
385 bp
Sequences
Splice sites
5' ss Seq
AAGGTAGAC
5' ss Score
7.07
3' ss Seq
GGTGGTCATTTCCTTTGTAGGAT
3' ss Score
8.98
Exon sequences
Seq C1 exon
GTTTATGATCTGCTACCAGTGAAAGACCTCACTGGCTTCCCTAAGGGTGTGAATCAACAGGAAGAAGACACTAATGGCTGCCTTAAGCAAAATGACACTTACATTAATGGAATCCTGTACTCCCCAGTACAGAATACAAATGAAGAGGACATGTATGGCTTCCTAAAG
Seq A exon
GTAGACCTCTTATCTCAGAGACAGGTCTAAAAGTTCTTAAAGTACCCTGTGTAGAAAAGTTATTTGTTTCAAATGCTTTCTTATCACGATTGAAACTAACAAAATAAAAGGACCAAGTGGCTTCTTGAGGTCACCAGCAGAAAGAGATCTGCCTAACGCAGCAGAATCAGGTCCATAAGTTTTAATGGTTAACAAAGTTTTCTTTTTATTGAAAGTCATTGCTTTGTGATATTTATACGCACTGCGTATAAAATTATCACTGTCCGGTGAGCTTAGGGACAATGTGGCATAATGTCCCTGTTTCATATGCAAACATGGAAAGATTAATTCAGATGAAAGGAGGTGTGTGTGGGGTGCACTAATCAGGTGGTCATTTCCTTTGTAG
Seq C2 exon
GATATGGGCTTAAAGGTATTCACCAACTTGAACATCCGTAAACCCAAAGTCTGTGAACGCCTTGGAGTCAATAAAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000030111-A2m:NM_175628:16
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.107 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
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGATCTGCTACCAGTGAAAGACC
R:
TTTATTGACTCCAAGGCGTTCACA
Band lengths:
238-623
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: