MmuINT0006483 @ mm9
Intron Retention
Gene
ENSMUSG00000030111 | A2m
Description
alpha-2-macroglobulin [Source:MGI Symbol;Acc:MGI:2449119]
Coordinates
chr6:121619530-121620028:+
Coord C1 exon
chr6:121619530-121619686
Coord A exon
chr6:121619687-121619953
Coord C2 exon
chr6:121619954-121620028
Length
267 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGT
5' ss Score
10.47
3' ss Seq
TTCCTCTTGCCCATTCACAGGGA
3' ss Score
8.49
Exon sequences
Seq C1 exon
GCTCACAGCCTTTGTACTGAAGAGTTTTGCTCAGGCTCGAAGATATATCTTCATCGATGAATCACACATCACCCAAGCCCTCACCTGGCTCTCCCAGCAGCAGAAGGACAATGGCTGCTTCAGGAGCTCCGGGTCACTGCTCAACAATGCCATGAAG
Seq A exon
GTGAGTATTCCAGAGCTAGTTTTGGCTTATCCATTATGAGATCTGTGAGTACAGAGATTACAGGGTAGAAATTATTGACAGAGCTACTAAAGAACAATAAGACCTAGACATCACCAAGAAAGAGAAGATAGAGTTCATATTAATTGTGATGCATTGCTCGGGAGTGGATATTTAGAAATGAGAAGTTCCACAACACAGCAGAATACAAATAGCTAGTTAATAGAACTCTTAGAACTACTGAGATTGCTTCCTCTTGCCCATTCACAG
Seq C2 exon
GGAGGAGTAGAAGATGAAGTCACTTTGTCTGCCTACATCACCATTGCTCTCCTGGAGATGTCTCTTCCTGTCACT
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000030111-A2m:NM_175628:26
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF076789=A2M_comp=FE(20.2=100)
A:
NA
C2:
PF076789=A2M_comp=FE(9.3=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCTCACAGCCTTTGTACTGAAGA
R:
ACAGGAAGAGACATCTCCAGGA
Band lengths:
228-495
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: