MmuINT0006481 @ mm10
Intron Retention
Gene
ENSMUSG00000030111 | A2m
Description
alpha-2-macroglobulin [Source:MGI Symbol;Acc:MGI:2449119]
Coordinates
chr6:121668046-121668616:+
Coord C1 exon
chr6:121668046-121668222
Coord A exon
chr6:121668223-121668528
Coord C2 exon
chr6:121668529-121668616
Length
306 bp
Sequences
Splice sites
5' ss Seq
CGGGTGAGT
5' ss Score
9.89
3' ss Seq
TCTCTAACTTCCCCTCACAGGTT
3' ss Score
10.92
Exon sequences
Seq C1 exon
GAGATATATTGGGTTCTGCTATGCAGAACACACAGGATCTCCTTAAGATGCCCTATGGCTGTGGAGAACAGAACATGGTTCTGTTTGCTCCTAATATCTATGTCCTGGACTATCTGAATGAAACAGAGCAGCTGACACAGGAGATCAAGACCAAGGCCATTACCTATCTCAATACGG
Seq A exon
GTGAGTACTGATCAAGGGGCTGAAGGTTGACAGTACTGTTTCAGTTGGCTTGTTCAATGAGGCTGAGTTATTTATCATTACTATTGCCTATTATCTCAAGACCATAATAGAAAACACTAGTATGGGTTACTTCATAGAAACTATCTCCTCTCCAACTTCCAAGAACACATTATGAAGCGAGAACATATTTTAGATGTGGACAGAACAGTTTTCAGCAGTTACAAGAGATGTCAAGCATTTTAATAATCTTTCTGGTTGCCATGGGTACTCAACCTGCCATATTGTTTCTCTAACTTCCCCTCACAG
Seq C2 exon
GTTACCAAAGACAATTAAACTACAAGCACCGGGATGGCTCCTACAGTACTTTTGGGGATAAACCTGGTAGGAGTCATGCCAATACCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000030111:ENSMUST00000032203:24
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.033
Domain overlap (PFAM):
C1:
PF105694=Thiol-ester_cl=WD(100=51.7),PF076789=A2M_comp=PU(0.4=1.7)
A:
NA
C2:
PF076789=A2M_comp=FE(11.3=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:
AGATATATTGGGTTCTGCTATGCA
R:
AGGTATTGGCATGACTCCTACCA
Band lengths:
263-569
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- Ribosome-engaged transcriptomes of neuronal types
- Neural differentiation time course
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types