MmuINT0006468 @ mm10
Intron Retention
Gene
ENSMUSG00000030111 | A2m
Description
alpha-2-macroglobulin [Source:MGI Symbol;Acc:MGI:2449119]
Coordinates
chr6:121647949-121648668:+
Coord C1 exon
chr6:121647949-121648176
Coord A exon
chr6:121648177-121648604
Coord C2 exon
chr6:121648605-121648668
Length
428 bp
Sequences
Splice sites
5' ss Seq
CTGGTGAGA
5' ss Score
7.54
3' ss Seq
TTTAATTTCCTGTTTTGCAGATG
3' ss Score
10.83
Exon sequences
Seq C1 exon
GCCAAATACAAAGATAGCAATGTCTGCTATGGATTTAGATGGTTGACAGAAGAGAACGTAGAGGCTTGGCACACTGCCAACGCTGTCTTCTCACCGAGCAGAAGCTTCGTGCACCTGGAATCCCTGCCCTATAAACTGCGCTGTGAGCAAACCCTGGCGGTCCAGGCTCATTATATTCTAAATGACGAGGCTGTGCTGGAGCGGAAGGAGTTGGTCTTCTATTATCTG
Seq A exon
GTGAGAAGGGAGGTCACCCCAGTACTGCCTACACATAAAGCTCTCTGGGGGTAAGGGGTGAAGAAACTATGCACATCACCACTTTGACGTCCTTTCAAACTTATTCTTCTTATGTATGTGTGTATCTGTGAATGTTTGCCATGTGTGTGAACATCTGACCCCGCTAGAGCTGGAGTTCCAGATGACTGTGAGCTGCCCAGCGTGGGTGCTGGATGTCGAATTTGGTCTTTTAGAGGAGCAGAACTGCTCTTAACTGCTGAGCCGTCCGTCCCTCCAGCCCCAGGCTTCACTCTCTTGTTTGTTTTTAGAGTTTGACTTCTCCTGAGGCCAATCATTTCCAGCAGTGGCTCAATAAGCCAAGCACGCAGAACAGAACGGAAGACAGTAGAAGATGTCTGTTGGAATTTTTTTAATTTCCTGTTTTGCAG
Seq C2 exon
ATGATGGCAAAGGGAGGCATTGTTCGGGCAGGGACTCACGTTCTGCCTGTGACGCAGGGACACA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000030111:ENSMUST00000032203:12
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=0.000
Domain overlap (PFAM):
C1:
PF077039=A2M_N_2=PU(26.2=51.3)
A:
NA
C2:
PF077039=A2M_N_2=FE(14.1=100)
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:
GCCAAATACAAAGATAGCAATGTCTG
R:
TGTGTCCCTGCGTCACAG
Band lengths:
292-720
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