MmuINT0006476 @ mm10
Intron Retention
Gene
ENSMUSG00000030111 | A2m
Description
alpha-2-macroglobulin [Source:MGI Symbol;Acc:MGI:2449119]
Coordinates
chr6:121638276-121639362:+
Coord C1 exon
chr6:121638276-121638459
Coord A exon
chr6:121638460-121639205
Coord C2 exon
chr6:121639206-121639362
Length
746 bp
Sequences
Splice sites
5' ss Seq
ATCGTGAGT
5' ss Score
8.88
3' ss Seq
GACTCTCTTCTGTAATTTAGGTC
3' ss Score
9.01
Exon sequences
Seq C1 exon
AATCTACATGGTGATGGTTCCCTCCCTGCTCCACGCTGGCACCCCTGAGAAGGGCTGCCTCCTGTTCAACCACCTAAACGAGACAGTAACAGTGAAAGTATCCATGGAGTCTGTCCGTGGGAACCAAAGCCTCTTCACTGACCTTGTTGTTGACAAGGACTTATTCCACTGTGCCTCCTTCATC
Seq A exon
GTGAGTCAAGGGGTCGGGGGTGGGAGGGGTGTCAGTGAAGAATGTAACAATGGCAACCAAGCACAGGGATTACGGATCAACTCATCTGTTTCCAAGTACATATTATAAGCATATTGAGAATAAATCCAATGACCAAAGAAAAATTCTATTTGTCAAAACAACAACAACAAAACCAGCACACAGTAGAGAAAGGGAGAAATGTGACTTTTAACGTTAAAATTCCTTTTTAAAGTTCATAGAGAAAACTAGTTCAAGGTTAACCGTGAGTCACCACTGGTGGTAAACAGGCATACCTCAAAGTCTTTTAAGAGTAACAACTGTAGAAATTGCCCTGAGCGGGAGTCCAATCTATCTTTAGAGCTGGATGCATGGGAATCCTTGTAATCTAGTACTACCAAAATGCTTTCTTTTTCCATAGCGTTAAGACCCTGTAGCCCTGATAACACAGTGCCCTGTTAGTGTATAATTACCTGGTCAAATACAGTGTGTAAACGAGTCAAGACTGCACTGTGTTTTCTATATAAATCAAGATGAGATGTTTAGTCACAGCTCTTCTTATTAATGTATCTTATACTTGGGTCTTCCAATTTGTAAAATATAAGAATCCTTGCCAACTTCCCAGAAGAGAATGAAGGGAGCGATGAAACCAAGAAAAAGAATGAGATCTCCATAGAGATGCAGACCAGGGAGAGGAGAAAGAGGCTGCAGAGACTCTCCGGGTTTTCAGACTCTCTTCTGTAATTTAG
Seq C2 exon
GTCCCACAGTCTTCATCCAATGAGGTGATGTTTCTCACTGTCCAAGTAAAAGGACCAACTCATGAGTTCAGGAGGAGGAGCACGGTGCTGATCAAGACTAAAGAGAGCCTGGTCTTTGCTCAGACTGACAAGCCCATCTACAAACCAGGACAGATGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000030111:ENSMUST00000032203:2
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:
NO
A:
NA
C2:
PF0183514=A2M_N=PU(17.0=30.2)
Main Inclusion Isoform:
NA
Other Inclusion 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:
CTACATGGTGATGGTTCCCTCC
R:
CTGTCCTGGTTTGTAGATGGGC
Band lengths:
334-1080
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