MmuINT0006466 @ mm10
Intron Retention
Gene
ENSMUSG00000030111 | A2m
Description
alpha-2-macroglobulin [Source:MGI Symbol;Acc:MGI:2449119]
Coordinates
chr6:121645152-121646960:+
Coord C1 exon
chr6:121645152-121645261
Coord A exon
chr6:121645262-121646798
Coord C2 exon
chr6:121646799-121646960
Length
1537 bp
Sequences
Splice sites
5' ss Seq
CAGGTGGAG
5' ss Score
2.57
3' ss Seq
CCTTTGCTTTTAATCTTCAGGTG
3' ss Score
10.66
Exon sequences
Seq C1 exon
GTGTGGAAGAAACCGGTAAAGGGCTCACTAAGATCACAAGAACTATAACAAAACTATCATTTGTGAACGTGGATACACATTTCAGACAAGGAATTCCTTTCGTTGGGCAG
Seq A exon
GTGGAGTATCTTTCAATTCATTAGGCCATGTGCTATCAAAACTCACATCATAGGTATAAAGTCTGCTAAAATTATACCTGGTTAGCCAAAGGAAAAAAGTATTGTACACACACACACACACACACACACACACACACACACACATGCCATAACCAAATGTCTATGATCTAACCAAAAGTTAAAGTTAACAAAAAATGAATGTATTTGTCTTAAAATTGTATATGAAGTCTATAAAATCACCTGAAAGATTATCAAGTTGCCTTTGCAATGACCTAATGACCTTTCTTGAAGACCTGTGACAACTTTCCATTGTGGTGTTGTTGTTGTTGTTGTTGTTGTTGTTGTTGTTGTTTTTCTGTTAGTAGATGTTTGAATGAACTTTGTGACTCTACAAGTCAGAAGTGAGGACTGTATCTATGCCAGTGTGTAACTGCTGTGTATTACGGTTTCTAATGTAAAGGTTGCTTCACTGTGGAGGCTGTAGAAGACAGGCCTAGACTTAAATAAAATAAGAGTACATTGTAGAAGGCTCAGTTAAATGGCAGAACATATCCAGAAACTAAAATCCTAAAATTTCCTAAAATCAAAGTGTCATCCATTTAAAAATTCCCAGAAGTTTTTCCAACTTAACACTGGGAAATAACTTCACTATCTACTCCAAGACTGTCTCAGCAGAAGACAAAAGAATGAATTTGTGTACCCATTCTTGGGTTTGTATGTGCAGCTGACATCTTCATGATAGATTTCATTGATATTTAAGACTGCTCATCCATATCAGCCTGGGTTTTCTTTTCTGCTACTAAATAAATGAGAGGATTCATCTCATCATTATACACCATGTGCATATGATTGAAATTGCACATCCAACTTTATAAATATGTATTATGTGTCAATTACAATAAAAAATTCAAAGTAGCATATAGTAAAAAAAAAAGTCACCAACTTCATAATATGGACTGGGTTGTTTCATGTATTTGTTTGTTTGGCTGAGTTCAGTATTATCAACAGGTTGGTTTAAAACCTGATATAATGCTGGCTGTGCCTCCTCAGGTTTACCTTGTCATATGGGAGGCACATTATAAGTCTGACTACTCTCCAGAAGGCTGACCATCTAGGATGAGAAACAACATTTACAAGTCAATCAGTGAAGCAAATGGCACCCATGTCAGAACTCTGCTTGCATACAGAATGCTATGCCATAATATTAGGCCAAAGGAAATTATCTTGTCTACCATGAGATAAATGTCTGCATCTCAAATAAATTTGACTACTGAATTAAATTTTCCCTCACTATATAATTCTTATACAACTCTGTGAGTCTTTGCAAACTAGATGTCACAAGGCTTCTGTGGTGTCACTCCTATGTATTTTTGTTGCTTTATATCTCTTTACACCCTTCTTTAACCTTCCTAGAGTTAATATATGTTTATTTAGCATCTGTGCCCTTTTACCACACTGTAGACTTCTGATGATATCCACAGTGCCTGGGACTGTGGCATGCAATGCCTAGGGATAGACCTTTGCTTTTAATCTTCAG
Seq C2 exon
GTGCTCCTGGTGGATGGGAGAGGCACCCCTATTCCATATGAAATGATCTTCATTGGAGCTGATGAAGCAAACCAGAACATAAATACTACCACTGATAAGAATGGCCTGGCACGGTTCTCCATCAACACTGATGACATCATGGGCACGTCCCTAACTGTCAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000030111:ENSMUST00000032203:10
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.108 A=NA C2=0.019
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:
TGTGGAAGAAACCGGTAAAGGG
R:
CTGACAGTTAGGGACGTGCC
Band lengths:
270-1807
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