MmuINT0006475 @ mm10
Intron Retention
Gene
ENSMUSG00000030111 | A2m
Description
alpha-2-macroglobulin [Source:MGI Symbol;Acc:MGI:2449119]
Coordinates
chr6:121659920-121660969:+
Coord C1 exon
chr6:121659920-121660148
Coord A exon
chr6:121660149-121660842
Coord C2 exon
chr6:121660843-121660969
Length
694 bp
Sequences
Splice sites
5' ss Seq
CGGGTAGAG
5' ss Score
2.04
3' ss Seq
TGCTTCTTGTGTGGTTACAGGTT
3' ss Score
8.56
Exon sequences
Seq C1 exon
CTCAACAGGAGTGGCTGAAATGGAAGTGACAGTCCCTGACACCATCACTGAATGGAAGGCTGGGGCCTTCTGCCTGTCCAATGACACTGGGTTGGGCCTCTCTCCTGTGATCGATTTCCAAGCCTTCCAGCCCTTCTTCGTGGATCTCACAATGCCCTACTCCGTGATCCGTGGAGAGGCCTTCACGCTCAAGGCCACTGTGCTGAACTACCTCCAGACATGCATCCGG
Seq A exon
GTAGAGACTTATTTCCTTAATTCAGCACACACCAATTAAAACTTACAGTCGTAGAAATACCAAGAAGGAAATTTAAAAAAGAATAAGTAAACCCACTTCTTGTCTACTACAAAGGAAGAAGCTATCATACATAGATTTATATGTTAGGAAAGTGGATATCTCTAAGAATCAACCTACAAAGATGAGTTTCTAACATTGATCGTAATCCTCTAAAGTTAAGTCACCTGTGCAATAGACAGATTTCTTACACAAGTGAGCATCACCTTGCCCGTCCCATGTTTTACAGTTTGTAGATCCAACTTCTACATTCCTGCATATTTATTTTTTCACACTGCATTCATTATACGTCGCTTCATTTAAAATGTTGCTTGTGTGCATCCCTCCTCGGTCAAAACCATAACTGTTTATAGACCTTGTGTAGTAACTGAGCCAGGGGGTGATAACTCTTCTGGGTCCCAGAAGAGCTGCTTACCCAGGCAACACTCCATTGTCTTTCTTCTGGTTCCAGCCCTTGAAAGGCCAAGCACCCCTTCAAGTGCTGAGGTTTACCTGTGAGGTGCTAATGAATGGAGCATTGCACTGGGGTCTTATTTGTCTTGTTGATGTTAGGTAACAGAAAATCTGATCTCCAAGTAGGCTTCCACTGAAACCTGGTCTCCTCCTATCTTTAATCCTGCTTCTTGTGTGGTTACAG
Seq C2 exon
GTTGGTGTACAGCTGGAGGCCTCTCCTGATTTCCTAGCTACCCCAGAGGAGAAGGAACAAAAGTCTCACTGCATCTGTATGAACGAGCGGCATACCATGTCCTGGGCGGTGATCCCCAAGTCATTAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000030111:ENSMUST00000032203:19
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=0.039
Domain overlap (PFAM):
C1:
PF0020717=A2M=FE(83.5=100)
A:
NA
C2:
PF0020717=A2M=PD(4.4=9.3)
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:
CAACAGGAGTGGCTGAAATGGA
R:
AATGACTTGGGGATCACCGCC
Band lengths:
352-1046
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