MmuINT0006480 @ mm10
Intron Retention
Gene
ENSMUSG00000030111 | A2m
Description
alpha-2-macroglobulin [Source:MGI Symbol;Acc:MGI:2449119]
Coordinates
chr6:121667115-121668222:+
Coord C1 exon
chr6:121667115-121667198
Coord A exon
chr6:121667199-121668045
Coord C2 exon
chr6:121668046-121668222
Length
847 bp
Sequences
Splice sites
5' ss Seq
TGGGTGAGT
5' ss Score
8.73
3' ss Seq
CCATCTCTCCCATTTTCTAGGAG
3' ss Score
10.37
Exon sequences
Seq C1 exon
GTGCTGAGGTATCGGAACAGATATCTCTGAAACTGCCATCAGATGTGGTAGAGGAATCTGCCCGAGCTTCTGTCACAGTTTTGG
Seq A exon
GTGAGTTCATTCCCTAGAGAATTTGGATGTTAATTTTTGATGTATTTTTTTTGTTCATATATGTGTGTGTGTGTATGCATACATACACACATTTATATGTAGTTTGTATTTATACAGCGAACTTTTTATTTTATAATTTTTAATTTTCTTAATTAAAATATAATTACATCATTTCCTCTTTCCCTTTCTTCCCTCTAACCCCTCCTATGTGTCCCCTTGCACATTCCTTTAAATTATTACCTCTTTTTAAAAAATTGTTTTGACATTATAGACACATTCTTTTTTTATGGTGTAAAATCTTAGATTAAAATTTATTTACAGTTTCACTTTCATGAGCTTACTTGTCATACAACCAATACTATAAGAAAGAAACTCCATGAAATCTGCATCATTTATTATGAAGCACCCTTACATTCTGGATTCAAGGAGTCAAATCAGTAGACAAACAAGTGCAGACACATTCTTAAATATATAGGAATGTAACTTCCTCTTTCATATTGTTCACCTTTCTATAAATATTTATTCCAAACAAAAGGCAACAACAACAACAAAATGTGGTAGTACACACCTACAATCCCAACATTGAATGCCTGATGCAGGAGGATACATAGTTTGTGGCCAGCCTAGGTCGCAGAGCAAAACCTTGTCTTGAATATATACACAAATTCATCAAATTATAATTTTAACTTCTTTTCTTTGAATTATTGTTTCCAACAATTTTCAAATTCCAAAAATTCCAGTGTCCTGTCTGTACCCTTTGCAAAAGTACTCATTTCTTAACATGGCTAATTATTTATTTTGGATATAATCTTAAATGTCATTATTTCCCATCTCTCCCATTTTCTAG
Seq C2 exon
GAGATATATTGGGTTCTGCTATGCAGAACACACAGGATCTCCTTAAGATGCCCTATGGCTGTGGAGAACAGAACATGGTTCTGTTTGCTCCTAATATCTATGTCCTGGACTATCTGAATGAAACAGAGCAGCTGACACAGGAGATCAAGACCAAGGCCATTACCTATCTCAATACGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000030111:ENSMUST00000032203:23
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:
PF105694=Thiol-ester_cl=WD(100=51.7),PF076789=A2M_comp=PU(0.4=1.7)
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:
GTGCTGAGGTATCGGAACAGA
R:
TGAGATAGGTAATGGCCTTGGTCT
Band lengths:
255-1102
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