MmuINT0006486 @ mm9
Intron Retention
Gene
ENSMUSG00000030111 | A2m
Description
alpha-2-macroglobulin [Source:MGI Symbol;Acc:MGI:2449119]
Coordinates
chr6:121623485-121624967:+
Coord C1 exon
chr6:121623485-121623708
Coord A exon
chr6:121623709-121624748
Coord C2 exon
chr6:121624749-121624967
Length
1040 bp
Sequences
Splice sites
5' ss Seq
CAGGTCAGT
5' ss Score
8.94
3' ss Seq
TTACCCCATTCCTCTTTCAGGAC
3' ss Score
13.02
Exon sequences
Seq C1 exon
ACAATTCTGTCCACTGGACCAGAGCTCAGAAACCCAGAGTGCCAGCAGATCTCTGGTACCAACCCCAGGCTCCCTCGGCTGAGGTAGAGATGACCGCTTATGTGCTCCTGGCTTATCTTACCACTGAGCTGGTTCCAACCCGAGAGGACCTGACTGCTGCAATGCTCATTGTGAAGTGGCTCACAAAGCAGCAGAATTCCCACGGTGGCTTCTCCTCCACCCAG
Seq A exon
GTCAGTGATTGGTTAAAACATTTTATCTTTAGTTAGTGAAAGGGCTGCTGACTAAAAACACACATGAGAAAAAAAAAACAATGAAGGTGACTTGGAAGATTATTAATATACAGAGATAATAAGAGGAAATTGAAAGACCGCTAAACAGAAATCTTAAATTGTGGCACCCCACCTCAGCCCTGCATTATTGTGGTCTCCTCGTTTCAACAACAAATCTATGTGCCCACAGTAATACTAGGGCACCAGAAGGAGGAAGAAAAAATTACCTACTGTTCTTCTTGAAGGCGAAGACTCTTTTTGAGCTGTCAATAGGGACCCTAACTCAACATTCTCTGCTTACAGATGTGTCCATTTGTAGGCCTATGTGGTAACTAGATGCTTTTGATGGTCTCCAGACGCCTCTTACTACACAAAAATATGTTTATCCGCAACATAATGGGATGTCTTTCCTCAACCAATCTCTCAAGATCAACTCTATAGTTATATGCCTAAACAATTCATCAGTATGTGCCCAGGAAGAGTCTTTATTTTGAGAGACAGTAGATATAAGCATATGTCTTCTGTAAGTGGGACGAGGGTATAAAGAAATACAACCTTGTCTATGTCTATTGTGTTAAAAATATTATTATTTATATTTTTATAAGATTATAAAAAGATTTCTTAGAAATCTATTATTTAAATATTGTCTTGCAGCTCAGTGTCAGTGGTTTTGAGAATATGCATAGTGATGGGGAGGTGAGCACTGGTGGTATTTTGATGAACCAGGAGAGGCCAGTCAGAATAGCCGTATATCAGGGGGATGTTTATAATGAGCCCCTTTGCTTCCTTTGGAGAAAGCCTGACTCTGAGCACAGTTATAAAAGACCTTGGCTTCTAGTCAGCAGAGACGAGTTTGATTTGGAAAGGGGACCAGACCAAGCTCTGGCTCCTACTAGCTTTGATTCTCCACCCAAAAGCACCTCCATAGGGCCTAAGCTCCAGACTTCTGGGCAACTGATCACGTTGTGATCCCTGGGTGAGTTACCCCATTCCTCTTTCAG
Seq C2 exon
GACACGGTAGTGGCTCTCCATGCTTTGTCCAAATACGGAGCAGCTACTTTCACAAGAGCGAAGAAAGCTGCACATGTGACCATCCAGTCTTCTGGCGCATTTTATACAAAATTCCAAGTGAACAACGACAACCAGTTATTATTACAGAGAGTCACATTGCCAACTGTGCCTGGGGATTACACCGCAAAGGTAGCTGGAGAAGGGTGTGTCTACCTCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000030111-A2m:NM_175628:29
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.080 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF076789=A2M_comp=FE(28.8=100)
A:
NA
C2:
PF076789=A2M_comp=PD(5.1=17.8)
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:
ATCTCTGGTACCAACCCCAGG
R:
GTAATCCCCAGGCACAGTTGG
Band lengths:
356-1396
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types
Other AS DBs: