MmuINT0006469 @ mm9
Intron Retention
Gene
ENSMUSG00000030111 | A2m
Description
alpha-2-macroglobulin [Source:MGI Symbol;Acc:MGI:2449119]
Coordinates
chr6:121598623-121599927:+
Coord C1 exon
chr6:121598623-121598686
Coord A exon
chr6:121598687-121599784
Coord C2 exon
chr6:121599785-121599927
Length
1098 bp
Sequences
Splice sites
5' ss Seq
ACAGTGAGT
5' ss Score
8.34
3' ss Seq
TCTCATCCTCCCTGCTCCAGAGA
3' ss Score
8.5
Exon sequences
Seq C1 exon
ATGATGGCAAAGGGAGGCATTGTTCGGGCAGGGACTCACGTTCTGCCTGTGACGCAGGGACACA
Seq A exon
GTGAGTACGGCATTATCTCCACAGCTCTGCTCCGTGCTGACCGCCTGACCTCAGGCCACATCGGGATGCTTCCAGAGGGGCTCTTTCTGCATCTACTCAGAGTGAAGAGGAAGCCGGGAGGGATGCAGGCTTCCTTTGTCATCCTTTATCAAATGGTTTCTTTTGTTCTATTATATTTTACTTGGGTTACTTCAAACATTGATAGGGCCACAATGATACGGTAGCTATTTCACGTTTTCCAGCCAGAAATATTTGTGCACTCTCTTCTCAACATGAAAGACATTTTAGAATTGTGTAAATGGAGAGGAGGAAGACCTTGGGGTGCTTTCTACTTACCAGGTTCTGTGATAAAGTCTCTCTCTCTCTCTCTCTCTCTCTGTGTGTGTGTGTTTGTGTGTTTCTCTTTTTAAGTTAATGACAATTTACAAAGGTTCTACTGGTTATTTCTACCATGGAATGGGACTCTGCCCTTGAATAACAGGATAATAGACATTTAAAGGTTTCCCCCCTTCTGACGGGTTCTAAAAACCAACTTACTAAGAAAGCTATGAATGGGCACTTCTTTATCTCTTGGTGCAGCAGACTTAAGAATGTTTAAAGCAAACACTACAGTGTCCACAGGCATCAAGGTGGGCTTCCACGGGAGTGTAAGTCTCCTCTTCCAGAGAAAAGGATAGAGCCATGTTTCAGGGAGGGTAAACAGGACACAAGTGTAAATGCAGTATATTAACCTCTTACTGTCAGGCCTCACAGCCTCCTCCCCCTCCCCTAATGTGAGGATTAGGAGTGATTGATGGTGAAGTCGACACCTCCACTCCCTTAGATAGCATTTGAAGCTAGTGTCAGCCAGCAAAAGCTCAAAAGGGATGAGGCAACATATATACGATTTATATAGGAGAGGGATTTTGTATAATTGTCTTCCCCAGAGTCAGAATTCTGCAAGATAGTGAAGCATCTGTTGTGTGCATTATGTTCACTAACAGCAGCAGTGATTGGCCAGGCTAGGTGCCCAAACACCTAGCCTGTGTAATAAAGTACCTCTTGTTTTCAAGAATGTGTCTAACCCGTGGTTGCCTCCTCTCATCCTCCCTGCTCCAG
Seq C2 exon
AGAAAGGCCATTTCTCCATCCTCATCTCGATGGAGACAGACCTGGCTCCTGTAGCTCGACTGGTCCTTTATACCATTCTGCCCAATGGAGAAGTGGTTGGAGATACTGTTAAATATGAGATTGAAAAGTGCCTGGCCAACAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000030111-A2m:NM_175628:13
Average complexity
IR-S
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:
PF077039=A2M_N_2=FE(14.1=100)
A:
NA
C2:
PF077039=A2M_N_2=FE(31.5=100)
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:
ATGATGGCAAAGGGAGGCA
R:
TTGTTGGCCAGGCACTTTTCA
Band lengths:
206-1304
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: