MmuINT0023258 @ mm10
Intron Retention
Gene
ENSMUSG00000047228 | A2ml1
Description
alpha-2-macroglobulin like 1 [Source:MGI Symbol;Acc:MGI:3039594]
Coordinates
chr6:128546249-128547322:-
Coord C1 exon
chr6:128547157-128547322
Coord A exon
chr6:128546461-128547156
Coord C2 exon
chr6:128546249-128546460
Length
696 bp
Sequences
Splice sites
5' ss Seq
CAAGTAAGT
5' ss Score
10.08
3' ss Seq
TTTTTACCCCACTTCCTCAGATA
3' ss Score
7.77
Exon sequences
Seq C1 exon
TTTCCTGCCCTCCGCAATGGTCTCTATTGCCTGGAAGAGGCATTTTCGAATGGTGTCACCAATGGCTACACGCAAGCTATTCTGGCTTATGTATTTGCATTAGCTGGGAAAGAACAGCAAGCGAAATCCTTACTCTCAATCCTGGACAAATCTGCTACAAAAACAA
Seq A exon
GTAAGTCTTATTACCAATTTGTCTCAGAGCCTACTGAGAGATTGGATTGAACCCTCCCTCCACCAAGCGCTTTGGCGTCTCTGGAACATGTCAGCATCTCTGTCGTCAAAGATTACCAGATGACTTAATTTCCCCCTTTCTGTTTTCCACCGATTTTTCTCAGTGCATGAAGGAAAGGAAATTAAGCATGCTGCAGACAATAATTACTTCTGAGACTACTTAACACCCTAAGGAGATGTCATATTTATTGCCCAGGGTCACCCATAAGAAAATACCACAGACTGGTTTACTTAAAACTCAGAATGCTTTTCTCTCTAGAGGGTAGAAGTGTAAGATCCTGATAGCAGGAAGTATGGGCTCTTTGCCTGAAGTGGATGGCTTCTTCCTCTGCCTTTATGTCTGCCCTCTGTGTGTGAACACTCTTGGCTCCCTTTTATTTGTCCATATTTCATCTTCTCATAATCACCATCCAATTGGATCATGTACCATCTTAGGAAACTCATTTTAACCTTATCCCCTCTTTAAAGGTCCTGAAAGCTGAGGCCAAAGCTTCAGTGCATGCATTTAAGATTCAGACCACAGCAGGAATCCAAAGAATAGAACCTGTCCCCTCTGAGTGGGTAACTTATAGGAGCTTGTTTTAAGGACTTGTGGAAACTCTTTGTATAGAGGCTGATTTTTACCCCACTTCCTCAG
Seq C2 exon
ATAATATGATATACTGGGAGAGAGATGAGAAACCCGAGACAGACAACTCTCCATCATTCATTCCTTCGGCACTTTCTGGTGAGACAGAGAAGACGTGCTATGTGCTGCTGGCTGTCCTTTCCCAGGACACTCAGGACCTTGATTATGCCAGCAAGATTGTGCAGTGGCTTGCCCAGCGGATGAACTCCCATGGAGGCTTCTCTGCCATGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000047228:ENSMUST00000060574:28
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=0.197
Domain overlap (PFAM):
C1:
PF076789=A2M_comp=FE(22.2=100)
A:
NA
C2:
PF076789=A2M_comp=FE(28.2=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:
CCGCAATGGTCTCTATTGCCT
R:
GAGTTCATCCGCTGGGCAAG
Band lengths:
342-1038
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