MmuINT0023257 @ mm10
Intron Retention
Gene
ENSMUSG00000047228 | A2ml1
Description
alpha-2-macroglobulin like 1 [Source:MGI Symbol;Acc:MGI:3039594]
Coordinates
chr6:128547157-128548684:-
Coord C1 exon
chr6:128548604-128548684
Coord A exon
chr6:128547323-128548603
Coord C2 exon
chr6:128547157-128547322
Length
1281 bp
Sequences
Splice sites
5' ss Seq
AGCGTATGG
5' ss Score
1.88
3' ss Seq
TTTCCCCCAACCCCAACTAGTTT
3' ss Score
4.74
Exon sequences
Seq C1 exon
GGCCGTGAGGGTGACCAGGAAGATATTGCGCTCACTGCGTACGTCGTCGGGGTGTTCCTTGAAGTTGGACTCAATGCCAGC
Seq A exon
GTATGGATTCTCATCATCTCTGGCCTCCCTCTGCTGGATGCACCTTAGAGAGATCCTAGAATCAGGATGAAATCCTTAGACAGGATAAGATACCAGGACAACATTTAATTCATTACCATCCTTTAAACTGACGATGTTCAAAATTCTTTTGATTCACTGATACTTTTGATGGATAGAATTGAGGTCCCCACCAGGTTGGATACACTCTTGAGAAAACTCAGTTTTTCATATGATCTAGGCTATTTATACGTTCCCTGAAGTGCAGCCAGGAACTTCAGATTATGAACATCTGCTCTAGCAGGAATGATGGCACACACCAGTATTAGTGGTAATTCTGGTGTTCAGGACACCATGGCAAAAGGATCATGACATTTGAGGCCACTCTTGCCTATTATAGCCTGACCCAAACTCAAAAGCAACTCTCACTGAAGAAGAATGTCTGCTCTCATTAAAGTCATAGTCTAGATGTTTGTTTTCAAGTCACTAAAGCATTTTCAATATGGTTTCAACCCATGGCCTATCCATTTACCAAATCTGTTCCTAAAACAGAAACTATGTGTTTCCAGAGTCGTTAGTACACCTTCAAGTGCAAACCTCTATTTAAAGCATGAAAGTGAAACATTTTAGGTCTAAAAAACAATAATAACTATATGTGACCTGGGGAGTTAGGTCACTTACTAAAGTACTTACCTCACATGCACGAGGACCCAAGTTTGGTTCCTAGAACCCACGAACAAATGCAGGGAACGTGGAGGCACGTGCCTATCATCCTATTACTGAGGAAACAGGGAAAAGAGGATCTTGGGACTTGCTGGCCAGCAAGGCTAATAAAATTGGTGAGGCCCAGCTAAAGAGAGACATCTCAAATGAGGTAATCAGTGGTCTTTAGGTTGCCACCCAAATCTGTCCTCTGGCCACCATGACACATGCACACACACATGGCTATGCACACACATACACATATAATTATACATTTTGTGACATGAAAGAAGTTTATATTATATCTAAAAGATTGCTGATTTGATGGTAAAGCACTTTACTCCTTAAATTTTGTTTCCCCTTTCTAAAATAGTAGTCCAAATTTATGTTGTTTTAAGATTATAATGTGTGAATCTATATGATAGGTTTATTTGTAAAATCTATATATGGTAGATTTGGATGTGAAATGTGCTTCCAGGATATAGTATATATGTTATAAGAGAAGTTAGCTTAAGTATTCGGTAAACTCCTGAAATGTTGGGGTGTTACTTACAAGCATATCTTTCCCCCAACCCCAACTAG
Seq C2 exon
TTTCCTGCCCTCCGCAATGGTCTCTATTGCCTGGAAGAGGCATTTTCGAATGGTGTCACCAATGGCTACACGCAAGCTATTCTGGCTTATGTATTTGCATTAGCTGGGAAAGAACAGCAAGCGAAATCCTTACTCTCAATCCTGGACAAATCTGCTACAAAAACAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000047228:ENSMUST00000060574:27
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.111 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF076789=A2M_comp=FE(10.5=100)
A:
NA
C2:
PF076789=A2M_comp=FE(22.2=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGTGACCAGGAAGATATTGCGC
R:
TTGTTTTTGTAGCAGATTTGTCCAGG
Band lengths:
238-1519
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