MmuINT0023239 @ mm10
Intron Retention
Gene
ENSMUSG00000047228 | A2ml1
Description
alpha-2-macroglobulin like 1 [Source:MGI Symbol;Acc:MGI:3039594]
Coordinates
chr6:128569932-128570541:-
Coord C1 exon
chr6:128570432-128570541
Coord A exon
chr6:128570091-128570431
Coord C2 exon
chr6:128569932-128570090
Length
341 bp
Sequences
Splice sites
5' ss Seq
ACTGTAGGT
5' ss Score
4.15
3' ss Seq
ACGCTTCTGCTTTTGCACAGCTT
3' ss Score
6.73
Exon sequences
Seq C1 exon
GTGTGCAGATGAGTAAAACACACTCGGTTTTTATCACTTCCGTGCTTGGCACTGTCAGCTTCGAGAACATGGACCCTTTCTACAGGAGAGGGATCACTTATTTTGGAACT
Seq A exon
GTAGGTTTGCCTGGTACTTTCCAAGGAACTTCTTTGGGTTTTTTTTTTTCTCTGTTCACAAATTATCCCTTGAAAATTTCCAGACACTTTGATTGTAGGCTTATAATCCATCTCTAATATTACTATGTCTGCTATGCTTGGAAAGTTCCAGGGCTAAAAGAAACCGATGTATTAAAACAGCAGCTTCTGCTCTATGTGTAAGCACATACGCCCGAGCAGTAGAATGGATATTTCTATTCACCGAGATTTCTGTTAAGTGACCGCTGTCATGGATGAAAATTTCCTTGTAGAAATGTGGAGTTTCGTGTCCTAAGAATATTAACGCTTCTGCTTTTGCACAG
Seq C2 exon
CTTAAATTTTCTGGTCCCAATAACACACCACTGGTGGACAAACTTTTGCAACTGGAACTCGACGGCAAACCTGTAGGAAATTACACCACAGATGAGAACGGGGAAGCTCGATTTTCCATTAACACTTCAGAGATATTCGGTGCACAGATTAGCTTGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000047228:ENSMUST00000060574:10
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=0.019
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
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:
GCAGATGAGTAAAACACACTCGG
R:
TCAAGCTAATCTGTGCACCGA
Band lengths:
263-604
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