MmuINT0023266 @ mm10
Intron Retention
Gene
ENSMUSG00000047228 | A2ml1
Description
alpha-2-macroglobulin like 1 [Source:MGI Symbol;Acc:MGI:3039594]
Coordinates
chr6:128539827-128540349:-
Coord C1 exon
chr6:128540262-128540349
Coord A exon
chr6:128540020-128540261
Coord C2 exon
chr6:128539827-128540019
Length
242 bp
Sequences
Splice sites
5' ss Seq
AAAGTAAGG
5' ss Score
6.6
3' ss Seq
AACTATGCTTTAAATTGCAGGTA
3' ss Score
8.72
Exon sequences
Seq C1 exon
GTGAATATGCTTTTGATTCTTACAACATCAATAGCATTTCGGATTCCCAATAAAACAAAGAAGCGCACAGAAAAAAAGAAAAAAAAAA
Seq A exon
GTAAGGACATTTTACAGAAGCCATGCATACGACTCTTCAAGCCTCTCATGTTTTTCTTAATACCTTGGCAGGTTAAAAATATATATGTACATGCACTTATATATCAGCATGCATGCTATGTTTATAGAGCTCTGTGTGTGTGTGTGTGTGTGTGTGTGTGAGAGAGAGAGAGAGAGAGAGAAAGAGAGAGAGAGAGAGAGATACATGTGTATTTACTGTTTAAACTATGCTTTAAATTGCAG
Seq C2 exon
GTATGAGACTATTTCTTTGAATAAACTGTTCTCCTGGTCACCATCCTACCAAGAGCCTGATCAAGCACCTCCCATCCTGAAGACTCTCCCATCACAATGACTTCTTGTCAGCTTCACTTCCTTCCTTCCTTCTTTCCTTCCTTCCTTCCTTCCTTCCTTCCTTCCTTCCTTCCATTAAATGGCATCATTTTAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000047228:ENSMUST00000060574:35
Average complexity
IR
Mappability confidence:
NA
Protein Impact
3' UTR
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=NA
Domain overlap (PFAM):
C1:
PF076779=A2M_recep=PD(8.0=38.9)
A:
NA
C2:
NA
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCTTACAACATCAATAGCATTTCGGA
R:
CATTTAATGGAAGGAAGGAAGGAAGG
Band lengths:
252-494
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