MmuINT0006477 @ mm10
Intron Retention
Gene
ENSMUSG00000030111 | A2m
Description
alpha-2-macroglobulin [Source:MGI Symbol;Acc:MGI:2449119]
Coordinates
chr6:121660843-121661548:+
Coord C1 exon
chr6:121660843-121660969
Coord A exon
chr6:121660970-121661426
Coord C2 exon
chr6:121661427-121661548
Length
457 bp
Sequences
Splice sites
5' ss Seq
TAGGTGAGC
5' ss Score
7.96
3' ss Seq
GGCTTTTCTTTTTCTCCTAGGAA
3' ss Score
9.95
Exon sequences
Seq C1 exon
GTTGGTGTACAGCTGGAGGCCTCTCCTGATTTCCTAGCTACCCCAGAGGAGAAGGAACAAAAGTCTCACTGCATCTGTATGAACGAGCGGCATACCATGTCCTGGGCGGTGATCCCCAAGTCATTAG
Seq A exon
GTGAGCAGCAGAGTCCAGAGGCTCAGTCGGGCCCTTATAAGCAGGGCTTCTTCTCCCAGGTAAGGACCCCCAGGTGGTAGGATCACTTTTCTTTGACTTCCATTCCAGAATGGCAAGCACTACCAGGTTTACTGGTGCACACCTGCAGTTCAGTAGTTAGAAGGCTGAGACAAGGTCACTCAAGAGTTCAAGGCCTTGCCCACATAATCAAAGCTGCATCCCAAATAAAACAAAACACCAGCCACATCAAAAAGAAACCCTTTCTTGTAAGTTGAGGGCTCAAGGAAGCCTCACTTCCTTACCTCCACTTCTAGTGACACAGATCTCTAGTGGATGTGGCTTCCATTTCTGCTCCGGTGTTTTTATGAATCTATAGCCTTGTAAATTCCAAGTTTGCAAGCTTGCGGGAAGAGGGAATGTATACATCTCTTCTACCTGGCTTTTCTTTTTCTCCTAG
Seq C2 exon
GAAATGTGAATTTCACAGTGAGTGCAGAGGCACTGGACTCTAAGGAGCTGTGTAGGAATGAGGTGCCAGTGGTTCCTGAACGTGGAAAGAAAGACACGATCATCAAGTCCCTGCTGGTTGAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000030111:ENSMUST00000032203:20
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.039 A=NA C2=0.024
Domain overlap (PFAM):
C1:
PF0020717=A2M=PD(4.4=9.3)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal4)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTTGGTGTACAGCTGGAGGC
R:
CAACCAGCAGGGACTTGATGA
Band lengths:
247-704
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