MmuINT0006474 @ mm10
Intron Retention
Gene
ENSMUSG00000030111 | A2m
Description
alpha-2-macroglobulin [Source:MGI Symbol;Acc:MGI:2449119]
Coordinates
chr6:121659287-121660148:+
Coord C1 exon
chr6:121659287-121659413
Coord A exon
chr6:121659414-121659919
Coord C2 exon
chr6:121659920-121660148
Length
506 bp
Sequences
Splice sites
5' ss Seq
GGAGTAAGT
5' ss Score
8.57
3' ss Seq
TTACATCACACCCCCTGCAGCTC
3' ss Score
7.4
Exon sequences
Seq C1 exon
TACCAGCTGCATACCACCTTGTAAGCCAAGGCCACATGGATGCTTTTCTAGAGTCTTCAGAGTCTCCCACAGAGACTACACGAAGCTACTTCCCTGAGACGTGGATCTGGGACTTGGTGATCGTGGA
Seq A exon
GTAAGTTACTTATTTTTATATAAGATGCAGAGATATAGATGTATCACAGTTTGAACATCCACGAGTGTCCCCTTTTTAGTGTATATATTTAGAATTGCTGAGCGCAGCATTTCACTGTCACTGGGAAAGCATTACTAAGGTTGAGCAACGTAGAAGCCCCCTAGGTTAAATTGACTTCTAAGTACTTATTCTATTATGAATGGGATTGTTGTCTTTATTGCTTTTCCAGATAGCATGCTACTAGTATAAAAAATGCAAACATACTTTCATTTTTGCATCCAACAGCATCACTGAGTTCATTTATTAGTTCTAACAGTTCTTTAGAGTAACTTATGAGATTTACTTCATTTGGGATCAGATAATCTGTAAACAGGGATCATCTTAGTCGTTTCTAATTTGGATACTCTTGACTTCTTTTTCTAGTTTAATTATTTTTACAGGGCTTTCTCCTAAAGGAGATTGGTTTAGCTGCTCACTTCCTTTACTTTACATCACACCCCCTGCAG
Seq C2 exon
CTCAACAGGAGTGGCTGAAATGGAAGTGACAGTCCCTGACACCATCACTGAATGGAAGGCTGGGGCCTTCTGCCTGTCCAATGACACTGGGTTGGGCCTCTCTCCTGTGATCGATTTCCAAGCCTTCCAGCCCTTCTTCGTGGATCTCACAATGCCCTACTCCGTGATCCGTGGAGAGGCCTTCACGCTCAAGGCCACTGTGCTGAACTACCTCCAGACATGCATCCGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000030111:ENSMUST00000032203:18
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.047 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0020717=A2M=PU(9.9=20.9)
A:
NA
C2:
PF0020717=A2M=FE(83.5=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:
CCAGCTGCATACCACCTTGTA
R:
CCGGATGCATGTCTGGAGGTA
Band lengths:
354-860
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