MmuINT0023240 @ mm10
Intron Retention
Gene
ENSMUSG00000047228 | A2ml1
Description
alpha-2-macroglobulin like 1 [Source:MGI Symbol;Acc:MGI:3039594]
Coordinates
chr6:128568702-128570090:-
Coord C1 exon
chr6:128569932-128570090
Coord A exon
chr6:128568930-128569931
Coord C2 exon
chr6:128568702-128568929
Length
1002 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAGA
5' ss Score
10.57
3' ss Seq
CTTTGCTTCTGTCCTGCCAGGCC
3' ss Score
10.1
Exon sequences
Seq C1 exon
CTTAAATTTTCTGGTCCCAATAACACACCACTGGTGGACAAACTTTTGCAACTGGAACTCGACGGCAAACCTGTAGGAAATTACACCACAGATGAGAACGGGGAAGCTCGATTTTCCATTAACACTTCAGAGATATTCGGTGCACAGATTAGCTTGAAG
Seq A exon
GTAAGACATCCAAGGGCTGGCAGAGAATGTCGAGAATCCCACAGAGGCCCCAATGCTAGGGACTTGGAGCATAGAAGGCTCTTAGACAGTAGCTTTTTTTTTTTTCTGAGACTCGCTTGCCCATTCAGTACTCACTGAGAGCAGAGTTCAGAAAGCGAGATAGTAGCGCATGCCTTTAATCCCAGCACTTGGGAGGCAGAGGCAGGCGGATTTCTGAGTTCGAGGTCAGCCTGGTCTACAGAGTGAGTTCCAGGACAGCCAGGGCTACACAGAGAAACCCTGTCTCGAAAAACAAACAAACAAACAAAAACAAAACAGAAGGCGAGATGCTACCACTCTCTCACAGCGACTGCGGTGACCAGTATGTCTTCTGTGGAAGTGGAAGTAGCATGTAAGAAAATCTGGCCTTCTCCCTTACATCATCACCCTGTGCATACAGAGGGAGATGCCATGAGATTTGTTTTCTGAACCTTCTGCAGAAGTTTGCAGTTAAACAGTTTGTCATAGCTTGCATGCAAATACAGAACTTACATCTAATTCTCTGACTGTAATTAAAAGTGAAGATCCAAAGCACACCTGTAATTCTAACACTCAAGATGCTGAGACAGGAGGACCTTGAGTCACAGGTCACACTGGGATGCATAGCCAATCGTCCCCAGCACACACATGCAAAGTAAAAACAAACATAGCAAGTCACTGTCAGTCCAGTGGGACAGTCACATAACCATGGCCATTATTTATATATAAGAAAGAGAGAATTGTATTATTATCTCGCTTTGTACAGATCAGTTCTCTCCTTCCCACCACCATGGTCCCAAGAATAAAACTTGGATGGCGAGGCTTGGTGGCAAGTGCCCTCACATGTCACCAGCCTCCACAATAACAGCTGTGAGCGAGGTTCCTTCCTGGTTGGGCGAGACGACAACCCTTGTGTCCAGTAGCATTCCCTATCTTAGAGATGTCCATTGTTCTAAAGCCTTTCCTTTGCTTCTGTCCTGCCAG
Seq C2 exon
GCCGTCTACGTCCGACCTAGAAGCTGCCATCGTTCCAGCTGGCTGTCCCCTGAGTATTTGGACGCTTACTTCTCGGCCTCGCGCTTTTACTCCCAGACCAGCAGCTTCACGAAGATCATTCTCGAGCCCAAGCAGCTTCCGTGCGATCAAGAGAAGATGTTCTCAGTACTTTACTCCCTAAACCCCGAGGCCTACAAGGAGGCCTCAGATGTGACCTTCTTCTATTTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000047228:ENSMUST00000060574:11
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.019 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF077039=A2M_N_2=PU(26.5=51.3)
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:
GGTCCCAATAACACACCACTGG
R:
ATCTGAGGCCTCCTTGTAGGC
Band lengths:
357-1359
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