MmuINT0023245 @ mm10
Intron Retention
Gene
ENSMUSG00000047228 | A2ml1
Description
alpha-2-macroglobulin like 1 [Source:MGI Symbol;Acc:MGI:3039594]
Coordinates
chr6:128560616-128561643:-
Coord C1 exon
chr6:128561473-128561643
Coord A exon
chr6:128560764-128561472
Coord C2 exon
chr6:128560616-128560763
Length
709 bp
Sequences
Splice sites
5' ss Seq
AGTGTAAGA
5' ss Score
4.57
3' ss Seq
TTTGTGTCTTTCTCTGAAAGAAC
3' ss Score
5.74
Exon sequences
Seq C1 exon
GTGTACTTCACACTCCCGTATATCCATCAATATGGCTATTTCTACAATGGCCTCAACTTGGATGATCAGCAAGCAGAACCATGCATTCCTCAGAAGGACTTATTCTACAATGGACTGTATTATACACCTACAGGCAATATTTGGGATGGAGACCTCTCTAATCTTCTCAGT
Seq A exon
GTAAGATCACAGATGAGTCTGTAAAACATTTCCTCTTGTAGCTGTAGTGGTCCTGCCCCTGTCTCTCTCACACTATAGAGTCTCTCAATACTGTGCTGACAAAGTATCTTTTAAAAAGAGATGTTCATCCTGTTGACTTTTTTTTCTTTTTGCTGAAAAGAAGTTGTATGGCTAGAATCATGGGAGTCTGATGAGATGGGATCCAATTTCTTGCAATATATCTTATGTGTCAATAGTTAAACCAAGAAAATAACTTACAGTCTATAGTCCACATGAAAGGAGGCTGCCAGCTACATGTGCTCAGGGGCCACGCAAGGGTCTTTATGATCAGAATCACTGTGGATGAAGAAGAGGACATTGAATTAGACAGGTTTAGTTCAAGTCCCAGTTTTGCTGATTAACGCATGTGCACTGTGTAGACATGCATGAGCTTGTGAGCATGCCTGTTTGCTGTTAACTAAGACAGCTGATTTCTTATACTCCCTTAAGCATAAATGGAAAAATGGAGATATTAGCACATTAATAATAATAATGATAATAATAATAATAATAATAATAGAAAGAGCGATTATTGGAGACTTGATTTCTGTGATCCTGAAACCTGGCTGCACAGAAAATATGCAGTTATTGTCTGGATGTTAGGATGGTAGACCTTTTATAATTCTCTCAAGAAAGCAAAGCATAATTTTTTTGTGTCTTTCTCTGAAAG
Seq C2 exon
AACATGGGTCTGAAAATCTTTACAAATCTCCATTACCGGAAACCGGAAGTGTGTTCATCCCAGGAAAACCAGCCCTTGCTGAGGACGTTCGATCACCCAAATGAACGGATAATGATGTACGGTGGTGGCGCCCCACCTTCTTCTGCCT
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000047228:ENSMUST00000060574:16
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=0.020
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
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGTACTTCACACTCCCGTATATCCA
R:
AGGCAGAAGAAGGTGGGGC
Band lengths:
318-1027
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