MmuINT0023268 @ mm10
Intron Retention
Gene
ENSMUSG00000047228 | A2ml1
Description
alpha-2-macroglobulin like 1 [Source:MGI Symbol;Acc:MGI:3039594]
Coordinates
chr6:128576144-128578165:-
Coord C1 exon
chr6:128578145-128578165
Coord A exon
chr6:128576313-128578144
Coord C2 exon
chr6:128576144-128576312
Length
1832 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGA
5' ss Score
10.77
3' ss Seq
TCTTCATTCACTGTTTCAAGGAT
3' ss Score
6.96
Exon sequences
Seq C1 exon
TATCCCTTGATCACCGTTCAG
Seq A exon
GTAAGACATCTACTTCCATATCCAGTTAAAAAACATTCAGATGAGGATTGGGATGTTTCCAATCTTCAGTTTTATATAGCTGAAAATTAAGATGATTAAAACAACCAGAAAAGAAATCTGCATCTGAAGATGGTTAGAAGTATGATTAAAACATAATTTTGAAAACTCTGAAGATACCTAGGAATCCTGATTTCTAAGAAGAATGTGCTGAGATTTGAAAAGCAGAGGCTTGTCTGTTTTTCCCATTGTGTGTTATAATTGTAAATCATACCATTCTGCATCAAATCAAATGCTTTTGTTAGTTTCTCAATTAGATATCTTACACTTACCATTTAATTGGTTGTATTTACAGCTTACTTGTAAATAACAACAGATCTCAGCACCTGTAGTTTTGTCTCTGTATACAGTGTAGACTACCATTATTAGCTAATTCTAGGGGTATGGGATCTAGGCTCGTAATTCACAGTAAATGGGCAAACACAAGATACTCATAAACTTCCCGTTGTCCTGTCTACTATGTGGGTGCTTTGAGCTTTTCATTTGAGTAATGAACAGCTCATACTTAAAGTGCCAAGAAATTCAGGTTAGCAGTCTCACATTCTCTGCGTTACCCAATCATTTGTTTTCACACCTGACCCAGGTAACGCTGTGTTCTACTGAAAGAAACACAGTAAAATTTCACCCTTCACAAGTCACAGCATGTCCGTGTGGGCGCTCTGAACAGCACCAGTGCTACAAAGTGGGGTGTTTTAGCTTCAGTGTGTATAAAATCTGGCTCTTTTGGGAAGAATTTATTCTGCTCTGTGACATCCACTCGCACCTAAGCCAGCGTGGGGTCGGTCTCATGGGTGGCCTAATAGAACGGAGGTCCAGGATTTTCAGTTTTCTAAACATTATAGGAGAGGAAAACAAACAACCAAAACTTTTGAAATGTTAGTAACAATTTTGTTTCCTTACAGAATCTGTTAAACAAGATCATTTGAATCAAATCTTTTAAACATCTCTTTAACTAGAGTTTGGAAAGTGTAAAATATTTATTAAAGTGAACTTGGAAGAGGGGGGCAGCTGACTGAGAACAAATAAAGGTTGTGTTCTGACAGCTACGCCTACTTTTTAAAGAATCACAGAAATTCCACTTAGGTACTACTGCATAAGCCATGACCAACATAGAAAGGGACCATGTAGAAATCTGTGACAACAGCTTTTAACTAATTAAATAATGTATTGATTTAATTGCATCACACACCGGTGCATGATGTTTTGCCTGCCCGTATATATTTGCACCGTATGCATGCAGTGCCTGCAGAGACCAGAAGAGAGCGTCAGATCCCTTAGAACTGGAGTTACATATGGTTGTGAGCCACAACAAGGTGCAGAGAATAGAACCTACGTCTTCTAGAAAAGCGACAAGTGCTCTTAACCATCCAGCCATCTCTCTAGCCCCACGGCGACAATCATTTTAAATGTTTGTTAGAATGAGTGTTCTCTTATATGCTCACTGGTATGAGTCCACTCTGCTTTGGGGAGCACTATTCTGGACTAATTATGTTGAATTTTTAGTTCTTTGATTATACTACTCTGCTCTGGAAAGATAAAAACCAAAGGTATCAGTTATAAATTATTTTTCATATGAATATTAGTTTTAAGAAAAATATCGATTGAATTTGATTATGTTGCAGTAGTTATATTGTTTCAGTGATTGAGGTCATTAGTTAAGCATTAGAGTGGTTCACTCTTTACTTCCAGTAACTATGGAGAGCACCCAGGATAAAAAGAAAAGGGACATTTTCACCCACAACCTCTGACTGTCCTTCTTCATTCACTGTTTCAAG
Seq C2 exon
GATCCCCAAAGCAATGTGATTTTTCAGTGGATCAATGTGACCACTTTCAGAAACATTACCCAGCTCTCCTTCCAACTGACGCCGGAACCAATATTGGGGGATTACACAATCGTCATAAAAACACAATCGGGAACGACAGTGATGGATCATTTCACTGTTAACCGAGACG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000047228:ENSMUST00000060574:5
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=0.000
Domain overlap (PFAM):
C1:
PF0183514=A2M_N=FE(6.4=100)
A:
NA
C2:
PF0183514=A2M_N=PD(55.3=91.2)
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:
TATCCCTTGATCACCGTTCAG
R:
CGTCTCGGTTAACAGTGAAATGA
Band lengths:
190-2022
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