MmuINT0010410 @ mm10
Intron Retention
Gene
ENSMUSG00000015143 | Actn1
Description
actinin, alpha 1 [Source:MGI Symbol;Acc:MGI:2137706]
Coordinates
chr12:80176156-80177296:-
Coord C1 exon
chr12:80177188-80177296
Coord A exon
chr12:80176297-80177187
Coord C2 exon
chr12:80176156-80176296
Length
891 bp
Sequences
Splice sites
5' ss Seq
GAGGTAGGA
5' ss Score
8.24
3' ss Seq
ACCCCCCTTGATACTCTCAGCGA
3' ss Score
4.49
Exon sequences
Seq C1 exon
TGAGCTGGACTACTATGACTCGCCAAGTGTCAACGCTCGTTGCCAAAAGATCTGTGACCAGTGGGACAATCTAGGGGCTCTCACTCAGAAGCGGAGGGAAGCTTTAGAG
Seq A exon
GTAGGACCCTCCCCCTTGGTTCTTTGCCTTTATGAGTTCCCATGATTCCCTGCACCATCCCTAGCTCTTGACCTGTTGTTGGAATGACTCACTTTGACCAGAATGTGTGAGTGTAGATCTGTTGCTGGACTTTTTTTGGGCTACTTTGTGGGTACTTCTTTCTTCCACTCTTCTCTACCCCTCTTCTTCCACCTCTTCTACCCCCTAACACTAGGTAGGAGAGAAAAGGGATAGAGAGGAAAGGGGGTAATGTTACTGGTAGACCACTTCCTGCTATTTGGGGGCATTGAGCTCTTTGGGCCAAGTTTGATCTTCGCCTTCAAACCTTCATTAGGTTATCTAACTTCTTATTGTTTCTTCTTTGTACACAACTATTTTAACAAACCACAACAACCACTGACCTACAACGCCTCTCGGGGCCCTGGCATTTATATACCCTGTCAGAAGTCCCCAGAATTTCAAATGTCACACATCTGCAGAAACTATCTGCAGCTCACAAAATCACACCCCTGCTAGAACACGAAGGGAAATTGTAGCCAACTGCTGTGGACAACCTAGAGCAGCCCCGGGTCCACACCTGGGGTTGCAACAGGTGCATATTCTGTGTTTTTAAAGAAACCAGAATTCTCACCGCAGAGAATTTAGCTCATCTTGCAGCTCCAGCCCTCCAAGAGCTGTCCTACTCTGTAAACCAGACCCTCCTGGGGCCAGGACATGCGATTCTAGGGTGAGATGCCCTGTCAATTGACAACCAAGACTCAGAGCCACTCAAGAGCCGGTTCTTTCTGCCTCATCCAGTCCCAGTGCTCCTAGACCAAGATGCTGGGGTTGTTGGGATGCTGACTCTGGGTGTCACTCTGCTAAACATTCCACCCCCCTTGATACTCTCAG
Seq C2 exon
CGAACAGAGAAGCTGCTGGAAACCATCGACCAGCTCTACTTAGAGTACGCCAAGAGGGCTGCACCCTTCAACAATTGGATGGAGGGAGCCATGGAGGACCTGCAGGACACCTTCATCGTACATACCATCGAGGAGATCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000015143:ENSMUST00000021554:13
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (disopred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0043516=Spectrin=FE(34.0=100)
A:
NA
C2:
PF0043516=Spectrin=PD(0.1=0.0),PF0043516=Spectrin=PU(32.1=76.6)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCTGGACTACTATGACTCGCC
R:
CTGGATCTCCTCGATGGTATGT
Band lengths:
247-1138
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