MmuINT0010415 @ mm10
Intron Retention
Gene
ENSMUSG00000015143 | Actn1
Description
actinin, alpha 1 [Source:MGI Symbol;Acc:MGI:2137706]
Coordinates
chr12:80170686-80171875:-
Coord C1 exon
chr12:80171729-80171875
Coord A exon
chr12:80170767-80171728
Coord C2 exon
chr12:80170686-80170766
Length
962 bp
Sequences
Splice sites
5' ss Seq
CGGGTGAGA
5' ss Score
7.62
3' ss Seq
CTGGCGCACCACGGCCCCAGGAT
3' ss Score
3.96
Exon sequences
Seq C1 exon
CATATCCGTGTGGGCTGGGAGCAGCTGCTCACCACCATTGCCAGGACCATCAATGAAGTGGAGAACCAGATCTTGACCCGGGATGCCAAAGGCATCAGCCAGGAACAGATGAACGAATTCCGCGCCTCTTTCAACCACTTTGACCGG
Seq A exon
GTGAGAGCCCCAGTTCTTGTTCACCTAGAGTGGCCTCCAACCCCCGACCCAGAGCCCTGGAGGGCATTGCCCAGGGCATAAGCCTGGTCCTTGGGTAGGTGAGGAGGAGGAGGAGGACAGAGAGGAAGAAACTGTGAACAGCCTGCCCTGACTCAGTATATCCCACAGAGCCAGGCTTTCTGAGCTGACCTTAGCAATCCCACTTTGCCCTGTAAACCTTCACAGCGTTCCTAGAAAGAATGGGTGAGGAGGGGAAAGCCCCTCTTCATTCTTGACTCTGTCTCCTGTGAGAAATTAACCCTTGGAAAAGATACTGCCAGAGCCACCAGTAAAGCTCTGTGCCTGTGGCTGTGGGGACTGTCCCTTACCTCTGCCTTGGGACAAAGGAACCAAAAGAGACTCTGCTCTTACCCAGGCTGCCTTTGGGACCTGTTGAGGACATTAGCGTCCACTATCCTGGGTTCTCGTGTCAGCTGCAGGATAGGCTGCCTTGTCAGTAGGCTGCACATTGCCAGTGCCCTAAGCTTGGGGACAGCCACAAGGGAGGTGGGCATGAGGTCAGGTGTTCTCCCCCACCCTGCCTGCTTCACTGCCCTCCAGGTACCTGGTGAGGTGGGGGGGTTCTGGGAGACATCAGGTCACCTGGGGCACTTCTGGGAGCTTCTCACCCTTGTGGCTCATCATGTTCCCCCTCTGGCCCTGCTTTCCCGAGCAGGACTGTGTTCCAGGGACAGGGCCCCCTTCTGGAGCCTTGTCTGTGTGTCTAACTGTGTGCATTTTTATTTCCCGTTTCCCCCACCCTTCCCCTCCACCCTCTCCATCCATCCGCATGCCTTTGTCCCCGTGTCTCCCCACACACACCACCTTCCACCCCGGGGCATGGCCCACCCTCCCCCACCCCCCTCACGGCCTCCTCTTCCCTGGCACCGCATGGCTCGCTGCCTGGCGCACCACGGCCCCAG
Seq C2 exon
GATCACTCCGGCACGTTGGGTCCCGAAGAGTTCAAAGCCTGCCTCATCAGCTTGGGTTATGATATTGGCAACGACCCCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000015143:ENSMUST00000021554:18
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=PD(20.2=42.9),PF134991=EF-hand_7=PU(31.3=53.1)
A:
NA
C2:
PF134991=EF-hand_7=FE(31.3=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:
ATATCCGTGTGGGCTGGGAG
R:
CTGGGGGTCGTTGCCAATATC
Band lengths:
227-1189
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