MmuINT0010409 @ mm9
Intron Retention
Gene
ENSMUSG00000015143 | Actn1
Description
actinin, alpha 1 [Source:MGI Symbol;Acc:MGI:2137706]
Coordinates
chr12:81278175-81279439:-
Coord C1 exon
chr12:81279289-81279439
Coord A exon
chr12:81278284-81279288
Coord C2 exon
chr12:81278175-81278283
Length
1005 bp
Sequences
Splice sites
5' ss Seq
TAAGTACGC
5' ss Score
3.13
3' ss Seq
TGTCTCATCCCACTCCACAGTGA
3' ss Score
6.92
Exon sequences
Seq C1 exon
GCAAAGAAGCCATGCTTCGGCAGAAGGATTATGAGACAGCCACCCTGTCCGAGATCAAGGCCTTGCTCAAGAAGCACGAGGCTTTTGAGAGTGATCTGGCTGCCCACCAGGACCGCGTGGAGCAGATTGCGGCCATTGCCCAGGAGCTTAA
Seq A exon
GTACGCCCGCTCTGACCTCTCTCCCTTTGGTGCCCCAGCATGAGGCTGAGATCTGCTTTCTCAGCTGTTGTGGATGAGGGTGGGAAATCAGGGAATGCGCAGACAGATGGTGCTGGGGGGTGGGGTGTAGAGTTGTGCCCATGTGGGAAGGAGGCAATACGGAAGGCAGGGCCCCTTCCTGGTGAGAGAGAGCACCAGCCATTTCATTCTTGTGCAGACATTTGGTTATCACCTACTACCGGAGCAAGACCAAAGGGTGCCCACACCCTATTTTATTTGATTTTTGCCTGTTAATTAATAGTTTTTGGTTTGCAAAAAATTAATGGGGTTTGGTTACCACATTTTTTTACTTTTTGCTTTGTTTTTAAATTTTGTGTGTGTGTGTGGGGGGGGTGTTATATGCATGCCATGATGCAATGGTGGTCAGAGGACAACTTGAAAGAGTGGTTCCTTCTCTCTGTTTACTGTGAGCTCCAGGGCATCACTCAGGTCTTCAGGCTTGCACACACGTGTGCCTTTTCTTGGCAGCCCAGATTTTGTATTTTGGTTTTCTCTTGAGACAGGGTTCAAACTGTAGCCTAGGTTGGCCTAGAACTCAATGTGTAGCTCAGGGTAGCCTCAAACATGCGACAATCCTCCTGTCTCGGCCTCTCAGGAGAGTGCTAAGATGACAGACATGAGTCACCATGCCCAGCTCCCAAGCCTTGGTCCATGGTTCTGAACTTTTCTTTTGGAACCTCAGCAGTTTCCTGTCATTGGTCGTTAGAGTCACCGTCAACTTTGGTTGGAGCAGGGACTGTTGGGGAGGGGCAGCCACCGTCCCTGCTTCCAGTAGAGGCAGGGATGGGAGGGTGCAAATGGTGTGTGGAGGAGAGCACTTTCAGTTCCCCCAGCACTGTTAGTGCTCCTAACATGCCCAGGAACAGGAACAACAGTCCCCCACAGCTCTCTAGTTGCCCACCTGTGTCACTGTCACTTAACCCTTTGTCTCATCCCACTCCACAG
Seq C2 exon
TGAGCTGGACTACTATGACTCGCCAAGTGTCAACGCTCGTTGCCAAAAGATCTGTGACCAGTGGGACAATCTAGGGGCTCTCACTCAGAAGCGGAGGGAAGCTTTAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000015143-Actn1:NM_134156:12
Average complexity
IR-S
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:
PF0043516=Spectrin=FE(47.2=100)
A:
NA
C2:
PF0043516=Spectrin=FE(34.0=100)
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:
GGCAGAAGGATTATGAGACAGCC
R:
AAAGCTTCCCTCCGCTTCTGA
Band lengths:
238-1243
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types
Other AS DBs: