MmuINT0010467 @ mm9
Intron Retention
Gene
ENSMUSG00000054808 | Actn4
Description
actinin alpha 4 [Source:MGI Symbol;Acc:MGI:1890773]
Coordinates
chr7:29689560-29690474:-
Coord C1 exon
chr7:29690244-29690474
Coord A exon
chr7:29689708-29690243
Coord C2 exon
chr7:29689560-29689707
Length
536 bp
Sequences
Splice sites
5' ss Seq
TCCGTGAGT
5' ss Score
8.93
3' ss Seq
TGCTCTCTCCTACCCCACAGGAC
3' ss Score
11.38
Exon sequences
Seq C1 exon
CTTCTAGAGTGGATTCGGCGCACCATCCCCTGGCTGGAGGACCGGGTGCCTCAGAAGACCATCCAGGAAATGCAGCAGAAGCTGGAGGACTTCCGAGACTATAGGCGTGTGCACAAGCCGCCCAAGGTGCAGGAGAAGTGTCAGCTGGAGATCAACTTCAACACACTGCAGACCAAGCTGCGGCTCAGCAACCGGCCTGCCTTCATGCCCTCCGAGGGCAGGATGGTCTCC
Seq A exon
GTGAGTTGACTGCCACCCACAGTTTGGGACCCACAGTAGGGCATAAAGCTTGGCTGCCATCGTTGTAAATCAGCCTTTGGGGCAGGGATGGTGATGAGTGCTTCACATTTCCTGACTATTTCTTCTGAGGTTTTACACTCAAAATTCTCTGCACCACTACCCAGCCATACCACAGTTTGTGTGGACCATTTGAATAGTACTCCAGGCTAACAAGACACCTTTCAAGGTCTACTCAGCAGCGTCCATCCATTGATTTGCCCACCTGCCCACTCACACTGAGATTCATTCAGTTAGCCCAAAACTATCAATGCAAAGGATCCGAGTTGAGTCCCCAGGATCCATGTCAGGCAGCTCACAACCACCTGTAACTCCTGTCCCGGGGGGATTAAGAGCCATTTTCTGGCCCCTGTAGATACCCACACACATCTCTCTCACACACACACACACACACGTCACACACACACACATCACACACACACAGAGGCAGGCTTCTTCACCAGCATCCTGTGAGACCTCTGCTCTCTCCTACCCCACAG
Seq C2 exon
GACATCAACAATGGATGGCAGCACCTGGAGCAGGCTGAGAAGGGCTATGAAGAATGGCTGCTGAATGAAATCCGTAGGCTGGAACGGCTTGACCACCTGGCAGAGAAGTTCCGGCAGAAGGCTTCCATCCACGAGGCCTGGACTGATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000054808-Actn4:NM_021895:10
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.065 A=NA C2=0.020
Domain overlap (PFAM):
C1:
PF0043516=Spectrin=FE(68.5=100)
A:
NA
C2:
PF0043516=Spectrin=PD(18.9=42.0),PF0043516=Spectrin=PU(17.0=36.0)
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:
CTTCTAGAGTGGATTCGGCGC
R:
CTTCTGCCGGAACTTCTCTGC
Band lengths:
351-887
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: