MmuINT1003755 @ mm10
Intron Retention
Gene
ENSMUSG00000054808 | Actn4
Description
actinin alpha 4 [Source:MGI Symbol;Acc:MGI:1890773]
Coordinates
chr7:28895432-28896235:-
Coord C1 exon
chr7:28896089-28896235
Coord A exon
chr7:28895513-28896088
Coord C2 exon
chr7:28895432-28895512
Length
576 bp
Sequences
Splice sites
5' ss Seq
AAGGTAACC
5' ss Score
9.24
3' ss Seq
CCTTCGATGGCCCCCGGTAGGAC
3' ss Score
3.64
Exon sequences
Seq C1 exon
CATATCCGTGTGGGCTGGGAGCAGCTGCTCACGACCATTGCCCGCACCATCAATGAGGTGGAAAACCAGATCCTCACCCGAGATGCCAAGGGTATCAGCCAGGAGCAGATGCAGGAGTTCCGGGCATCCTTCAACCATTTTGACAAG
Seq A exon
GTAACCTCACCCTACCCTACCCCACCCCACTGGCATAGCATTGCCTTTTGTCTCCCTCATTGTATGTCCCTTCGTACCCTCTCCATCTGCACCCATCCATCCATCCATTCCATCCACTGTCCTCATGATGGGCAGGACCCCAGAGTACACACAAGGCCAGGTGGGCACAGGTTCCAGGACTCTCAGAGTTTTTAAAATTTGGATCTAGACTGGTAACCTCTTGAGAGGAATTCTGAGTGTTGAGTTTGATTGTCTCCAGATCTCCTTTCACCCAGTACCACAGCCACTCAACTTCTGTGAGTACCAGTGTGCAGCCTCTTACCCTGTCCTGTAAACACTGAAGACAGGGAAAGGTCCCCTCTATCTTTGAGCCCTGGACTTGGTCCTCCATGCTGCCCACTGGACCCCTACTGAGGCCATGAAGACCTCTCTGCCCCACCAGTCCCTGGCCACCACCTTGTCTGCATCGCCTCTAACTGTGTGTTTCCCTTCCCCCTGTGTCTTCCTCCCCTGTCCACTGCATGTGGCCCGGCCCCTGCATCACCCTGTACGCCTGCCTTCGATGGCCCCCGGTAG
Seq C2 exon
GACCATGGCGGGGCACTGGGGCCTGAGGAATTCAAGGCCTGCCTCATCAGCCTGGGCTATGACGTGGAGAATGACCGGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000054808:ENSMUST00000068045:18
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:
PF134051=EF-hand_6=PD(60.0=66.7),PF138331=EF-hand_8=PU(0.1=0.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ATATCCGTGTGGGCTGGGAG
R:
CGGTCATTCTCCACGTCATAGC
Band lengths:
223-799
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- 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