MmuINT0010436 @ mm10
Intron Retention
Gene
ENSMUSG00000052374 | Actn2
Description
actinin alpha 2 [Source:MGI Symbol;Acc:MGI:109192]
Coordinates
chr13:12270778-12272764:-
Coord C1 exon
chr13:12272699-12272764
Coord A exon
chr13:12270937-12272698
Coord C2 exon
chr13:12270778-12270936
Length
1762 bp
Sequences
Splice sites
5' ss Seq
TTGGTAAGA
5' ss Score
8.85
3' ss Seq
CTGTCTCTGTACCTCCTCAGGGT
3' ss Score
10.02
Exon sequences
Seq C1 exon
AGGAAGAACGGCCTGATGGATCATGAGGATTTCAGAGCCTGCCTCATTTCCATGGGCTATGACTTG
Seq A exon
GTAAGACACAGCCGAACTTCTGCAAAGGTCTGGTACCATACCAAGCCTCGAGTGTGGGGAATCTAGATGTGACACTTTCCTAATTGGTTCATTTTCCTATCACAGGGCAATGCTTTTTGAAAATCTGCTTATTACTATATAAAAATAATGCTACAGGGTTAAAAATGTATTTTATTCAGTACCTGGTAAGGTTTCCTTATGGTGAAAACATTAAGGACATGGGATCTCCTGGTGGTTTTTAGAAGCTGCATTGACATAGCTCACGTATTTCAGTGAAACAACTTAAAATGTTCACGTCAATGACATCTAGTTGCCTGCGTTTTAAAGTGTGTTTTCCCTTGTTATTTTAAAGGATAGAAGAGAGATTTTAATGGCTGGGGATGATAGTGCAAGATTTTAATCTCACCTCTTGGGAGGCAAAGACAGGCAGATCTTTATGAGTTCCAGGACAGCCAGAGCTATATTGGGAAGTCTCTGTTTCAAAAATACAATCAAGAGGGAAGGAGAGAGGGATTGGGGAGGGGGGAAGGGGGAGGGAGGGAGGGGGGAGGTGAGGGAGGAGGAGGGAGGGGAAGAGAGGAGAGGGAGGGAGAGGGGGGGAGGAAAGGGAGGGAGGGGGAAGGGAAGGGAGGGGAGGGGGAAGGGAGAACAGGGAGAGGAGAGGGAGGGGGGAGGGAGGGGAAGGAGGAGAGGGGGAAGGGAAGGAGGGGAGGGGGAAGGGAGGGAAGGGAGAGGAGGGGAGGGGGAAGGGAAGGAGGGGAGGGAGGGTAAGGGAGGGAGGGAGGGAGGACAGATTATAGAAATGTACTGCATTACCCTTTGATGATTACATATTTATCTATTTTCGAAACTATCTTGTTAGATAGCCCAGGGTGGCCTTGAACTTACTGAGATCCTCCTGCCTCTGCCTCTAACCTGAGGCTTAGAGTCCTAGCAGTGTAAGAATAAATCAAATATATAAATTCATAGAACAAGCCAGAATAGCAGGTGACATATTCCTGTAGTCCCAACACTCAGGGTATCTTGAGTGGCCCAGCTGGGAACTCACTGTGTACTCCAGGCTAGCCTCAAACGTGCCATCCTGTCTGTTCAACTTCCTAAATACTAGAACTACAGGTTTGCACCTTGCTTATATATAAAGCACTGGGCTTTTTTTTTCTTAAAGCTTTTTTTGTTTGTTTGTTTGTTTTTCAGTACTGGGGATGTACTAGTCAATTGCTTTAATACTGAGCTGTACTCCCAGTCTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTGGTTTTCCGAGACAGGGTTTCTCTGTGTAGCCCTGGCTGTCCTGGAACTCACTCTGTAGACCAGGCTGGCCTCGAACTCAGAAATCCGCCTGCCTCTGCCTCCCGAGTGCTGGGATTAAAGGCGTGTGCCACCACGCCCGGCGTACTCCCAGTCTTTATTGAGCATTTAAAATACAACTGCGTTGATTCCTCTGGTAATAAACTGAATAATGAGCACCATCTTACATAGCAATTCCACTTTCCAACTTTGGCTGAGTTACTCCTCCTAATTATGTAATTAGGACTGGCAACATGGGGTACACAAGGGACACACTTCTGATGGGCAGGGGCCTCTGGCTCGATGCTGCAACCACATTTAAAACTGCCGGAAATGGACCTGAGTCACCCACGTGAGGACGCCTTTGCAGAGAGTGAAGAGAACAGCATGGAGGATCCATGACGACGTCAAACCCTGACGCACACACTGTCTCTGTACCTCCTCAG
Seq C2 exon
GGTGAAGCTGAATTTGCCCGCATTATGACTTTGGTTGACCCCAACGGACAAGGCACGGTCACCTTCCAGTCCTTCATTGACTTCATGACTAGAGAGACCGCAGACACCGACACGGCAGAGCAGGTCATCGCCTCCTTCCGGATTCTGGCTTCTGATAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000052374:ENSMUST00000064204:19
Average complexity
IR
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:
PF138331=EF-hand_8=FE(32.3=100)
A:
NA
C2:
PF138331=EF-hand_8=PD(47.7=58.5),PF087265=EFhand_Ca_insen=PU(26.9=34.0)
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:
AGGAAGAACGGCCTGATGGAT
R:
ATCAGAAGCCAGAATCCGGAA
Band lengths:
222-1984
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