MmuINT0151741 @ mm9
Intron Retention
Gene
ENSMUSG00000057738 | Spna2
Description
spectrin alpha 2 [Source:MGI Symbol;Acc:MGI:98386]
Coordinates
chr2:29885140-29885716:+
Coord C1 exon
chr2:29885140-29885194
Coord A exon
chr2:29885195-29885519
Coord C2 exon
chr2:29885520-29885716
Length
325 bp
Sequences
Splice sites
5' ss Seq
AAAGTGAGT
5' ss Score
8.4
3' ss Seq
CATTTGTCCCACCCAATAAGCGC
3' ss Score
1.98
Exon sequences
Seq C1 exon
GTCCTGCATGGTGGAAGAGTCGGGAACTCTGGAATCTCAGCTTGAAGCTACCAAA
Seq A exon
GTGAGTGTCTCAAAGGGCTTTAGCCAGAGGCCACCAGCCCAGCAGCCACTCAGCCTGGAGCTGGTTAGGCCCTTTTTCCCTTGACTTAAAGTCTCTGCTGGCTGCTGTAACTGCACCCCACTCGAAGAGGCTGAGATGCCTTCTGTACACACTGCATCCTCATTCCTTGGCACCTCTGTCAGCTGCCTATGAAGGTTTTCCTACTTCCCATGCTTCCTTTCCTTGACTCTTTCAAGCCTGTGCGATCCCAGCTGGGTCCCGTGGCAGCATAGCCCCCTGAGCTATGGGGTCCCAGCCTCACACTGCATTTGTCCCACCCAATAAG
Seq C2 exon
CGCAAGCACCAGGAGATTCGAGCCATGAGAAGTCAGCTGAAGAAGATCGAGGACCTGGGGGCTGCCATGGAGGAAGCCCTCATCCTGGACAACAAGTACACGGAGCACAGCACTGTGGGCCTGGCCCAGCAGTGGGACCAGTTAGACCAGCTGGGCATGCGCATGCAGCACAACCTGGAGCAGCAGATCCAGGCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000057738-Spna2:NM_001076554:52
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.509 A=NA C2=0.293
Domain overlap (PFAM):
C1:
PF0043516=Spectrin=FE(17.0=100)
A:
NA
C2:
PF0043516=Spectrin=PD(56.6=90.9)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
Human
(hg38)
No conservation detected
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTCCTGCATGGTGGAAGAGTC
R:
TGGATCTGCTGCTCCAGGTT
Band lengths:
246-571
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: