MmuINT0151743 @ mm10
Intron Retention
Gene
ENSMUSG00000057738 | Sptan1
Description
spectrin alpha, non-erythrocytic 1 [Source:MGI Symbol;Acc:MGI:98386]
Coordinates
chr2:30030317-30030598:+
Coord C1 exon
chr2:30030317-30030370
Coord A exon
chr2:30030371-30030451
Coord C2 exon
chr2:30030452-30030598
Length
81 bp
Sequences
Splice sites
5' ss Seq
CAAGTGAGT
5' ss Score
9.1
3' ss Seq
CCCTGGGCTATGTGCTGCAGACA
3' ss Score
5.07
Exon sequences
Seq C1 exon
GAACACAACAGGAGTGACTGAGGAGGCCCTCAAGGAATTCAGCATGATGTTCAA
Seq A exon
GTGAGTATGGCCCAGGTACCCTGGCTGAGGTTAGCTGGGTCACAAGGGACCATGTGCTGAGCCCTGGGCTATGTGCTGCAG
Seq C2 exon
ACACTTCGACAAGGACAAGTCTGGCCGGCTGAACCATCAGGAGTTCAAATCCTGTCTTCGCTCCCTGGGCTATGATCTGCCAATGGTTGAGGAAGGAGAGCCTGATCCTGAGTTTGAGGCAATTCTGGACACTGTTGATCCCAACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000057738:ENSMUST00000113717:53
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.263 A=NA C2=0.340
Domain overlap (PFAM):
C1:
PF134991=EF-hand_7=PU(16.0=63.2)
A:
NA
C2:
PF134991=EF-hand_7=FE(65.3=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AACAGGAGTGACTGAGGAGGC
R:
GCCTCAAACTCAGGATCAGGC
Band lengths:
168-249
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