MmuINT0151737 @ mm10
Intron Retention
Gene
ENSMUSG00000057738 | Sptan1
Description
spectrin alpha, non-erythrocytic 1 [Source:MGI Symbol;Acc:MGI:98386]
Coordinates
chr2:30027019-30027648:+
Coord C1 exon
chr2:30027019-30027131
Coord A exon
chr2:30027132-30027630
Coord C2 exon
chr2:30027631-30027648
Length
499 bp
Sequences
Splice sites
5' ss Seq
AAGGTGCTT
5' ss Score
4.72
3' ss Seq
GGACACTTGGATCTCCATAGAAC
3' ss Score
4.42
Exon sequences
Seq C1 exon
GAACGAGAACTGGAGCTGCAGAAGGAACAGCGGCGGCAGGAGGAGAATGACAAGCTGCGCCAAGAATTTGCCCAGCATGCCAACGCCTTCCACCAGTGGATCCAGGAAACAAG
Seq A exon
GTGCTTGCCCTCTAGAGCTAGCCAGGGACTGTGGTGCTCCTGGCAGCTGGATGCCAAGCCTCCAGCTCTGGGACACAGGGAGCTTGTTTGAAACCTGGTCCCTAGCCAGGCATCTGGCTACAGTTTGGCATCTGTAATTCCACAATCCAGGAGGATGGCTGTGAACTAGAGTCCAACTTGGTTCATATTTATTTGTGCCATTTGAGGCCATAGCAAAACCCTGTTTCCTCAGAAAAAATGGGGTGGTGGGGAGGACTGCTTAGACTAAGACTATCATAGTCTGATTGGTTTCCAGAGCAATAGCAATAGCGGGCTCTGCATGGTTCATTGCCCCAAAGACGATGTTGGCAACTGTCCCAAGGGAGGTAGACCAGTCACACCTGGCACACAGGCTCGGGCAGAAGAGTGCTAATGTTCTGTATTTTCTTCTTTCTACATCATCCTGATTGCTGCTGTATGTGGATACTACCACGGCTCCTGGACACTTGGATCTCCATAG
Seq C2 exon
AACGTATCTCCTCGACGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000057738:ENSMUST00000113717:49
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.441 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0043516=Spectrin=PD(6.7=18.4),PF0043516=Spectrin=PU(18.9=52.6)
A:
NA
C2:
PF0043516=Spectrin=FE(5.7=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:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
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