MmuINT0151733 @ mm10
Intron Retention
Gene
ENSMUSG00000057738 | Sptan1
Description
spectrin alpha, non-erythrocytic 1 [Source:MGI Symbol;Acc:MGI:98386]
Coordinates
chr2:30024902-30025598:+
Coord C1 exon
chr2:30024902-30025061
Coord A exon
chr2:30025062-30025521
Coord C2 exon
chr2:30025522-30025598
Length
460 bp
Sequences
Splice sites
5' ss Seq
TTGGTGAGT
5' ss Score
9.27
3' ss Seq
TTAGATGCTTTGTTTTGCAGGTG
3' ss Score
8.92
Exon sequences
Seq C1 exon
AACAATCACCATGAGGAGAACATCTCTTCAAAGATGAAGGGTCTGAATGGAAAGGTGTCTGATCTGGAGAAAGCAGCAGCTCAGAGGAAAGCAAAGCTGGATGAGAACTCAGCCTTCCTTCAGTTCAACTGGAAGGCTGACGTGGTAGAGTCCTGGATTG
Seq A exon
GTGAGTGGGTTCAGCAAACCCAAAGCTTTTAACTCTCATAGGCTAAGAAGAGGGGAGAGCACACAGTTGGATTTGTGCAATAGAGAAGAGACTGATAGCACATGGGCTCAGAGAGTGGCAGCAGGACAGGCCTAGCTGCTAAATACTAAAAGACATCCAGAAGTCAGAATTGCCACAGCAGTGCCTACGCCAAATTGGCATAAGGGTTCACCAAACAAGGGCCTGCAAACTTTTGACAGGAGCAAAACAAAGACCGAAGTACTAGTGGGCTCACCAAAGGGTCAGGTCACATGAGAACTGCTTGCCAGCTGTCCTGGCCAGTCAGGGTCCAGCTGCAGCAGGGTGGTGGGTGCAGGAAGTAGGCAGCTGGGTGAGTGCAAGGAAGCTGTCAGTAACTTATTCCATCTGCCATTTTGAGGGCTGTGAGGGGCTGGGACAGTTTAGATGCTTTGTTTTGCAG
Seq C2 exon
GTGAAAAGGAGAACAGCTTGAAAACAGATGACTATGGCCGAGATCTGTCTTCTGTCCAAACTCTGCTCACAAAACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000057738:ENSMUST00000113717:45
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.296 A=NA C2=0.038
Domain overlap (PFAM):
C1:
PF0043516=Spectrin=PD(32.4=63.0),PF0043516=Spectrin=PU(16.0=31.5)
A:
NA
C2:
PF0043516=Spectrin=FE(23.6=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:
ACAATCACCATGAGGAGAACATCT
R:
TGTGAGCAGAGTTTGGACAGA
Band lengths:
230-690
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