MmuINT0151706 @ mm10
Intron Retention
Gene
ENSMUSG00000057738 | Sptan1
Description
spectrin alpha, non-erythrocytic 1 [Source:MGI Symbol;Acc:MGI:98386]
Coordinates
chr2:29998156-29999260:+
Coord C1 exon
chr2:29998156-29998248
Coord A exon
chr2:29998249-29999125
Coord C2 exon
chr2:29999126-29999260
Length
877 bp
Sequences
Splice sites
5' ss Seq
CGGGTATGG
5' ss Score
8.17
3' ss Seq
TCTTTCCTTTGGATCATTAGCAA
3' ss Score
2.92
Exon sequences
Seq C1 exon
GCTCTACTCAAGAAGCATGAAGCTTTGATGTCCGATCTCAGCGCCTATGGCAGCAGCATCCAGGCTCTGCGAGAACAGGCCCAGTCATGCCGG
Seq A exon
GTATGGGTGCTCCTGGGGTTCTAAAGTACTGAGGGCAGGGCACGTATGTGCTGAGGAAACTGAGGGTAGGCAACACTCTTTGGATTTGGGTTTGTTTCTTTGTGTCTCACAGTGTAAATGAGGCTGGCCACCTCCCTCTACTTAGTTCAAGCACTGGAATGCTGGGATTAAAGTTGCATGCCATCTTAGGTGCTATGGGCAACATTCTTCTCAGGCACATTAAATTGTTTCTGTTTGACTAAATCCCCTCCTTTTGATATTCTAATAACGGGTTCTCACTTTGTAGTCCAAGCAGGTCTCAAACTAATTAACTTTCTTTTGGCTTCTCAAGTGCTTGATTTATAAGCATGAGCCACTATACCTGAATTATTGAATGACATATTTGCTCAACAGCTTAAACAAATACTTTCTTTTTTGTAGCTTCACTAAAGAGCTCTCAAGCAGTTGGGTGTAGTAGTGCAAGCATCTAATTCCAGCAGCAGACATTTAATTCCAGCACTCATTTAATTCCTCAGGAAGCAGAGACGGATGGATCCCAAGGCCAGCCTGGTGTATATAGTTCCAACTACTGAAACAGGATTGGCTCTTTACAAAGTTCTTTTTAAGCTCTTGGGCCATAGCTGGCTGGTGACGAAACACACTTTCAGTCCCAGCACTTGGGAGACAGAAGCAGGAAGATCTCTGTGAGTTCCAGGCTACAGAGCAAGTTCCAGGGCAGCCAGGCTACACAGAGAAACCCTGTCTTTAAAAATCAAAAGAAAGAGAAAAAAAGGACCCTTATAAGTGTGTATTTGGTAACACCTGTCGAAAGTTGGACTGTTGTATGCTTGAGTGACACATGGCATTTAATCATTTTGTCTTTCCTTTGGATCATTAG
Seq C2 exon
CAACAAGTGGCCCCCATGGATGATGAGACTGGGAAGGAGCTAGTCTTGGCTCTCTATGACTATCAAGAGAAGAGTCCTCGTGAGGTCACCATGAAGAAAGGGGATATCCTCACCTTGCTCAACAGCACAAACAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000057738:ENSMUST00000113717:20
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.165 A=NA C2=0.167
Domain overlap (PFAM):
C1:
PF0043516=Spectrin=FE(35.7=100)
A:
NA
C2:
PF0043516=Spectrin=PD(17.9=33.3),PF0001823=SH3_1=PU(63.0=64.4)
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:
GCTCTACTCAAGAAGCATGAAGC
R:
GCTGTTGAGCAAGGTGAGGAT
Band lengths:
219-1096
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