MmuINT0151697 @ mm10
Intron Retention
Gene
ENSMUSG00000057738 | Sptan1
Description
spectrin alpha, non-erythrocytic 1 [Source:MGI Symbol;Acc:MGI:98386]
Coordinates
chr2:29992637-29993690:+
Coord C1 exon
chr2:29992637-29992747
Coord A exon
chr2:29992748-29993612
Coord C2 exon
chr2:29993613-29993690
Length
865 bp
Sequences
Splice sites
5' ss Seq
ACAGTAAGA
5' ss Score
5.96
3' ss Seq
ACTCCTGCCTTCCTTTCTAGGCC
3' ss Score
12.59
Exon sequences
Seq C1 exon
GCATTCCTGCTAAATGAAGACTTGGGTGACTCCTTAGACAGTGTGGAAGCTCTTTTGAAGAAGCATGAGGACTTTGAAAAATCTCTCAGTGCCCAGGAAGAAAAAATCACA
Seq A exon
GTAAGATCCTTCTTGTCATGTCATCCACAGAGTAAACTGAGTCCCTTTCTCAGAGGCTTGGGAAGTTCATGCAGGGCACTGCCAGGATTATGTGAGACCTCACATTGACAACATTGCATCATCTTGCACTTGTAACACAGCTTTATGGAGCAGAATCAATTGCTTAATGCAAACCTAGATTAAGATGTACCTCTGACTTGACACTACCCTAGTAGAAAGGATAAGAAGGCTGTTGACTGACATCTAACACTCTTGAGTTCTCAGATAGTAGCAGGTCAGGTCTGTAGACTTGAGGGATGAACAGTCTTGCATTCTGTGAGACTCAAGCAGTCTTCCAGGCATATCCACTTAACAGTGATGTTCATGTCTGTGTAGCTCACTCTTGAGAACTGGATACTTTTCCCCCTCCCTCCAAAATCACAATAGAATCTCATACATTTTAAGTTTAGGGTTTTCATGTTACTCTAAATTCATGGCTGTCCTGGGGTGCATACAGCCCATGAGCCACAGGTTGGACATACCTGTAAATCTGTAGGTAAACATAATCAGCCACCTGGGCCCAGTAGTAAGTGTGTGTCACAGGGCAAGCCTGGACAGAGAGATTAGGGTGTTGGGTGTTTTTGCATGGCTTCATAGCACATGCCTTTAATCCCACACTTGGGAAGCAAACACAGGTAAATCTCTGCGTTCTAGACCAGCCTGGACTATAGAGCTATTTCCAGGACAGTCAGGGCTACACAGGGAAACCCTGTCTTGAAGAGAGATTGATTAAGAGAAATATTGAGAGAGAGATTGAAAGATTAGGATGTGTTCTCCATAGTCCAGGCTCTGTGCTCACAGTGACAACTCCTGCCTTCCTTTCTAG
Seq C2 exon
GCCCTTGATGAATTTGCAACCAAACTCATCCAAAATAACCACTACGCAATGGAAGATGTAGCGACTCGACGAGATGCT
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000057738:ENSMUST00000113717:12
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0043516=Spectrin=FE(34.3=100)
A:
NA
C2:
PF0043516=Spectrin=FE(23.8=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:
CCTGCTAAATGAAGACTTGGGTGA
R:
AGCATCTCGTCGAGTCGCTAC
Band lengths:
184-1049
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