MmuINT0151745 @ mm10
Intron Retention
Gene
ENSMUSG00000057738 | Sptan1
Description
spectrin alpha, non-erythrocytic 1 [Source:MGI Symbol;Acc:MGI:98386]
Coordinates
chr2:30030675-30031451:+
Coord C1 exon
chr2:30030675-30030822
Coord A exon
chr2:30030823-30030970
Coord C2 exon
chr2:30030971-30031451
Length
148 bp
Sequences
Splice sites
5' ss Seq
CAGGTAGGA
5' ss Score
9.79
3' ss Seq
CTGTACCATCTCTCCTCCAGAAC
3' ss Score
9.67
Exon sequences
Seq C1 exon
GGATGGCCACGTCTCCCTGCAAGAATACATGGCTTTCATGATCAGCCGCGAAACGGAGAATGTCAAGTCCAGTGAAGAGATCGAGAGTGCTTTCCGGGCCCTCAGCTCTGAGGGCAAGCCTTATGTGACCAAGGAGGAGCTCTACCAG
Seq A exon
GTAGGACTTGGGACTGGCACAGCTGATGCTGAAGGATGCACGGCATCAGAAGCCTGAGCCTGCTGGCAGAACTAGTATAGTGCAAGTCTTTACCTGTGGGCACTTGAGGTCAGCACTGGTTGACGTCACTGTACCATCTCTCCTCCAG
Seq C2 exon
AACCTGACCCGGGAACAAGCTGACTATTGTGTCTCCCACATGAAGCCCTATGTGGATGGCAAGGGCCGAGAACTTCCAACTGCCTTCGACTACGTCGAGTTCACCCGCTCACTCTTTGTGAATTGATCAATCCTCTTGGCTTGTAGGCAAGCCTGACCTACACTGCTTGCCCTGTTATCTCTATCTATCTATCACCTTTGCTGCATGTCACTTCCTCTGCTTTCAAGGAGAATATTCCAGACAGTGTTACTTTCCAGTGTAACCATAAGCCTGCTTAGCTTGGGGTAAGACTTAGTAGAAAATGGTGCTTCAATAAACCGCTTCCAGTCACAATCACCAATGTTGTGGGACCCAGACCCATGTTTGAGCCAGCTGCCCTCATTCCCACTTAAATCAAAGCAGCTGGCTCAGCTCCCTTGTTTCTCTTCCCAAATCCTGTTTTCATGTAAAAGAAAAATAAAGGACTCATTTCCCCTCTAAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000057738:ENSMUST00000113717:55
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.160 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF134991=EF-hand_7=PD(17.3=26.0),PF087265=EFhand_Ca_insen=PU(41.4=58.0)
A:
NA
C2:
PF087265=EFhand_Ca_insen=PD(55.7=92.9)
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:
GAGGGCAAGCCTTATGTGACC
R:
CAGAGGAAGTGACATGCAGCA
Band lengths:
258-406
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