MmuINT0151699 @ mm10
Intron Retention
Gene
ENSMUSG00000057738 | Sptan1
Description
spectrin alpha, non-erythrocytic 1 [Source:MGI Symbol;Acc:MGI:98386]
Coordinates
chr2:29993800-29994365:+
Coord C1 exon
chr2:29993800-29993955
Coord A exon
chr2:29993956-29994160
Coord C2 exon
chr2:29994161-29994365
Length
205 bp
Sequences
Splice sites
5' ss Seq
AAAGTAATA
5' ss Score
0.92
3' ss Seq
CTTCTTTTTTTGATTCGCAGGAT
3' ss Score
9.68
Exon sequences
Seq C1 exon
CTCCTGAGCCGCCGCAATGCCCTTCATGAGCGAGCCATGCATCGCCGGGCACAGCTGGCTGATTCCTTCCATCTGCAGCAGTTCTTCCGTGATTCTGATGAGCTCAAAAGTTGGGTCAACGAGAAGATGAAAACGGCCACCGATGAAGCTTATAAA
Seq A exon
GTAATAAAATCAGAGTTTCCTTTAGTAGTTGTGTAGTAAGCTAAACCTTGCAAAAACTACTTGGAGCTAAAAAAACAAAACCAAAAAACACAAAGAAGGTCACACAAACCACACTAGTTAGCGTAAATCTTCTGTTTTATGAGTGTGAAGTAGCTATATATATTCTCCAGTTCAGGCACAACCCTCTTCTTTTTTTGATTCGCAG
Seq C2 exon
GATCCATCCAACCTGCAAGGGAAAGTCCAAAAGCATCAGGCTTTTGAGGCTGAGCTTTCAGCAAACCAGAGCCGGATTGATGCCCTTGAGAAAGCTGGGCAGAAGCTAATAGATGTCAACCACTATGCCAAGGAAGAAGTAGCAGCTCGTATGAATGAGGTCATCAGTTTGTGGAAGAAACTTCTAGAGGCCACAGAACTGAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000057738:ENSMUST00000113717:14
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.135 A=NA C2=0.159
Domain overlap (PFAM):
C1:
PF0043516=Spectrin=PD(19.0=38.5),PF0043516=Spectrin=PU(27.9=55.8)
A:
NA
C2:
PF0043516=Spectrin=FE(65.4=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:
TTCATGAGCGAGCCATGCATC
R:
TGACCTCATTCATACGAGCTGC
Band lengths:
297-502
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