MmuINT0151719 @ mm10
Intron Retention
Gene
ENSMUSG00000057738 | Sptan1
Description
spectrin alpha, non-erythrocytic 1 [Source:MGI Symbol;Acc:MGI:98386]
Coordinates
chr2:30010910-30011332:+
Coord C1 exon
chr2:30010910-30011107
Coord A exon
chr2:30011108-30011185
Coord C2 exon
chr2:30011186-30011332
Length
78 bp
Sequences
Splice sites
5' ss Seq
CAGGTATGT
5' ss Score
9.8
3' ss Seq
CCTACTTGTCCACTCTGTAGCTG
3' ss Score
5.28
Exon sequences
Seq C1 exon
GAACACCGGACAGAAATTGATGCCAGGGCTGGCACTTTCCAGGCATTTGAGCAGTTTGGGCAGCAGCTGTTAGCTCACGGGCACTATGCCAGCCCGGAGATCAAAGAGAAACTTGATATTCTTGACCAGGAGCGCACAGACCTGGAGAAGGCCTGGGTCCAGCGCAGGATGATGCTGGACCACTGCCTGGAGTTGCAG
Seq A exon
GTATGTACACTATGTCTCATCAGGTATTTTCTTACAAGTGGCCAACTCCTCCTTCACACCTACTTGTCCACTCTGTAG
Seq C2 exon
CTGTTCCATCGGGACTGTGAACAAGCAGAAAACTGGATGGCTGCCCGGGAGGCCTTCCTAAACACAGAAGACAAAGGAGACTCGCTGGACAGTGTGGAGGCACTGATCAAAAAACATGAAGACTTTGACAAAGCTATCAATGTCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000057738:ENSMUST00000113717:32
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.061 A=NA C2=0.020
Domain overlap (PFAM):
C1:
PF0043516=Spectrin=PD(57.1=90.9),PF0043516=Spectrin=PU(2.9=4.5)
A:
NA
C2:
PF0043516=Spectrin=FE(45.7=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:
CATTTGAGCAGTTTGGGCAGC
R:
TGCTTGTTCACAGTCCCGATG
Band lengths:
182-260
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