MmuINT0140970 @ mm9
Intron Retention
Gene
ENSMUSG00000026580 | Selp
Description
selectin, platelet [Source:MGI Symbol;Acc:MGI:98280]
Coordinates
chr1:166056358-166057435:+
Coord C1 exon
chr1:166056358-166056744
Coord A exon
chr1:166056745-166057327
Coord C2 exon
chr1:166057328-166057435
Length
583 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGA
5' ss Score
9.22
3' ss Seq
CCTTTCTCTCATCCACACAGCCT
3' ss Score
8.49
Exon sequences
Seq C1 exon
AGCTTGTAAATCAGAAGGAAGTGGCTGCGTGGACCTATAACTACAGCACAAAGGCATACTCATGGAATAACTCACGGGTGTTCTGTAGGAGGCACTTCACAGACTTAGTGGCCATCCAGAATAAGAATGAAATCGCTCACCTCAATGACGTCATCCCATTCTTCAACTCTTACTACTGGATTGGTATCCGAAAGATCAACAATAAGTGGACCTGGGTGGGAACAAATAAGACACTCACGGAGGAGGCTGAGAACTGGGCCGACAACGAGCCCAACAACAAGAAGAACAATCAGGACTGTGTGGAGATCTACATCAAGAGTAACTCGGCCCCTGGCAAGTGGAATGATGAACCCTGTTTTAAACGAAAGCGGGCCCTGTGCTACACAG
Seq A exon
GTGAGACCTCCCCCACCCCTCACCCCCCACCCCCCACCGCGAGCTGACACCATCTCTTCAAAACATGCCTTTCCTGGTTGAGGAGTGCACTCAGTCAGGAACATGGAATCACAAAGTTGGGCATAAGAAAGTGCAGAACTCTCAGAATTACTGAGCGCCTTGATCATCCTCCTTATTACTGGTGACACAGTGCTCAGGAAAGGTCACTTCTATGATGATCTTAGGACTGGGAACCAGTCTTCTAAATGTTACATTTAGAACTCCTCTGCATCACAATGCATTAACATAAGAAGATACAAAATGAAAGGAAATTCATTACTGTCCCTAAGAGACACCATTGTAACGAATACCTACCAGTACTGAATACCACTCACATCCCGGGTCACCTTATACAATTCTGTTTGTTGCTTGTTTATTTGGTGTTACTCACATTATCAGCCAGGGCCTTCCATTGCTCTTATCCTCGTGATGCCCTTCCTGGGACACAGGCTGTCTGATCCTCTACATGGCTCCTGCGAGGTTTGCATCTGTGTCTTGTTTCCTGTGAATGCCTGTGATTCTGACCTTTCTCTCATCCACACAG
Seq C2 exon
CCTCCTGCCAGGACATGTCCTGCAGCAACCAAGGGGAGTGCATCGAGACCATTGGGAGCTATACCTGCTCCTGCTACCCAGGCTTCTATGGGCCAGAGTGTGAATACG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026580-Selp:NM_011347:2
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.062 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0005916=Lectin_C=WD(100=86.2)
A:
NA
C2:
PF0000822=EGF=WD(100=81.1)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CGCTCACCTCAATGACGTCAT
R:
CACACTCTGGCCCATAGAAGC
Band lengths:
356-939
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types
Other AS DBs: