MmuINT0140977 @ mm9
Intron Retention
Gene
ENSMUSG00000026580 | Selp
Description
selectin, platelet [Source:MGI Symbol;Acc:MGI:98280]
Coordinates
chr1:166071483-166073014:+
Coord C1 exon
chr1:166071483-166071668
Coord A exon
chr1:166071669-166072804
Coord C2 exon
chr1:166072805-166073014
Length
1136 bp
Sequences
Splice sites
5' ss Seq
AAGGTAACG
5' ss Score
10.19
3' ss Seq
AAATATGATTCTCGTGACAGGCA
3' ss Score
5.65
Exon sequences
Seq C1 exon
CCATCAAGTGTCCAGGAATCTTCGCCCCAGAGCAAGGCAACCTGGATTGTTCTCATGTCCACGGAGAGTTTGGTGTTGGCTCTATCTGTCACTTCTCCTGCAATGAGGACTTTGAGCTACTGGGATCTGAAAATGTGGAATGCACAGTGTCTGGAAGATGGTCAGCACCTCCGCCAACCTGCAAAG
Seq A exon
GTAACGACATGCCAGGGCTTGGAGGTGTTTTTCCCTGATGCTAACAGAAAGCTCTTTTATGTGGCAAGTACACATTACACTATTCACGCAGTCAACACGGTTGTGGGATTTAGGACCCTCGAAGATGTGACAGAACTTTTCTGCTCAGGAATAATAGATGCCCTGATTTTTATGAAGAAAAAAAAAAGTCATGTCTTTTAAGCCTATTTATTGAAAAGATCTCTGTTGAGCAGCGTGGTACTTTGTACGTCACTGCTGAGAAGGCTGGGTGGCAGTGATGGGCCCAGCTGCTTTAGACAAGGAATCAAGATGCAGAGAGTTGAAGCATCTGCATCTTAGCACATTGCAGTTTTACGGCCAAGCAGGGACATGGCTTCTATTTCATCTTTCATGTTGAGCTTGGGCCATGGCGTAATACATCTCCCAACAAAGCCGGGGAGCTCCGGCATTTGTCTGTGATTGGTGTGGCTTTCTGTTGAGCTGTTCCATTTCTGGGGCAGCTCTCCTGCTGATGCCTTTTGAAGACTATTAGTAATGTGGACTCTGCCTGCTTCTTCTCATAGCCAGGATAATGGCTTTTCATGGGCACTTTTTAATACTATTTTTTATTTGTGTGTGGTATGTGCACACACGTGTGCGCAGGTGTGAGTGCCTGTGTGCATACATGCAGAGAGAGGCTAGAGGAAGCCAGCGAGTGTCTTCCTCTGTTACTCACTCCCCATCTTATTTTCTGAGACAAGGTCTCTCACTGAGCCAAAAGGAAGCTCACCTTTTCGGCTAGGATGATTGGCCATCACGCTCCCAGGATCTAGCTGTCTCTGCCTGCCAACACTGGGGTTTTAGGTGCACACTCCATCATTCTTGGCTTCTACATCTATGCAGTGCATTGAGCTGAGCAATCAAAACAAGTGCTCTCACCCAGCAAGCCATCTTTCTAACCCTTAAATAGTTTCCCTCGTCTCATTTTCCATACCTTAGATTAATAGATTTTCAGAGCTTCCTTGTGTAAATTGATAGAGATATCTTGTTACAGGAGAAGTGAGCGGCAGTTATCTTATGACAGTATTAATTCAGATATGATCCTTTTGCCCACAAACATACAAATATTTTAAATTAAAATATGATTCTCGTGACAG
Seq C2 exon
GCATAACATCACTTCCTGCCCCAGCAGTCCGATGCCCTGCCCTCACGACTCCTGGACAGGGCACAATGTCCTGCCAACACCACCTGGGAAGCTTTGGTCCGAACACCACTTGTTACTTTGGGTGCAAAACCGGATTTACACTCAGGGGAGCCAACTCGCTCCGCTGCAGGGCTTCAGGACAATGGACAGCAGTGACCCCCATGTGCAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026580-Selp:NM_011347:9
Average complexity
IR-S
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:
PF0008415=Sushi=WD(100=92.1)
A:
NA
C2:
PF0008415=Sushi=WD(100=81.7)
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGAGCAAGGCAACCTGGATTG
R:
GTCCATTGTCCTGAAGCCCTG
Band lengths:
345-1481
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: