MmuINT0140922 @ mm9
Intron Retention
Gene
ENSMUSG00000026582 | Sele
Description
selectin, endothelial cell [Source:MGI Symbol;Acc:MGI:98278]
Coordinates
chr1:165981956-165983284:+
Coord C1 exon
chr1:165981956-165982144
Coord A exon
chr1:165982145-165983095
Coord C2 exon
chr1:165983096-165983284
Length
951 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGT
5' ss Score
10.47
3' ss Seq
CCCCTTCTCTGGTTTCTCAGCTG
3' ss Score
8.32
Exon sequences
Seq C1 exon
CTGTGACCTGTGACGCCATCCCTCAGCCTCAGAATGGCTTTGTGAGCTGCAGCCACTCAACAGCTGGAGAACTTGCGTTTAAGTCATCCTGTAACTTCACCTGTGAGCAGAGTTTCACGTTGCAGGGGCCAGCGCAGGTTGAATGCAGCGCACAAGGGCAGTGGACACCACAAATCCCAGTCTGCAAAG
Seq A exon
GTGAGTAAGAAACTGTCTCTTCTAACGCTTTCATTTCTTTAAAAACAAAAAAACAAAACAAAAAAAAAACCTGTCATCTTGGCCACTGGCGATGACATCAGGTATCGTCTGTTAACTATGATACCAATCGTGAGGGCAAGAGAAATACCTCTGACATTGACTTAAAAACAAAACACATAGCCAGGAAGCACGACTGGATGCAAGTAACATTTCTTTTGCTTGTTTATAAAGTAGGGTATATTAAATATTAATTTACTGGCATTGGCGTAGAGTAAGAATTAGTAACGTATGAGAAATCCTGTTTAAAATGTAAAATTCAGTACAATGAAGGTACTGCTCAGCCCTCACATTGTATCACCCACTTCTGAAGTTCCAAGCTAGCAGTGATGACAGTAGCCCCAGCTTGGTGTCTGTCACCTACAAGGATTGTTTTGACACAGACATAGAAGCAATACAGTGTAATTGTCTTTACGGCAAAAGCAAGAATGTCCAGGTGAGCAGTTTTCATTATGCAGCTCTGGCATCATTAGAGCTAAATTTAGTATTGAGTGAGTTTCAGGGGCAAAAATGCCACAACGCCAAACTCATGCCAAGAGCAGGCAAACCCTGCATGGAAGGCTTCGTCTCTTTCCTCTTCTGGCAGCACGTGGAAGCAGTCACGGCCCGTGCCATGCTCTTCAGTGATGTAAAATCCCATTAACCTCACTCTGCACATCAGACCAGCATGGAGGGACCATATTCTTGCTAATAGTTGCCTCGAATTAGGCATCATTATCATGGAGATATAATATGTGTATCACATAGGAAACAGCCGTTTTGCCAGAAATTCACAATGAAGATCCATCTTGAGTTCCTTACTCATAGCCTTGTGCCAGTTGAACTTTGCCATCAAATGACAGGTGTTCTCCAGTCTCACCATGGTGTTTTCTCGCCCCTTCTCTGGTTTCTCAG
Seq C2 exon
CTGTCCAGTGTGAAGCCTTATCTGCGCCACAGCAGGGCAACATGAAATGTCTTCCCAGTGCTTCTGGACCTTTCCAAAATGGGTCCAGTTGTGAGTTCTCCTGCGAAGAAGGATTTGAACTGAAGGGATCAAGAAGACTTCAGTGTGGTCCAAGAGGGGAATGGGATAGCAAGAAGCCCACGTGTTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026582-Sele:NM_011345:7
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=92.2)
A:
NA
C2:
PF0008415=Sushi=WD(100=92.2)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCTCAGCCTCAGAATGGCTTT
R:
GAACACGTGGGCTTCTTGCTA
Band lengths:
356-1307
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: