MmuINT0140917 @ mm10
Intron Retention
Gene
ENSMUSG00000026582 | Sele
Description
selectin, endothelial cell [Source:MGI Symbol;Acc:MGI:98278]
Coordinates
chr1:164048660-164049598:+
Coord C1 exon
chr1:164048660-164048743
Coord A exon
chr1:164048744-164049214
Coord C2 exon
chr1:164049215-164049598
Length
471 bp
Sequences
Splice sites
5' ss Seq
TTGGTAAGC
5' ss Score
8.72
3' ss Seq
TCTTTCTTGACCCAATCCAGTTC
3' ss Score
5.2
Exon sequences
Seq C1 exon
GAAAGTTTCTCCAGTCTAGCGCCTGGATGAAAGCAACTGCTGGAGTCATGAATGCCTCGCGCTTTCTCTCTGCTCTTGTTTTTG
Seq A exon
GTAAGCTGGAGTCACGGGAGACCAGGGACTCTCACCCTCACCCCAGTGACTCTTAAGAGCAGGATATTTTGTTGTGTGGGGCTTTCTGTGCGTTATATGGTGATTAGCAGAACTGATGACCTCCCTGCAGGGTTCTGCCTTGTGGTGGGAAGGGTGGATTTTAAGTGCTTTGTGAAGAGTCGTTCATCTGGCTCCTGAAAGGGGGCTCAAACAGGCACCACGTAGCATCCAATGAAGTTTGCTTTCTCTGACTTCCATTGTACTGTGAGGTTGGAATATAACATTGCGGTTGCCATAAGGCACCACCAGATAATGGCACACGGTGATATATAGAAATTCTAGCCCCTTGAGATGATCCTCTTCTTACTTTTAAAATCAATAGTTTGAACCAACAAAAGGACCCTATAAACCAAAAGCAAGACAACACGATTCAGGACTAAACTTTGCTATCTCTTTCTTGACCCAATCCAG
Seq C2 exon
TTCTCCTCGCTGGAGAGAGCACAGCTTGGTACTACAATGCCTCCAGTGAGCTCATGACGTATGATGAAGCCAGTGCATACTGTCAGCGGGACTACACACATCTGGTGGCAATTCAGAACAAGGAAGAGATCAACTACCTTAACTCCAATCTGAAACATTCACCGAGTTACTACTGGATTGGAATCAGAAAAGTCAATAACGTATGGATCTGGGTGGGGACGGGGAAGCCTCTGACAGAGGAAGCTCAGAACTGGGCTCCAGGTGAACCAAACAACAAACAAAGAAATGAGGACTGTGTAGAGATTTACATCCAACGAACCAAAGACTCGGGCATGTGGAATGACGAGAGATGTAACAAAAAGAAGCTGGCTCTGTGCTACACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026582:ENSMUST00000027874:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.078
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0005916=Lectin_C=WD(100=86.8)
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:
CTAGCGCCTGGATGAAAGCAA
R:
TTGTTTGGTTCACCTGGAGCC
Band lengths:
343-814
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