MmuINT1031998 @ mm10
Intron Retention
Gene
ENSMUSG00000005233 | Spc25
Description
SPC25, NDC80 kinetochore complex component, homolog (S. cerevisiae) [Source:MGI Symbol;Acc:MGI:1913692]
Coordinates
chr2:69204856-69205178:-
Coord C1 exon
chr2:69205026-69205178
Coord A exon
chr2:69204922-69205025
Coord C2 exon
chr2:69204856-69204921
Length
104 bp
Sequences
Splice sites
5' ss Seq
CAGGTACTG
5' ss Score
9.04
3' ss Seq
TCTTGTAATTTGTCTTTCAGAAA
3' ss Score
9.67
Exon sequences
Seq C1 exon
TGTCTTAAAACATAATGGGTGAAGACGAATTGGCACTCTTAAATCAAAGCATCAATGAATTTGGGGATAAGTTCAGAAACAGACTCGATGATAATCATAGTCAAGTGCTGGGACTTAGAGACGCCTTCAAGGACTCCATGAAAGCGTTTTCAG
Seq A exon
GTACTGCCAGCCCTTAACTCCTAACTTGTGGATTTTGCTGACCTTATTTATTTTTTACTGTTATTTCAGCGGGATTCAAATATCTCTTGTAATTTGTCTTTCAG
Seq C2 exon
AAAAGATGTCTTTGAAATTAAAGGAAGAAGAGAGGATGACTGAGATGATTCTGGAGTATAAAAACC
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000005233:ENSMUST00000005365:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.032 A=NA C2=0.107
Domain overlap (PFAM):
C1:
PF083176=Spc7=PU(27.3=93.6),PF101864=Atg14=PU(29.9=87.2),PF148171=HAUS5=PU(24.3=72.3)
A:
NA
C2:
PF083176=Spc7=FE(13.7=100),PF101864=Atg14=FE(16.1=100),PF148171=HAUS5=FE(15.7=100)
Other Inclusion Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTCTTAAAACATAATGGGTGAAGACG
R:
GGTTTTTATACTCCAGAATCATCTCA
Band lengths:
218-322
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- 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