MmuINT1031997 @ mm10
Intron Retention
Gene
ENSMUSG00000005233 | Spc25
Description
SPC25, NDC80 kinetochore complex component, homolog (S. cerevisiae) [Source:MGI Symbol;Acc:MGI:1913692]
Coordinates
chr2:69205026-69206194:-
Coord C1 exon
chr2:69206064-69206194
Coord A exon
chr2:69205179-69206063
Coord C2 exon
chr2:69205026-69205178
Length
885 bp
Sequences
Splice sites
5' ss Seq
CAGGTCGGG
5' ss Score
4.74
3' ss Seq
CTTTGTGCTCTGTTTTGCAGTGT
3' ss Score
10.19
Exon sequences
Seq C1 exon
GAGAGTTTGAAATTGAAAGACTGCGCGCTGGAGGAGCAGCAGACCCGGGAGCAGCAGACGGAAGAGCGGCGGGCTGGTTCCTGCCGGACAGGTCCAGTCTGGTGGAGACCGCGGCGTTCCTGGCCGCTCAG
Seq A exon
GTCGGGAGCCGTTTGAAGGGTTGTGGGGCTTCGCCGACCGCACGCCCGGGCTGAGGGAAGCCGGCCTGGGCATGTCGGCGTGGGTCCGCAGAGCCTGGAATGCGGGCGTCCGCTGTTAGCCGCGGAGTTCGGGTCCTGGCGCTGCTCGGTCCCGATCACACTCCCCTCTTCCGCCCTGCAGGGGGAGGAGTGGACGGAGCAGTCGGCCAGGGGTCTGATGCAGAAAACCTGCAGGTCTGTCTGTCCCCCAACCTCTTCGAGTCTCGGTCTCGTTGCCTGCGAGCAGGTCCTTTAGGAGAAGCGGAGTGACACCGGGGTCCTGTTAAAACATGACTTGAAAGCTTCGTGCAACCTTGTTTTGGTCATATTCTTTCCTCTCCTCCACCTCCCTTCATGCCTTCAGAACAGATTGATGCACATCCACCACAGTTAAGCCCAAATTGGCTTGGATCATCCTGTTGCTAACTACCGGACTGTTAGTGGATTATTTTTATCTTATTTTACATTTTATTAGGTTCTGGCCCAATGTTGACCAGGCTATCTTTGAACTCAAATACCTTCCTCTGCCTCTCTGCCTCTCTGCCTCCGATGTGCTGGGACAGTGCTGGGACAAAAGGCGAAAAAAGGCGTTTAGTTCACACCCTGTTGTGTTTATTTAGAAAAGGTCTCTTGTATATCAGACTGGTCCTGACGTTGGCTGACCTTTACCTCAGATTCTCCTGCCCCCAGCTGGAAATGTTGGAATTAAAGTCTGCCTTTATGCTAGCTGAGTTGCTCAATTATTAACCATTCTGTAGCAAAGTCAACCTGCAGACATAAACTCGAAAATGTGGCTTATTTGGTGTCGATAGCAACTAAAATACAGCTTTGTGCTCTGTTTTGCAG
Seq C2 exon
TGTCTTAAAACATAATGGGTGAAGACGAATTGGCACTCTTAAATCAAAGCATCAATGAATTTGGGGATAAGTTCAGAAACAGACTCGATGATAATCATAGTCAAGTGCTGGGACTTAGAGACGCCTTCAAGGACTCCATGAAAGCGTTTTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000005233:ENSMUST00000005365:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
5' UTR
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=0.032
Domain overlap (PFAM):
C1:
PF148171=HAUS5=PU(4.5=15.6),PF083176=Spc7=PU(0.7=3.1)
A:
NA
C2:
PF083176=Spc7=PU(27.3=93.6),PF101864=Atg14=PU(29.9=87.2),PF148171=HAUS5=PU(24.3=72.3)
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TTTGAAATTGAAAGACTGCGCGC
R:
TGAAAACGCTTTCATGGAGTCCT
Band lengths:
278-1163
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