HsaINT0157586 @ hg38
Intron Retention
Gene
ENSG00000152253 | SPC25
Description
SPC25, NDC80 kinetochore complex component [Source:HGNC Symbol;Acc:HGNC:24031]
Coordinates
chr2:168889226-168889533:-
Coord C1 exon
chr2:168889387-168889533
Coord A exon
chr2:168889292-168889386
Coord C2 exon
chr2:168889226-168889291
Length
95 bp
Sequences
Splice sites
5' ss Seq
CAGGTACCT
5' ss Score
8.16
3' ss Seq
AAGTTCAATTTCTCTTTCAGAAA
3' ss Score
7.77
Exon sequences
Seq C1 exon
CATTGTCCTACATAATGGTAGAGGACGAACTGGCACTTTTCGATAAAAGCATAAATGAATTTTGGAATAAATTCAAAAGTACGGACACCTCCTGTCAGATGGCGGGACTAAGAGATACCTACAAGGATTCCATCAAAGCATTTGCAG
Seq A exon
GTACCTAGTGTTAACTTGTAACATGCTGGTTTTGCTGTTCTAGTTTATTTTTTAGTGTTATTGCAGCTGAATTGAAAGTTCAATTTCTCTTTCAG
Seq C2 exon
AAAAGCTGTCTGTGAAATTAAAGGAAGAAGAACGAATGGTTGAGATGTTTCTGGAATATCAAAATC
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000152253:ENST00000282074:2
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=0.000
Domain overlap (PFAM):
C1:
PF083176=Spc7=PU(14.7=53.3)
A:
NA
C2:
PF083176=Spc7=FE(13.5=100)
Main Inclusion Isoform:
NA
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:
GGACGAACTGGCACTTTTCGA
R:
TCCAGAAACATCTCAACCATTCGT
Band lengths:
180-275
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains