ipi1 (SPCC1393.06c)

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Gene Standard Name	ipi1	Characterisation Status	published
Systematic ID	SPCC1393.06c	Feature Type	protein coding
Synonyms		Name Description
Product	rRNA processing protein Ipi1	Product Size	413aa, 46.92 kDa
Genomic Location	Chromosome III, 806120-804483 (1638nt); CDS:806009-804627 (1383nt)

GO Biological Process

GO Slim Terms

ribosome biogenesis

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Term Name

Count

rRNA processing

193

Annotation Extension	Evidence	With/From	Reference
	IMP		PMID:21385875

Term ID	Term Name	Evidence	With/From	Reference	Count
GO:0006364	rRNA processing	IMP		PMID:21385875	193

GO Cellular Component

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Term Name

Count

mitotic spindle pole body

211

Annotation Extension	Evidence	With/From	Reference
	IDA		PMID:16823372

nuclear heterochromatin

Annotation Extension	Evidence	With/From	Reference
	IDA		PMID:21385875

nucleus

2690

Annotation Extension	Evidence	With/From	Reference
	IDA		PMID:16823372
	ISO	SGD:S000001127	GO_REF:0000024

Rix1 complex

Annotation Extension	Evidence	With/From	Reference
	IDA		PMID:21385875

Term ID	Term Name	Evidence	With/From	Reference	Count
GO:0044732	mitotic spindle pole body	IDA		PMID:16823372	211
GO:0005720	nuclear heterochromatin	IDA		PMID:21385875	60
GO:0005634	nucleus	ISO	SGD:S000001127	GO_REF:0000024	2690
	IDA		PMID:16823372
GO:0097344	Rix1 complex	IDA		PMID:21385875	3

FYPO Single-Allele Phenotypes

Gene Deletion Viability: Inviable

Population Phenotype

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Term Name

Genotypes

Count

inviable vegetative cell population

ipi1Δ

1468

Term ID	Term Name	Evidence	Genotype	Condition	Reference	Count
FYPO:0002061	inviable vegetative cell population	1468
	Microscopy	ipi1Δ	Null	PECO:0000137, PECO:0000005	PMID:23697806
	Microscopy	ipi1Δ	Null		PMID:20473289

Cell Phenotype

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Term Name

Genotypes

Count

increased 27S rRNA precursor level

ipi1-1

increased 35S rRNA precursor level

ipi1-1

inviable after spore germination, single or double cell division

ipi1Δ

107

inviable after spore germination, without cell division, with abnormal germ tube morphology

ipi1Δ

153

Term ID	Term Name	Evidence	Genotype	Condition	Reference	Count
FYPO:0001136	increased 27S rRNA precursor level	4
	Northern assay evidence	ipi1-1	Wild type product level		PMID:21385875
FYPO:0001135	increased 35S rRNA precursor level	6
	Northern assay evidence	ipi1-1	Wild type product level		PMID:21385875
FYPO:0001042	inviable after spore germination, single or double cell division	107
penetrance FYPO_EXT:0000003	Microscopy	ipi1Δ	Null	PECO:0000005, PECO:0000137	PMID:23697806
FYPO:0000313	inviable after spore germination, without cell division, with abnormal germ tube morphology	153
penetrance FYPO_EXT:0000001	Microscopy	ipi1Δ	Null	PECO:0000005, PECO:0000137	PMID:23697806

Target Of

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Ontology	Relationship	Gene	Product
FYPO	localization affected by mutation in	clr4	histone H3 lysine methyltransferase Clr4
FYPO	localization affected by mutation in	swi6	HP1 family chromodomain protein Swi6

Ontology	Relationship	Gene	Product	Reference
FYPO	localization affected by mutation in	clr4	histone H3 lysine methyltransferase Clr4	PMID:21385875
FYPO	localization affected by mutation in	swi6	HP1 family chromodomain protein Swi6	PMID:21385875

Transcript

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Transcript Structure

Region	Coordinates	Reference
Exons	806120..805965, 805921..805849, 805800..805678, 805627..804483
Intron	805964..805922, 805848..805801, 805677..805628
mRNA	806120..804483
5' UTR	806120..806010	PMID:21511999
CDS	806009..805965, 805921..805849, 805800..805678, 805627..804627
3' UTR	804626..804483	PMID:21511999

Protein Features

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Graphical View

Ensembl protein image with mapped locations of structural domains

Protein Families and Domains

Feature ID	Database	InterPro	Description	Start	End	Count
PF12333	Pfam	IPR024679	Pre-rRNA-processing protein IPI1/Testis-expressed sequence 10 protein	138	234	1
PTHR16056:SF2	HMMPANTHER			1	345	1
PTHR16056	HMMPANTHER			1	345	1
1.25.10.10	Gene3D	IPR011989	Armadillo-like helical	65	181	86
SSF48371	SuperFamily	IPR016024	Armadillo-type fold	247	357	130
SSF48371	SuperFamily	IPR016024	Armadillo-type fold	62	201	130

View domain organization at Pfam

Protein Properties

Ave. residue weight	113.61 Da
Charge	24.50
Codon Adaptation Index	0.32
Isoelectric point	9.99
Molecular weight	46.92 kDa
Number of residues	413

Sequence

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Gene Expression

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Quantitative Gene Expression

View graphical display of gene expression data for ipi1 (SPCC1393.06c)

Protein Level

Molecules/Cell (average)	Extension	Condition	Scale	Evidence	Reference
4072	during GO:0000080	PECO:0000005, PECO:0000126	single cell	mass spectrometry evidence	PMID:24763107
4640	during GO:0000084	PECO:0000005, PECO:0000126	single cell	mass spectrometry evidence	PMID:24763107
4103	during GO:0000085	PECO:0000005, PECO:0000126	single cell	mass spectrometry evidence	PMID:24763107
4717	during GO:0000087	PECO:0000005, PECO:0000126	single cell	mass spectrometry evidence	PMID:24763107
2237	during GO:0072690	PECO:0000126, PECO:0000005	population wide	experimental evidence	PMID:23101633
3964	during GO:0072690	PECO:0000005, PECO:0000126	single cell	mass spectrometry evidence	PMID:24763107

RNA Level

Molecules/Cell (average)	Extension	Condition	Scale	Evidence	Reference
2.3	during GO:0072690	PECO:0000126, PECO:0000005	population wide	experimental evidence	PMID:23101633
0.69	during cell quiescence following G1 arrest due to nitrogen limitation	PECO:0000127, PECO:0000126, PECO:0000005	population wide	experimental evidence	PMID:23101633

Taxonomic Conservation

Description	Qualifier	Reference	Count
predominantly single copy (one to one)			3087
conserved in fungi			4608
conserved in eukaryotes			4516
conserved in metazoa			3498
conserved in vertebrates			3473
conserved in eukaryotes only			2525

Orthologs

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Manually curated orthologous groups

Species	Gene	Description	Links	Count

Orthologs in Compara

Physical Interactions

Source: BioGRID

Load genes that interact physically with SPCC1393.06c into the Query Builder
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View the HCPIN interactions in esyN

	Gene	Product	Evidence	Reference
affinity captured by	crb3	WD repeat protein Crb3	Affinity Capture-MS	PMID:21385875

External References

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Database	Identifier	Description
NBRP	SPCC1393.06c	Fission yeast strain database, National BioResource Project (Japan)
YOGY	SPCC1393.06c	Retrieval of eukaryotic orthologs (Bähler Lab)
BioGrid	SPCC1393.06c	BioGRID Interaction Datasets
Expression Viewer	SPCC1393.06c	Cell Cycle Expression Profile (Bähler Lab)
Expression Viewer	SPCC1393.06c	Meiosis/Sporulation Expression Profies (Bähler Lab)
Expression Viewer	SPCC1393.06c	Pheromone response/mating expression profiles (Bähler Lab)
Expression Viewer	SPCC1393.06c	Environmental stress expression profiles (Bähler Lab)
Pomb(A)	SPCC1393.06c	Polyadenylation Viewer (Gullerova lab)
pombeTV	SPCC1393.06c	Transcriptome Viewer (Bähler Lab)
GEO	SPCC1393.06c	GEO profiles
PInt	SPCC1393.06c	Protein-Protein Interaction Predictor (Bähler Lab)
PeptideAtlas	SPCC1393.06c	Peptides identified in tandem mass spectrometry proteomics experiments
SYSGRO	SPCC1393.06c	Fission yeast phenotypic data & analysis
Cyclebase	SPCC1393.06c.1	Cell Cycle Data
SPD / RIKEN	21/21D08	Orfeome Localization Data
UniProtKB/SwissProt	O94718	Pre-rRNA-processing protein ipi1
ModBase	O94718	Database of comparative protein structure models
STRING	O94718	Network display of known and predicted interactions and functional associations
RefSeq Peptide	NP_587964	rRNA processing protein Ipi1 (predicted)
RefSeq mRNA	NM_001022955	972h- rRNA processing protein Ipi1 (predicted) (SPCC1393.06c), mRNA
European Nucleotide Archive	CAB38162.2	ENA Protein Mapping
UniParc	UPI0001B06275	UniProt Archive

Literature for ipi1

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Search: Europe PMC or PubMed

Release Version: PomBase:30_62 - 30 Jan 2017

ipi1 (SPCC1393.06c)

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GO Slim Terms

Population Phenotype

Cell Phenotype

Transcript Structure

Graphical View

Protein Families and Domains

Protein Properties

Quantitative Gene Expression

Protein Level

RNA Level

Manually curated orthologous groups

Orthologs in Compara

Source: BioGRID