Position dependent CGCGA

From Table IIa: Position-dependent, orientation-independent pentamers
CGCGA and/or TCGCG
are found in the upstream regions of these cell cycle-regulated yeast genes in the following intervals:

early_g1: -598 to -500 nt upstream of the ATG start codon: 2 genes

YKL116C		probable serine/threonine-specific protein kinase (EC 2.7.1.-)

```
YLR254C		
```

early_g1: -499 to -401 nt upstream of the ATG start codon: 4 genes

```
YDL117W		
```
```
YER111C	SWI4	transcription factor
```
```
YGR281W	YOR1	ABC transporter
```

YLR273C	PIG1	Protein similar to Gac1p, a putative type 1 protein phosphatase targeting subunit

early_g1: -400 to -302 nt upstream of the ATG start codon: 3 genes

YKL116C		probable serine/threonine-specific protein kinase (EC 2.7.1.-)

YLR258W	GSY2	Glycogen synthase (UDP-glucose--starch glucosyltransferase)

```
YNL078W		
```

early_g1: -301 to -203 nt upstream of the ATG start codon: 8 genes

YBL023C	MCM2	Minichromosome maintenance protein, transcription factor

```
YDL181W	INH1	ATPase inhibitor
```

YJL194W	CDC6	pre-initiation complex component

YLL040C	VPS13	component of peripheral vacuolar membrane protein complex

```
YLR049C		
```
```
YMR007W		
```
```
YOR264W		
```
```
YPR002W		
```

early_g1: -202 to -104 nt upstream of the ATG start codon: 2 genes

YLR079W	SIC1	Cdc28p-Clb5 protein kinase inhibitor

YLR274W	CDC46	MCM initiator complex protein

early_g1: -103 to -5 nt upstream of the ATG start codon: 0 genes

late_g1: -598 to -500 nt upstream of the ATG start codon: 7 genes

```
YDL127W	PCL2	G1 cyclin
```
```
YGL028C	SCW11	soluble cell wall protein
```
```
YHR113W		Vacuolar aminopeptidase
```

YKL045W	PRI2	p58 polypeptide of DNA primase

```
YLR381W		
```
```
YMR199W	CLN1	G(sub)1 cyclin
```

YPL057C	SUR1	Multicopy suppressor of cls2-2; also suppresses rvs161 mutations

late_g1: -499 to -401 nt upstream of the ATG start codon: 8 genes

YBR073W	RDH54	Putative helicase similar to RAD54

```
YDL119C		
```

YDR309C	GIC2	Cdc42 binding protein, involved in bud emergence

YKL101W	HSL1	Putative protein kinase homologous to S. pombe cdr1/nim1

YLL002W	KIM2	diepoxybutane and mitomycin C resistance

```
YLR326W		
```
```
YLR381W		
```

YML027W	YOX1	Homeobox-domain containing protein

late_g1: -400 to -302 nt upstream of the ATG start codon: 24 genes

```
YBR070C		involved in osmotolerance
```
```
YBR071W		
```

YDL003W	MCD1	involved in mitosis, similar to pombe Rad21

```
YDL124W		
```
```
YDL127W	PCL2	G1 cyclin
```

YDL227C	HO	Homothallic switching endonuclease

YDR297W	SUR2	Syringomycin response protein 2

```
YGR109C	CLB6	B-type cyclin
```

YHR038W	FIL1	Putative mitochondrial ribosome recycling factor

```
YJL187C	SWE1	protein kinase homolog
```
```
YJL196C	ELO1	Elongation enzyme 1
```

YKL161C		probable serine/threonine-specific protein kinase (EC 2.7.1.-)

YKR013W	PRY2	Similar to plant PR-1 class of pathogen related proteins

YLR121C	YPS4	GPI-anchored aspartic protease

```
YLR376C		
```

YLR382C	NAM2	mitochondrial leucyl tRNA synthetase

YLR383W	RHC18	involved in recombination repair

YML027W	YOX1	Homeobox-domain containing protein

YNL233W	BNI4	Is required to link Chs3p and Chs4p to the septins

YNL289W	PCL1	G(sub)1 cyclin that associates with PHO85

```
YNL300W		
```

YOL007C	CSI2	Appears to be a structural component of the chitin synthase 3 complex

```
YPL014W		
```

YPR175W	DPB2	DNA polymerase epsilon, subunit B

late_g1: -301 to -203 nt upstream of the ATG start codon: 17 genes

YDL003W	MCD1	involved in mitosis, similar to pombe Rad21

YDL018C	ERP3	p24 protein involved in membrane trafficking

YDL227C	HO	Homothallic switching endonuclease

YDR507C	GIN4	putative serine/threonine kinase

YGR152C	RSR1	GTP-binding protein, ras superfamily

```
YJL187C	SWE1	protein kinase homolog
```

YKL042W	SPC42	component of the spindle pole body

YLR121C	YPS4	GPI-anchored aspartic protease

```
YLR183C		
```
```
YLR326W		
```
```
YLR381W		
```

YML027W	YOX1	Homeobox-domain containing protein

YMR179W	SPT21	non-specific DNA binding protein

YNL289W	PCL1	G(sub)1 cyclin that associates with PHO85

YOR317W	FAA1	long chain fatty acyl:CoA synthetase

YPR018W	RLF2	p90 subunit of yeast omatin Assembly Factor-I (CAF-I)

```
YPR120C	CLB5	B-type cyclin
```

late_g1: -202 to -104 nt upstream of the ATG start codon: 44 genes

```
YAR003W		beta transducin domain
```
```
YBR070C		involved in osmotolerance
```
```
YBR071W		
```

YBR073W	RDH54	Putative helicase similar to RAD54

YBR088C	POL30	profilerating cell nuclear antigen (PCNA); accessory factor for DNA polymerase delta, mRNA increases in G1, peaks in S in mitosis, and increases prior to DNA synthesis in meiosis

```
YCL024W		Ser/Thr protein kinase
```
```
YDL010W		
```
```
YDL101C	DUN1	protein kinase
```
```
YDL164C	CDC9	DNA ligase
```

YGL200C	EMP24	type I transmemebrane protein, component of COPII-coated, ER-derived transport vesicles

YHR110W	ERP5	p24 protein involved in membrane trafficking

```
YHR153C	SPO16	sporulation protein
```
```
YHR154W	ESC4	involved in silencing
```

YIL026C	IRR1	involved in cell morphology

YJL074C	SMC3	involved in sister chromatid cohesion

```
YJL181W		
```

YJR043C	POL32	third (55 kDa) subunit of DNA polymerase delta

YKL045W	PRI2	p58 polypeptide of DNA primase

YKL101W	HSL1	Putative protein kinase homologous to S. pombe cdr1/nim1

YKL113C	RAD27	42 kDa 5' to 3' exonuclease required for Okazaki fragment processing

YKL165C	MCD4	(putative) involved in cell polarity

```
YKR077W		
```
```
YKR083C		
```

YLL002W	KIM2	diepoxybutane and mitomycin C resistance

YLR121C	YPS4	GPI-anchored aspartic protease

YLR233C	EST1	involved in telomere length regulation

```
YLR234W	TOP3	DNA Topoisomerase III
```

YLR313C	SPH1	homologous to Spa2p, localizes to sites of polarized growth

```
YLR376C		
```
```
YLR381W		
```

YLR382C	NAM2	mitochondrial leucyl tRNA synthetase

YLR383W	RHC18	involved in recombination repair

YMR078C	CTF18	(putative) involved in chromosome transmission during mitosis

YNL102W	POL1	DNA polymerase I alpha subunit, p180

YNL225C	CNM67	Spindle pole body protein involved in nuclear migration

YNL309W	STB1	Interacts with the putative transcription factor Sin3p

YOL090W	MSH2	MutS homolog encoding major mismatch repair activity in mitosis and meiosis.

YPL124W	NIP29	spindle pole body associated protein

```
YPL127C	HHO1	histone H1
```
```
YPL267W		
```
```
YPR174C		
```

YPR175W	DPB2	DNA polymerase epsilon, subunit B

YMR076C	PDS5	(putative) involved in sister chromosome cohesion during mitosis

YMR076C	PDS5	(putative) involved in sister chromosome cohesion during mitosis

late_g1: -103 to -5 nt upstream of the ATG start codon: 10 genes

YBR073W	RDH54	Putative helicase similar to RAD54

YBR278W	DPB3	C and C' subunits of DNA polymerase II

```
YDR013W		
```
```
YGL027C	CWH41	glucosidase I
```

YJL173C	RFA3	subunit 3 of replication factor-A

YLL022C	HIF1	interacts with histone acetyltransferase

YNL082W	PMS1	MutL homolog, similar to Mlh1p, associates with Mlh1p, possibly forming a heterodimer, Pms1p and Msh1p act in concert to bind to a Msh2p-heteroduplex complex containing a G-T mismatch

YNL309W	STB1	Interacts with the putative transcription factor Sin3p

```
YNL310C		
```

YPL241C	CIN2	involved in microtubule function

s: -598 to -500 nt upstream of the ATG start codon: 6 genes

YAR008W	SEN34	34kDa subunit of the tetrameric tRNA splicing endonuclease

YBR275C	RIF1	RAP1-interacting factor, involved in establishment of repressed chromatin

```
YBR296C	PHO89	Probable Na+/Pi symporter
```

YDL095W	PMT1	dolichyl phosphate-D-mannose:protein O-D-mannosyltransferase

YER003C	PMI40	mannose-6-phosphate isomerase

YER017C	AFG3	ATP-dependent metalloprotease

s: -499 to -401 nt upstream of the ATG start codon: 5 genes

YBL002W	HTB2	Histone H2B (HTB1 and HTB2 code for nearly identical proteins)

YBL003C	HTA2	Histone H2A (HTA1 and HTA2 code for nearly identical proteins)

YER001W	MNN1	Alpha-1,3-mannosyltransferase

```
YER019W		
```
```
YOL019W		
```

s: -400 to -302 nt upstream of the ATG start codon: 9 genes

YCR065W	HCM1	Transcription factor (fork head domain)

YER003C	PMI40	mannose-6-phosphate isomerase

YER017C	AFG3	ATP-dependent metalloprotease

```
YER118C	SSU81	Transmembrane osmosensor
```

YHR061C	GIC1	interacts with GTPase, involved in bud emergence

YIL140W	SRO4	localizes to the plasma membrane

YLR045C	STU2	spindle pole body component

YNL126W	SPC98	spindle pole body component, associates in a complex with Spc97p and Tub4p perhaps as part of the microtubule attachment site of the SBP

```
YOL019W		
```

s: -301 to -203 nt upstream of the ATG start codon: 7 genes

YBL002W	HTB2	Histone H2B (HTB1 and HTB2 code for nearly identical proteins)

YBL003C	HTA2	Histone H2A (HTA1 and HTA2 code for nearly identical proteins)

```
YDL094C		
```

YDR252W	BTT1	negative regulator of RNA polymerase II

YER017C	AFG3	ATP-dependent metalloprotease

YHR061C	GIC1	interacts with GTPase, involved in bud emergence

YNL126W	SPC98	spindle pole body component, associates in a complex with Spc97p and Tub4p perhaps as part of the microtubule attachment site of the SBP

s: -202 to -104 nt upstream of the ATG start codon: 14 genes

```
YBR156C		
```

YBR276C	PPS1	dual specificity protein phosphatase

YDL093W	PMT5	dolichyl phosphate-D-mannose:protein O-D-mannosyltransferase

YDL197C	ASF2	Anti-silencing protein, involved in transcription

```
YDR179C		
```

YER003C	PMI40	mannose-6-phosphate isomerase

YER016W	BIM1	microtubule-binding protein

YER017C	AFG3	ATP-dependent metalloprotease

YFR027W	ECO1	involved in establishment of cohesion between sister chromatids

YHR172W	SPC97	spindle pole body component, associates in a complex with Spc98p and Tub4p perhaps as part of the microtubule attachment site of the SBP

YKR001C	VPS1	putative GTP-binding protein; similar to mammalian Mx proteins

```
YLR151C		
```

YNL126W	SPC98	spindle pole body component, associates in a complex with Spc97p and Tub4p perhaps as part of the microtubule attachment site of the SBP

YPL016W	SWI1	Zinc-finger transcription factor

s: -103 to -5 nt upstream of the ATG start codon: 7 genes

YAL001C	TFC3	transcription factor tau (TFIIIC) subunit 138

```
YBL063W	KIP1	kinesin related protein
```

YEL061C	CIN8	kinesin-related protein involved in establishment and maintenance of mitotic spindle

YGR140W	CBF2	110 kDa subunit of the centromere binding factor CBF3

YIL126W	STH1	helicase related protein, snf2 homolog

YNL072W	RNH35	RNase H(35), a 35 kDa ribonuclease H

YOR026W	BUB3	cell cycle checkpoint protein

g2: -598 to -500 nt upstream of the ATG start codon: 1 genes

```
YMR003W		
```

g2: -499 to -401 nt upstream of the ATG start codon: 4 genes

```
YCR073C	SSK22	protein kinase
```
```
YIL158W		
```

YKL049C	CSE4	high similarity to histone H3 and to human centromere protein CENP-A

YOR274W	MOD5	transfer RNA isopentenyl transferase

g2: -400 to -302 nt upstream of the ATG start codon: 1 genes

YDR389W	SAC7	GTPase activating protein (GAP) for RHO1

g2: -301 to -203 nt upstream of the ATG start codon: 5 genes

YBL097W	BRN1	involved in chromosome maintenance; similar to Drosophila barren, Xenopus XCAP-H, and human BRRN1

YBR104W	YMC2	mitochondrial carrier protein

```
YIL050W	PCL7	PHO85 cyclin
```
```
YJL092W	HPR5	DNA helicase
```
```
YNR009W		
```

g2: -202 to -104 nt upstream of the ATG start codon: 6 genes

YBR104W	YMC2	mitochondrial carrier protein

```
YCL063W		
```
```
YCR073C	SSK22	protein kinase
```

YLR014C	PPR1	zinc-finger transcription factor of the Zn(2)-Cys(6) binuclear cluster domain type

```
YLR015W		
```
```
YMR215W		
```

g2: -103 to -5 nt upstream of the ATG start codon: 1 genes

```
YBL032W		
```

m: -598 to -500 nt upstream of the ATG start codon: 1 genes

YJR092W	BUD4	involved in bud site selection

m: -499 to -401 nt upstream of the ATG start codon: 2 genes

YCL037C	SRO9	involved in actin filament organization

YGR279C	SCW4	soluble cell wall protein; can be released from SDS-extracted cell walls under reducing conditions

m: -400 to -302 nt upstream of the ATG start codon: 4 genes

YGL201C	MCM6	component of MCM initiator complex involved in DNA replication

```
YKL129C	MYO3	myosin I
```
```
YML033W		
```
```
YOL014W		
```

m: -301 to -203 nt upstream of the ATG start codon: 3 genes

YJR092W	BUD4	involved in bud site selection

YLR353W	BUD8	involved in bud site selection

YPL242C	IQG1	Similar to mammalian IQGAP proteins

m: -202 to -104 nt upstream of the ATG start codon: 2 genes

YJL079C	PRY1	Similar to plant PR-1 class of pathogen related proteins

```
YLR190W		
```

m: -103 to -5 nt upstream of the ATG start codon: 1 genes

```
YKL129C	MYO3	myosin I
```

From Table IIa: Position-dependent, orientation-independent pentamers CGCGA and/or TCGCG are found in the upstream regions of these cell cycle-regulated yeast genes in the following intervals:

From Table IIa: Position-dependent, orientation-independent pentamers
CGCGA and/or TCGCG
are found in the upstream regions of these cell cycle-regulated yeast genes in the following intervals: