Position dependent CAGCC

From Table IIa: Position-dependent, orientation-independent pentamers
CAGCC and/or GGCTG
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: 6 genes

```
YBR067C	TIP1	cell wall mannoprotein
```
```
YBR157C		
```
```
YLR049C		
```

YLR274W	CDC46	MCM initiator complex protein

```
YOR264W		
```
```
YPL066W		
```

early_g1: -499 to -401 nt upstream of the ATG start codon: 9 genes

YBR083W	TEC1	transcription factor of the TEA/ATTS DNA-binding domain family, regulator of Ty1 expression

```
YBR231C		
```
```
YDL117W		
```
```
YDR511W		
```

YEL032W	MCM3	component of DNA replication initiator complex

YGL055W	OLE1	delta-9-fatty acid desaturase

YKL185W	ASH1	probable purine nucleotide-binding protein

YML110C	COQ5	Putative mitochondrial C-methyltransferase

```
YNL046W		
```

early_g1: -400 to -302 nt upstream of the ATG start codon: 11 genes

YBL023C	MCM2	Minichromosome maintenance protein, transcription factor

YBR052C		Homolog to YCR004, obr1 (S. pombe), trp repressor binding protein (E. coli)

```
YBR200W	BEM1	contains two SH3 domains
```
```
YCL040W	GLK1	Glucokinase
```
```
YML109W	ZDS2	Zds1 homolog
```

YML110C	COQ5	Putative mitochondrial C-methyltransferase

```
YNL078W		
```

YNR001C	CIT1	citrate synthase. Nuclear encoded mitochondrial protein.

```
YOR264W		
```
```
YPL004C		
```

YPL058C	PDR12	multidrug resistance transporter

early_g1: -301 to -203 nt upstream of the ATG start codon: 12 genes

```
YDL181W	INH1	ATPase inhibitor
```
```
YJL157C	FAR1	Cdc28p kinase inhibitor
```

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

```
YLR049C		
```

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

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

YLR274W	CDC46	MCM initiator complex protein

```
YML109W	ZDS2	Zds1 homolog
```
```
YOR066W		
```
```
YPL004C		
```
```
YPL158C		
```

YPR019W	CDC54	Involved in initiation of DNA replication

early_g1: -202 to -104 nt upstream of the ATG start codon: 6 genes

```
YBR067C	TIP1	cell wall mannoprotein
```
```
YBR200W	BEM1	contains two SH3 domains
```

YJL194W	CDC6	pre-initiation complex component

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

YLR079W	SIC1	Cdc28p-Clb5 protein kinase inhibitor

YLR395C	COX8	Cytochrome-c oxidase chain VIII

early_g1: -103 to -5 nt upstream of the ATG start codon: 1 genes

YKL150W	MCR1	NADH-cytochrome b5 reductase

late_g1: -598 to -500 nt upstream of the ATG start codon: 22 genes

YBL035C	POL12	B subunit of DNA polymerase alpha-primase complex

```
YDL010W		
```
```
YDL119C		
```
```
YDL164C	CDC9	DNA ligase
```
```
YDR493W		
```

YDR507C	GIN4	putative serine/threonine kinase

```
YGL028C	SCW11	soluble cell wall protein
```

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

```
YHR039C		Aldehyde dehydrogenases
```

YIL159W	BNR1	involved in actin filament organization

YJL074C	SMC3	involved in sister chromatid cohesion

YKL042W	SPC42	component of the spindle pole body

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

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

```
YLR286C	CTS1	Endochitinase
```
```
YLR457C	NBP1	Nap1p binding protein
```

YML102W	CAC2	p60 subunit of the yeast omatin Assembly Factor-I (CAF-I)

YOR317W	FAA1	long chain fatty acyl:CoA synthetase

```
YPL127C	HHO1	histone H1
```

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

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

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

late_g1: -499 to -401 nt upstream of the ATG start codon: 14 genes

YAR007C	RFA1	69 kDa subunit of the heterotrimeric RPA (RF-A) single-stranded DNA binding protein, binds URS1 and CAR1

YGR041W	BUD9	involved in bud-site selection

YHR038W	FIL1	Putative mitochondrial ribosome recycling factor

```
YHR039C		Aldehyde dehydrogenases
```

YJL074C	SMC3	involved in sister chromatid cohesion

YJL078C	PRY3	Similar to plant PR-1 class of pathogen related proteins

```
YJL181W		
```
```
YJL196C	ELO1	Elongation enzyme 1
```
```
YLR183C		
```

YLR233C	EST1	involved in telomere length regulation

```
YML061C	PIF1	5' to 3' DNA helicase
```
```
YMR199W	CLN1	G(sub)1 cyclin
```

YOR317W	FAA1	long chain fatty acyl:CoA synthetase

```
YPL209C	IPL1	Protein kinase
```

late_g1: -400 to -302 nt upstream of the ATG start codon: 11 genes

```
YBR070C		involved in osmotolerance
```

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

YGR152C	RSR1	GTP-binding protein, ras superfamily

```
YHR153C	SPO16	sporulation protein
```
```
YJL018W		
```

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

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

```
YLR381W		
```

YNL312W	RFA2	subunit 2 of replication factor RF-A; 29% identical to the human p34 subunit of RF-A

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

```
YPR174C		
```

late_g1: -301 to -203 nt upstream of the ATG start codon: 13 genes

YAR007C	RFA1	69 kDa subunit of the heterotrimeric RPA (RF-A) single-stranded DNA binding protein, binds URS1 and CAR1

```
YDL010W		
```
```
YDL164C	CDC9	DNA ligase
```
```
YDR013W		
```
```
YHR039C		Aldehyde dehydrogenases
```

YIL026C	IRR1	involved in cell morphology

YJL173C	RFA3	subunit 3 of replication factor-A

YNL173C	MDG1	Involved in G-protein mediated signal transduction

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

YOR317W	FAA1	long chain fatty acyl:CoA synthetase

YPL124W	NIP29	spindle pole body associated protein

```
YPL256C	CLN2	G(sub)1 cyclin
```
```
YLR349W		
```

late_g1: -202 to -104 nt upstream of the ATG start codon: 8 genes

```
YBR071W		
```
```
YDL164C	CDC9	DNA ligase
```
```
YGL027C	CWH41	glucosidase I
```

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

YLR032W	RAD5	putative ATPase/DNA helicase

YLR121C	YPS4	GPI-anchored aspartic protease

```
YLR457C	NBP1	Nap1p binding protein
```

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

late_g1: -103 to -5 nt upstream of the ATG start codon: 2 genes

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

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

s: -598 to -500 nt upstream of the ATG start codon: 8 genes

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

YCR065W	HCM1	Transcription factor (fork head domain)

```
YDL094C		
```
```
YDR113C	PDS1	42-kDa nuclear protein
```

YER017C	AFG3	ATP-dependent metalloprotease

```
YER019W		
```
```
YER118C	SSU81	Transmembrane osmosensor
```
```
YLL062C		
```

s: -499 to -401 nt upstream of the ATG start codon: 13 genes

```
YBR007C		
```

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

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

YDR252W	BTT1	negative regulator of RNA polymerase II

```
YEL017W		
```

YER017C	AFG3	ATP-dependent metalloprotease

```
YER019W		
```
```
YFR026C		
```
```
YJL115W	ASF1	involved in silencing
```
```
YLR151C		
```

YMR190C	SGS1	has DNA helicase signature motifs

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: -400 to -302 nt upstream of the ATG start codon: 5 genes

```
YBR007C		
```

YFR037C	RSC8	chromatin remodeling complex subunit

```
YMR048W		
```

YNL304W	YPT11	similar to Ypt1 and other Ras-like GTP-binding proteins

```
YOL019W		
```

s: -301 to -203 nt upstream of the ATG start codon: 9 genes

```
YBR296C	PHO89	Probable Na+/Pi symporter
```
```
YEL017W		
```
```
YFR026C		
```

YFR037C	RSC8	chromatin remodeling complex subunit

YJR006W	HYS2	DNA polymerase delta 55 KD subunit

YKL067W	YNK1	Nucleoside diphosphate kinase

```
YLR126C		
```

YMR190C	SGS1	has DNA helicase signature motifs

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

s: -202 to -104 nt upstream of the ATG start codon: 3 genes

YIL140W	SRO4	localizes to the plasma membrane

YMR190C	SGS1	has DNA helicase signature motifs

YMR198W	CIK1	spindle pole body associated protein

s: -103 to -5 nt upstream of the ATG start codon: 6 genes

YAR008W	SEN34	34kDa subunit of the tetrameric tRNA splicing endonuclease

YDR356W	NUF1	component of the spindle pole body that interacts with Spc42p, calmodulin, and a 35 kDa protein

```
YEL017W		
```

YIR017C	MET28	transcriptional activator in the Cbf1p-Met4p-Met28p complex

```
YJL118W		
```

YMR190C	SGS1	has DNA helicase signature motifs

g2: -598 to -500 nt upstream of the ATG start codon: 6 genes

```
YCR086W		
```

YDR389W	SAC7	GTPase activating protein (GAP) for RHO1

```
YKL048C	ELM1	protein kinase
```
```
YKL052C		
```
```
YLR015W		
```
```
YMR299C		
```

g2: -499 to -401 nt upstream of the ATG start codon: 12 genes

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

```
YBR038W	CHS2	chitin synthase 2
```

YBR104W	YMC2	mitochondrial carrier protein

YCR084C	TUP1	glucose repression regulatory protein, exhibits similarity to beta subunits of G proteins

```
YDR324C		
```

YIL106W	MOB1	(putative) transcriptional regulator involved in mitosis

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

```
YLR015W		
```
```
YNR009W		
```

YOL012C	HTA3	An evolutionarily conserved member of the histone H2A F/Z family of histone variants

```
YOR073W		
```

YOR274W	MOD5	transfer RNA isopentenyl transferase

g2: -400 to -302 nt upstream of the ATG start codon: 6 genes

```
YCR085W		
```
```
YDR324C		
```
```
YDR366C		
```
```
YGL101W		
```

YJR112W	NNF1	involved in nuclear function

```
YKL052C		
```

g2: -301 to -203 nt upstream of the ATG start codon: 1 genes

```
YMR299C		
```

g2: -202 to -104 nt upstream of the ATG start codon: 4 genes

```
YBL032W		
```

YCR084C	TUP1	glucose repression regulatory protein, exhibits similarity to beta subunits of G proteins

```
YDR451C		
```
```
YMR003W		
```

g2: -103 to -5 nt upstream of the ATG start codon: 11 genes

```
YBL032W		
```
```
YCL012W		
```
```
YCL012W		
```

YCL014W	BUD3	involved in bud site selection

```
YCR085W		
```
```
YDR451C		
```

YGL255W	ZRT1	high-affinity zinc transport protein

YJR076C	CDC11	Component of 10 nm filaments of mother-bud neck

```
YNR009W		
```

YOR188W	MSB1	involved in polarized growth

YOR274W	MOD5	transfer RNA isopentenyl transferase

m: -598 to -500 nt upstream of the ATG start codon: 3 genes

YCL037C	SRO9	involved in actin filament organization

```
YDL048C	STP4	involved in tRNA splicing
```
```
YOR315W		
```

m: -499 to -401 nt upstream of the ATG start codon: 3 genes

YCL037C	SRO9	involved in actin filament organization

```
YHR151C		
```

YHR152W	SPO12	20 kDa protein with negatively charged C-terminus required for function; thought to be a positive regulator of exit from M-phase in mitosis and meiosis. Spo12p interacts with Dbf2p and Dbf20p protein kinases.

m: -400 to -302 nt upstream of the ATG start codon: 0 genes

m: -301 to -203 nt upstream of the ATG start codon: 4 genes

YGR108W	CLB1	G(sub)2-specific B-type cyclin

```
YKR021W		
```
```
YNL058C		
```
```
YOL137W		
```

m: -202 to -104 nt upstream of the ATG start codon: 4 genes

```
YAR018C	KIN3	protein kinase
```
```
YGL116W	CDC20	beta-transducin homolog
```
```
YHR151C		
```
```
YOL069W	NUF2	53-kDa coiled-coil protein
```

m: -103 to -5 nt upstream of the ATG start codon: 4 genes

YHR152W	SPO12	20 kDa protein with negatively charged C-terminus required for function; thought to be a positive regulator of exit from M-phase in mitosis and meiosis. Spo12p interacts with Dbf2p and Dbf20p protein kinases.

```
YML119W		
```

YMR001C	CDC5	protein kinase which functions at the G(sub)2/M boundary

```
YOL070C		
```

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