From Table Ia: Position-independent, orientation-independent hexamers

AACGCG and/or CGCGTT
are found in the upstream regions of these cell cycle-regulated yeast genes:

early_g1: 14 genes

• YBR231C		

• YER111C	SWI4	transcription factor

• YGR183C	QCR9	7.3 kDa subunit 9 of the ubiquinol cytochrome c oxidoreductase complex

• YGR281W	YOR1	ABC transporter

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

• YLR049C		

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

• YLR274W	CDC46	MCM initiator complex protein

• YML109W	ZDS2	Zds1 homolog

• YML110C	COQ5	Putative mitochondrial C-methyltransferase

• YMR007W		

• YNR001C	CIT1	citrate synthase. Nuclear encoded mitochondrial protein.

• YOR066W		

• YPL066W		

late_g1: 72 genes

• 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

• YDL003W	MCD1	involved in mitosis, similar to pombe Rad21

• YDL010W		

• YDL018C	ERP3	p24 protein involved in membrane trafficking

• YDL101C	DUN1	protein kinase

• YDL105W	QRI2	

• YDL156W		

• YDL164C	CDC9	DNA ligase

• YDR013W		

• YDR097C	MSH6	Homolog of the human GTBP protein, forms a complex with Msh2p to repair both single-base and insertion-deletion mispairs, redundant with Msh3p in repair of insertion-deletion mispairs

• YDR297W	SUR2	Syringomycin response protein 2

• YDR309C	GIC2	Cdc42 binding protein, involved in bud emergence

• YDR507C	GIN4	putative serine/threonine kinase

• YER070W	RNR1	ribonucleotide reductase

• YFL008W	SMC1	omosome segregation protein

• YGL028C	SCW11	soluble cell wall protein

• YGR109C	CLB6	B-type cyclin

• YGR152C	RSR1	GTP-binding protein, ras superfamily

• 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

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

• YJL181W		

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

• 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

• YLL022C	HIF1	interacts with histone acetyltransferase

• YLR103C	CDC45	omosomal DNA replication initiation protein

• YLR183C		

• YLR212C	TUB4	gamma tubulin-like protein, interacts with Spc98p and Spc97p, the Tub4p-Spc98p-Spc97p complex may be part of the microtubule attachment site at the spindle pole body

• YLR233C	EST1	involved in telomere length regulation

• YLR234W	TOP3	DNA Topoisomerase III

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

• YLR382C	NAM2	mitochondrial leucyl tRNA synthetase

• YLR383W	RHC18	involved in recombination repair

• YML021C	UNG1	uracil DNA glycosylase

• YML027W	YOX1	Homeobox-domain containing protein

• YMR078C	CTF18	(putative) involved in chromosome transmission during mitosis

• YMR179W	SPT21	non-specific DNA binding protein

• YMR199W	CLN1	G(sub)1 cyclin

• 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

• YNL102W	POL1	DNA polymerase I alpha subunit, p180

• YNL225C	CNM67	Spindle pole body protein involved in nuclear migration

• YNL262W	POL2	DNA polymerase II

• YNL273W	TOF1	Interacts with topoisomerase I

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

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

• YOL017W		

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

• YOR074C	CDC21	Thymidylate synthase

• YOR144C		

• YOR317W	FAA1	long chain fatty acyl:CoA synthetase

• YPL124W	NIP29	spindle pole body associated protein

• YPL127C	HHO1	histone H1

• YPL153C	RAD53	protein kinase, Mec1p and Tel1p regulate rad53p phosphorylation

• YPL208W		

• YPL209C	IPL1	Protein kinase

• YPL241C	CIN2	involved in microtubule function

• YPL256C	CLN2	G(sub)1 cyclin

• YPL267W		

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

• YPR120C	CLB5	B-type cyclin

• YPR174C		

• YPR175W	DPB2	DNA polymerase epsilon, subunit B

s: 22 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)

• YBR007C		

• YCR065W	HCM1	Transcription factor (fork head domain)

• YDR113C	PDS1	42-kDa nuclear protein

• YDR179C		

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

• YER001W	MNN1	Alpha-1,3-mannosyltransferase

• YER016W	BIM1	microtubule-binding protein

• YER118C	SSU81	Transmembrane osmosensor

• YFR027W	ECO1	involved in establishment of cohesion between sister chromatids

• YFR037C	RSC8	chromatin remodeling complex subunit

• YGR140W	CBF2	110 kDa subunit of the centromere binding factor CBF3

• YIL140W	SRO4	localizes to the plasma membrane

• YJL115W	ASF1	involved in silencing

• YJL118W		

• YLR126C		

• YLR228C	ECM22	involved in cell wall biogenesis (putative)

• 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

• YOR026W	BUB3	cell cycle checkpoint protein

• YOR284W		

• YPL016W	SWI1	Zinc-finger transcription factor

g2: 3 genes

• YBR038W	CHS2	chitin synthase 2

• YCR073C	SSK22	protein kinase

• YIL169C		serine-, threonine-rich protein

m: 2 genes

• YCL037C	SRO9	involved in actin filament organization

• YOR315W