Position dependent TAACA

From Table IIb: Position-dependent, orientation-dependent pentamers
TAACA
is 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

```
YBR157C		
```
```
YBR158W		
```
```
YCL040W	GLK1	Glucokinase
```

YHR005C	GPA1	alpha subunit of G protein coupled to mating factor receptors

```
YLR050C		
```
```
YPR002W		
```

early_g1: -499 to -401 nt upstream of the ATG start codon: 8 genes

```
YCL040W	GLK1	Glucokinase
```
```
YER111C	SWI4	transcription factor
```

YHR005C	GPA1	alpha subunit of G protein coupled to mating factor receptors

```
YLR254C		
```

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

YLR274W	CDC46	MCM initiator complex protein

```
YNL078W		
```
```
YPR002W		
```

early_g1: -400 to -302 nt upstream of the ATG start codon: 8 genes

YBR202W	CDC47	MCM3 protein homolog (S. cerevisiae)

```
YCL040W	GLK1	Glucokinase
```
```
YDR511W		
```

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

```
YGR281W	YOR1	ABC transporter
```

YKL150W	MCR1	NADH-cytochrome b5 reductase

YLR274W	CDC46	MCM initiator complex protein

YLR395C	COX8	Cytochrome-c oxidase chain VIII

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

YBR054W	YRO2	Homolog to HSP30 heat shock protein YRO1 (S. cerevisiae) 7

```
YBR158W		
```
```
YCL040W	GLK1	Glucokinase
```
```
YDL117W		
```
```
YDR511W		
```

YGL055W	OLE1	delta-9-fatty acid desaturase

YLR274W	CDC46	MCM initiator complex protein

YPL058C	PDR12	multidrug resistance transporter

early_g1: -202 to -104 nt upstream of the ATG start codon: 8 genes

```
YDL117W		
```
```
YDL181W	INH1	ATPase inhibitor
```

YHR005C	GPA1	alpha subunit of G protein coupled to mating factor receptors

```
YLR254C		
```
```
YML109W	ZDS2	Zds1 homolog
```
```
YOR065W	CYT1	Cytochrome c1
```

YPL058C	PDR12	multidrug resistance transporter

```
YPL066W		
```

early_g1: -103 to -5 nt upstream of the ATG start codon: 12 genes

YBL023C	MCM2	Minichromosome maintenance protein, transcription factor

```
YBR067C	TIP1	cell wall mannoprotein
```
```
YDL117W		
```
```
YDL179W	PCL9	Cyclin
```
```
YDR033W		
```
```
YGR035C		
```
```
YIL009W	FAA3	Acyl CoA synthase
```

YKL150W	MCR1	NADH-cytochrome b5 reductase

YKL163W	PIR3	Protein containing tandem internal repeats

```
YLR049C		
```
```
YPL066W		
```
```
YPL158C		
```

late_g1: -598 to -500 nt upstream of the ATG start codon: 15 genes

```
YBR071W		
```

YBR073W	RDH54	Putative helicase similar to RAD54

```
YDR493W		
```

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

YKL165C	MCD4	(putative) involved in cell polarity

```
YKR077W		
```
```
YLR286C	CTS1	Endochitinase
```
```
YLR376C		
```

YLR382C	NAM2	mitochondrial leucyl tRNA synthetase

YML027W	YOX1	Homeobox-domain containing protein

YNL173C	MDG1	Involved in G-protein mediated signal transduction

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

```
YOR144C		
```

YOR317W	FAA1	long chain fatty acyl:CoA synthetase

```
YPL014W		
```

late_g1: -499 to -401 nt upstream of the ATG start codon: 23 genes

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

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

```
YDL164C	CDC9	DNA ligase
```
```
YHR154W	ESC4	involved in silencing
```

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

YKL042W	SPC42	component of the spindle pole body

YLL022C	HIF1	interacts with histone acetyltransferase

YLR103C	CDC45	omosomal DNA replication initiation protein

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

```
YLR326W		
```

YLR382C	NAM2	mitochondrial leucyl tRNA synthetase

YLR383W	RHC18	involved in recombination repair

```
YLR457C	NBP1	Nap1p binding protein
```

YNL272C	SEC2	GDP/GTP exchange factor for Sec4p

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

```
YNL300W		
```
```
YNL303W		
```

YNL309W	STB1	Interacts with the putative transcription factor Sin3p

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

YPL124W	NIP29	spindle pole body associated protein

```
YLR236C		
```
```
YLR349W		
```
```
YCL061C		
```

late_g1: -400 to -302 nt upstream of the ATG start codon: 17 genes

```
YBR070C		involved in osmotolerance
```
```
YDL101C	DUN1	protein kinase
```
```
YDL127W	PCL2	G1 cyclin
```

YDL227C	HO	Homothallic switching endonuclease

```
YDR493W		
```
```
YHR154W	ESC4	involved in silencing
```

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

```
YJL187C	SWE1	protein kinase homolog
```

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

YNL102W	POL1	DNA polymerase I alpha subunit, p180

```
YNL303W		
```
```
YNL310C		
```

YPL153C	RAD53	protein kinase, Mec1p and Tel1p regulate rad53p phosphorylation

```
YPL187W	MF(ALPHA)1	mating factor alpha
```

YPL241C	CIN2	involved in microtubule function

```
YPL267W		
```

YPR175W	DPB2	DNA polymerase epsilon, subunit B

late_g1: -301 to -203 nt upstream of the ATG start codon: 6 genes

```
YKR077W		
```

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

YNL225C	CNM67	Spindle pole body protein involved in nuclear migration

YPL124W	NIP29	spindle pole body associated protein

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

late_g1: -202 to -104 nt upstream of the ATG start codon: 17 genes

```
YAR003W		beta transducin domain
```

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

YBL035C	POL12	B subunit of DNA polymerase alpha-primase complex

```
YER070W	RNR1	ribonucleotide reductase
```
```
YGR109C	CLB6	B-type cyclin
```
```
YHR154W	ESC4	involved in silencing
```

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

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

```
YLR234W	TOP3	DNA Topoisomerase III
```
```
YLR286C	CTS1	Endochitinase
```
```
YLR326W		
```

YML027W	YOX1	Homeobox-domain containing protein

YNL225C	CNM67	Spindle pole body protein involved in nuclear migration

```
YNL262W	POL2	DNA polymerase II
```
```
YPL256C	CLN2	G(sub)1 cyclin
```
```
YPL267W		
```
```
YPR174C		
```

late_g1: -103 to -5 nt upstream of the ATG start codon: 35 genes

YBR278W	DPB3	C and C' subunits of DNA polymerase II

YDL003W	MCD1	involved in mitosis, similar to pombe Rad21

```
YDL101C	DUN1	protein kinase
```
```
YDL105W	QRI2	
```
```
YDL124W		
```

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

```
YDR493W		
```

YDR507C	GIN4	putative serine/threonine kinase

```
YER070W	RNR1	ribonucleotide reductase
```

YGR041W	BUD9	involved in bud-site selection

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

YGR238C	KEL2	involved in cell fusion and morphology; contains six Kelch repeats

YHR038W	FIL1	Putative mitochondrial ribosome recycling factor

YJL173C	RFA3	subunit 3 of replication factor-A

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

YLL002W	KIM2	diepoxybutane and mitomycin C resistance

YLL022C	HIF1	interacts with histone acetyltransferase

YLR103C	CDC45	omosomal DNA replication initiation protein

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

YML027W	YOX1	Homeobox-domain containing protein

YMR078C	CTF18	(putative) involved in chromosome transmission during mitosis

```
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

```
YNL262W	POL2	DNA polymerase II
```

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

```
YNL303W		
```

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

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

```
YOR074C	CDC21	Thymidylate synthase
```

YOR316C	COT1	involved in cobalt accumulation

```
YPR174C		
```

YPR175W	DPB2	DNA polymerase epsilon, subunit B

s: -598 to -500 nt upstream of the ATG start codon: 4 genes

```
YBR007C		
```

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

YIL140W	SRO4	localizes to the plasma membrane

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: -499 to -401 nt upstream of the ATG start codon: 7 genes

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

```
YDR219C		
```

YIL140W	SRO4	localizes to the plasma membrane

```
YJL118W		
```

YKL067W	YNK1	Nucleoside diphosphate kinase

YLR228C	ECM22	involved in cell wall biogenesis (putative)

```
YOL019W		
```

s: -400 to -302 nt upstream of the ATG start codon: 8 genes

YBL052C	SAS3	involved in silencing at HMR

YDR252W	BTT1	negative regulator of RNA polymerase II

YFR027W	ECO1	involved in establishment of cohesion between sister chromatids

YHR061C	GIC1	interacts with GTPase, involved in bud emergence

YIL126W	STH1	helicase related protein, snf2 homolog

```
YLL062C		
```

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: -301 to -203 nt upstream of the ATG start codon: 6 genes

YAR008W	SEN34	34kDa subunit of the tetrameric tRNA splicing endonuclease

```
YDR113C	PDS1	42-kDa nuclear protein
```
```
YDR219C		
```

YFR027W	ECO1	involved in establishment of cohesion between sister chromatids

YMR190C	SGS1	has DNA helicase signature motifs

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

s: -202 to -104 nt upstream of the ATG start codon: 9 genes

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

YCR065W	HCM1	Transcription factor (fork head domain)

```
YDL096C		
```

YDL197C	ASF2	Anti-silencing protein, involved in transcription

YDR488C	PAC11	similar to rat dynein intermediate chain

```
YEL017W		
```

YFR027W	ECO1	involved in establishment of cohesion between sister chromatids

YGR140W	CBF2	110 kDa subunit of the centromere binding factor CBF3

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

s: -103 to -5 nt upstream of the ATG start codon: 16 genes

YAR008W	SEN34	34kDa subunit of the tetrameric tRNA splicing endonuclease

```
YBR184W		
```

YCR035C	RRP43	Component of the exosome 3->5 exoribonuclease complex with Rrp4p, Rrp41p, Rrp42p and Dis3p (Rrp44p).

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

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

```
YDR179C		
```

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

```
YER118C	SSU81	Transmembrane osmosensor
```

YIL126W	STH1	helicase related protein, snf2 homolog

```
YJL115W	ASF1	involved in silencing
```

YJR137C	ECM17	Putative sulfite reductase

```
YLR126C		
```
```
YLR151C		
```

YLR228C	ECM22	involved in cell wall biogenesis (putative)

```
YMR048W		
```
```
YOR284W		
```

g2: -598 to -500 nt upstream of the ATG start codon: 4 genes

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

```
YGL101W		
```

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

```
YMR299C		
```

g2: -499 to -401 nt upstream of the ATG start codon: 5 genes

YDR464W	SPP41	negative regulator of prp genes

YIL106W	MOB1	(putative) transcriptional regulator involved in mitosis

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

```
YLL046C	RNP1	ribonucleoprotein 1
```
```
YMR299C		
```

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

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

YDR464W	SPP41	negative regulator of prp genes

```
YIL050W	PCL7	PHO85 cyclin
```

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

```
YOR073W		
```
```
YPL264C		
```

g2: -301 to -203 nt upstream of the ATG start codon: 10 genes

```
YCL063W		
```

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

```
YDR325W		
```

YIL106W	MOB1	(putative) transcriptional regulator involved in mitosis

YJL137C	GLG2	glycogen synthesis initiator

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

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

```
YKL052C		
```
```
YKL069W		
```
```
YOR073W		
```

g2: -202 to -104 nt upstream of the ATG start codon: 7 genes

```
YCR073C	SSK22	protein kinase
```

YDR464W	SPP41	negative regulator of prp genes

YIL106W	MOB1	(putative) transcriptional regulator involved in mitosis

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

```
YJR110W		
```

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

```
YOR073W		
```

g2: -103 to -5 nt upstream of the ATG start codon: 12 genes

```
YDR366C		
```
```
YDR451C		
```

YER069W	ARG5,6	N-acetyl-gamma-glutamyl-phosphate reductase and acetylglutamate kinase

```
YGL101W		
```
```
YIL050W	PCL7	PHO85 cyclin
```

YIL106W	MOB1	(putative) transcriptional regulator involved in mitosis

YJL099W	CHS6	involved in chitin biosynthesis

YJR112W	NNF1	involved in nuclear function

```
YKL048C	ELM1	protein kinase
```

YKL068W	NUP100	Nuclear pore complex protein homologous to Nup116p

```
YMR215W		
```

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

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

YCR042C	TSM1	TATA binding protein-associated factor (TAF)

YGL201C	MCM6	component of MCM initiator complex involved in DNA replication

YGR092W	DBF2	Serine/threonine protein kinase

YGR143W	SKN1	encodes a predicted type II membrane protein highly homologous to Kre6p

```
YKR021W		
```

YMR032W	HOF1	SH3 domain containing-protein

m: -499 to -401 nt upstream of the ATG start codon: 6 genes

```
YAR018C	KIN3	protein kinase
```
```
YDL138W	RGT2	glucose permease
```

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

```
YIL167W		
```
```
YKR021W		
```
```
YOL137W		
```

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

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

```
YKL130C	SHE2	involved in cell polarity
```
```
YLR190W		
```

YPL242C	IQG1	Similar to mammalian IQGAP proteins

m: -301 to -203 nt upstream of the ATG start codon: 11 genes

```
YDR146C	SWI5	transcriptional activator
```

YGL201C	MCM6	component of MCM initiator complex involved in DNA replication

```
YKL130C	SHE2	involved in cell polarity
```
```
YKR021W		
```

YLR353W	BUD8	involved in bud site selection

```
YML033W		
```

YMR032W	HOF1	SH3 domain containing-protein

YOR025W	HST3	involved in telomeric silencing

```
YOR315W		
```
```
YPL186C		
```

YPR167C	MET16	3'phosphoadenylylsulfate reductase

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

YCR042C	TSM1	TATA binding protein-associated factor (TAF)

```
YDL138W	RGT2	glucose permease
```

YGL201C	MCM6	component of MCM initiator complex involved in DNA replication

YLR131C	ACE2	zinc finger transcription factor

```
YML033W		
```
```
YPR157W		
```

m: -103 to -5 nt upstream of the ATG start codon: 18 genes

```
YAR018C	KIN3	protein kinase
```

YCL037C	SRO9	involved in actin filament organization

```
YCL038C		Membrane transporter
```
```
YDL048C	STP4	involved in tRNA splicing
```
```
YDR146C	SWI5	transcriptional activator
```

YGL021W	ALK1	DNA damage-responsive protein

YGR230W	BNS1	similar to Spo12, involved in sporulation

```
YHR023W	MYO1	Class II Myosin
```

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.

```
YKL129C	MYO3	myosin I
```
```
YML119W		
```
```
YNL058C		
```
```
YOL014W		
```
```
YOL069W	NUF2	53-kDa coiled-coil protein
```
```
YOL070C		
```

YOR025W	HST3	involved in telomeric silencing

```
YPL186C		
```

YPL242C	IQG1	Similar to mammalian IQGAP proteins

From Table IIb: Position-dependent, orientation-dependent pentamers TAACA is found in the upstream regions of these cell cycle-regulated yeast genes in the following intervals:

From Table IIb: Position-dependent, orientation-dependent pentamers
TAACA
is found in the upstream regions of these cell cycle-regulated yeast genes in the following intervals: