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BIOLOGICAL DIVERSITY


Group I Cluster
(AUTUAUUUAUUUAUUUAUUUA) stretch:

MMSET type I (MMSET)

AF071594

Cell Growth/Differentiation

GDP-L-fucose:beta-D-galactoside 2-alpha-l-Fucosyltransferase

M35531

Metabolism, carbohydrate

Cellular growth-regulating protein

L10844

Cell Growth

Gro-beta (melanoma stimulating growth factor)

M57731

Cell Growth

Pim-1

M16750

Signal Transduction, oncogenes

Neuoron-specific gamma-2 enolase

M22349

Development/Differentiation

Nuclear matrix protein NRP/B (NRPB)

AF059611

DNA Transcription/Differentiation

Natural killer cell stimulatory factor (IL-12)

M65290

Hematopoiesis, Immune Response

Granulocyte-macrophage colony

stimulating factor (GM-CSF)     

M11220

Hematopoiesis

Adipogenesis inhibitory factor (IL-11)

X58377

Hematopoiesis, metabolism

Natural resistance-associated macrophage protein

D50402

Immune Response

Interleukin 1-beta

M15330

Inflammation

Tumor necrosis factor

X01394

Inflammation

Group II  Cluster
(AUUUAUUUAUUUAUUUA) stretch:

Apoptosis inducing (TRAIL) receptor 2

AF016849 Apoptosis

Death receptor 5 (DR5)

AF012535 Apoptosis

K-ras oncogene protein

M54968 Signal Transduction

Thioredoxin reductase

S79851 Metabolism, Redox

Interleukin-10 receptor

U00672 Immune Regulation, receptors

Tyrosine kinase (ELK1) oncogene

M25269 Transcriptional Regulation

6-phosphofructo-2-kinase/fructose 2,6-bisphosphatase (PFKFB)

AF109735 Metabolism, carbohydrate

Inducible 6-phosphofructo-2-kinase/fructose 2,6-bisphosphatase (IPFK-2)

AF056320 Metabolism, carbohydrate

MOP1, basic-helix-loop-helix-PAS

U29165 Transcriptional Regulation

Cytokine-inducible SH2-containing protein (G18)

AF132297 Signal Transduction, inhibitors

K-Cl cotransporter KCC4

AF10536 Nutrient Transport

Dishevelled 1 (DVL1)

AF006011 Signal Transduction

Guanine nucleotide regulatory factor (LFP40)

U72206 Cellular Motility/biogenesis

Zinc finger containing protein ZNF157 (ZNF157)

U28687 DNA Transcription

Tubulin-folding cofactor C

U61234 Cellular motility/biogenesis

Interferon(LyIFN-alpha-1)

E00102 Immune Response, Innate

Alpha-interferon Gx-1

E00124 Immune Response, Innate

Inteferon-alpha

V00542 Immune response, Innate

Leukocyte interferon-alpha, clone pIFN105

M28585 Immune Response, Innate

Interferon alpha J

E00052 Immune Response, Innate

Messenger RNA for human leukocyte interferon    

V00542 Immune Response, Innate

Angiotensin/vasopressin receptor AII/AVP

AF054176 Signal Transduction, receptors

c-fos proto-oncogene

V01512 Transcriptional Regulation

Group III Cluster
(WATUUAUUUAUUUAW) stretch:

Interferon (IFN-alpha-M1)

M27318 Immune Response, Innate

B-cell leukemia/lymphoma 2 (bcl-2) proto-oncogene

M13994 Apoptosis

Condoroitin 6-sulfotransferase

AB017915 Metabolism, sulphate

Sodium bicarbonate cotransporter 3 (SLC4A7)

AF047033 Metabolism, Transport

Cyclooxygenase-2 (Cox-2)

M90100 Inflammation

Neuralized mRNA

AF029729 Development, neural

Gro (growth regulated) gene

J03561 Cellular Growth

Epiregulin

D30783 Cellular growth

A-kinase anchor protein

U17195 Signal Transduction

CREB-binding protein

U47741 Transcriptional Regulation

L-type amino acid transporter subunit LAT1

AF104032 Nutrient Transport

Zinc-finger DNA-binding motifs (IA-1)

M93119 Transcriptional Regulation

Interleukin 3

M20137 Haematopoiesis

E16

M80244 Signal Transduction, receptors

2-oxoglutarate dehydrogenase

D10523 Metabolism, energy

SIRP-beta1

Y10376 Signal Transduction, inhibitors

Putative sulphate transporter (PDS)

AF030880 Nutrient Transport

Interleukin 2 (IL2)

U25676 Immune Response, adaptive

Post-synaptic density protein 95 (PSD95)

U83192 Neural Regulation

Dihydrolipoamide dehydrogenase-binding protein

AF001437 Metabolism, energy

Type 2 iodothyronine deiodinase

AF093774 Metabolism, hormones

RGP G-protein 3

U27655 Signal Transduction

Alpha endosulfine

AF067170 Nutrient Transport, regulation

Tumor necrosis factor alpha inducible A20 zinc finger protein

M59465 Transcriptional Regulation

Vascular endothelial growth factor

AF022375 Cellular Growth, angiogenesis

Inhibitor of apoptosis protein-1 (MIHC)

AF070674 Apoptosis, regulation

A28-RGS14p

U70426 Signal Transduction

TNFR2-TRAF signaling complex protein

L49432 Transcriptional Regulation

Fibrillin-2

U03272 Cellular Motility/Biogenesis

Farnesylated-proteins converting enzyme 1

Y13834 Protein modification

D-1 dopamine receptor

X58987 Signal Transduction, neural

HEB helix-loop-helix protein (HEB)

M80627 Transcriptional Regulation

IFN-omega 1

A12140 Immune Response, innate

Interferon beta

X04430 Immune Response, innate

Lymphotoxin

E01275 Immune Response

Musashi/Nrp-1

AB012851 Development, neural

Thiamine carrier 1 (TC1)

AF153330 Metabolism, nutrient transport

Transcription factor (HTF4A)

M83233 Transcription

Phospholipase C-beta-2

M95678 Signal Transduction

Onconeural ventral antigen-1 (Nova-1)

U04840 Development/Differentiaion, neural

Protein tyrosine kinase mRNA

M59371 Signal Transduction

Tyrosine kinase receptor p145TRK-B (TRK-B)

U12140 Signal Transduction, receptors

Protein-tyrosine phosphatase

U27193 Signal Transduction, inhibitors

Transcriptional regulatory protein p54

AF045451 Transcriptional Regulation

cAMP phosphodiesterase PDE7 (PDE7A1

L12052 Signal Transduction

Retinoic acid receptor gamma 1

M38258 Transcriptional Regulation, receptors

Tissue factor (thromboplastin)

A19048 Inflammation

c-sis/platelet derived growth factor 2 (PDGF2)

AF022375 Cellular growth, oncogenes

Endothelial leukocyte adhesion molecule-1 (ELAM-1)   

M30640 Inflammation

Group IV Cluster
(
WWAUUUAUUUAWW) stretch:

175 sequences available with other group at http://brp.kfshrc.edu.sa/ared
View Group IV Cluster (text format)

Group V Cluster
(
WWWWAUUUAWWWW) stretch:

582 sequences available with other group at http://brp.kfshrc.edu.sa/ared
View Group V Cluster (text format)

The ARE-mRNAs were clustered into five groups containing five, four, three, and two pentameric repeats, while the last group contains only one pentamer within the 13-bp ARE pattern.  Functional categories were assigned whenever possible according to NCBI-COG functional annotation (77) (in addition to the categories: inflammation, immune response, Development/Differentiation (using an extensive PubMed literature search. Those ARE-mRNAs, which do not have known biological function in Groups I-III are not shown in the table. Members of the training list (Table 1) are highlighted in bold.