The DNA sequence, annotation and analysis of human chromosome 3.

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Muzny DM, Scherer SE, Kaul R, Wang J, Yu J, Sudbrak R, Buhay CJ, Chen R, Cree A, Ding Y, Dugan-Rocha S, Gill R, Gunaratne P, Harris RA, Hawes AC, Hernandez J, Hodgson AV, Hume J, Jackson A, Khan ZM, Kovar-Smith C, Lewis LR, Lozado RJ, Metzker ML, Milosavljevic A, Miner GR, Morgan MB, Nazareth LV, Scott G, Sodergren E, Song XZ, Steffen D, Wei S, Wheeler DA, Wright MW, Worley KC, Yuan Y, Zhang Z, Adams CQ, Ansari-Lari MA, Ayele M, Brown MJ, Chen G, Chen Z, Clendenning J, Clerc-Blankenburg KP, Chen R, Chen Z, Davis C, Delgado O, Dinh HH, Dong W, Draper H, Ernst S, Fu G, Gonzalez-Garay ML, Garcia DK, Gillett W, Gu J, Hao B, Haugen E, Havlak P, He X, Hennig S, Hu S, Huang W, Jackson LR, Jacob LS, Kelly SH, Kube M, Levy R, Li Z, Liu B, Liu J, Liu W, Lu J, Maheshwari M, Nguyen BV, Okwuonu GO, Palmeiri A, Pasternak S, Perez LM, Phelps KA, Plopper FJ, Qiang B, Raymond C, Rodriguez R, Saenphimmachak C, Santibanez J, Shen H, Shen Y, Subramanian S, Tabor PE, Verduzco D, Waldron L, Wang J, Wang J, Wang Q, Williams GA, Wong GK, Yao Z, Zhang J, Zhang X, Zhao G, Zhou J, Zhou Y, Nelson D, Lehrach H, Reinhardt R, Naylor SL, Yang H, Olson M, Weinstock G, Gibbs RA

The DNA sequence, annotation and analysis of human chromosome 3.

Nature. 2006 Apr 27;440(7088):1194-8.

PubMed ID
16641997 [ View in PubMed
]
Abstract

After the completion of a draft human genome sequence, the International Human Genome Sequencing Consortium has proceeded to finish and annotate each of the 24 chromosomes comprising the human genome. Here we describe the sequencing and analysis of human chromosome 3, one of the largest human chromosomes. Chromosome 3 comprises just four contigs, one of which currently represents the longest unbroken stretch of finished DNA sequence known so far. The chromosome is remarkable in having the lowest rate of segmental duplication in the genome. It also includes a chemokine receptor gene cluster as well as numerous loci involved in multiple human cancers such as the gene encoding FHIT, which contains the most common constitutive fragile site in the genome, FRA3B. Using genomic sequence from chimpanzee and rhesus macaque, we were able to characterize the breakpoints defining a large pericentric inversion that occurred some time after the split of Homininae from Ponginae, and propose an evolutionary history of the inversion.

DrugBank Data that Cites this Article

Polypeptides
NameUniProt ID
Aminomethyltransferase, mitochondrialP48728Details
TransketolaseP29401Details
Pyruvate dehydrogenase E1 component subunit beta, mitochondrialP11177Details
Sodium channel protein type 10 subunit alphaQ9Y5Y9Details
Sodium channel protein type 11 subunit alphaQ9UI33Details
Sodium channel protein type 5 subunit alphaQ14524Details
Peroxisome proliferator-activated receptor gammaP37231Details
Calcium-transporting ATPase type 2C member 1P98194Details
NADH dehydrogenase [ubiquinone] 1 beta subcomplex subunit 5, mitochondrialO43674Details
Sodium- and chloride-dependent GABA transporter 1P30531Details
Sodium-coupled neutral amino acid transporter 3Q99624Details
NADH dehydrogenase [ubiquinone] 1 beta subcomplex subunit 4O95168Details
Retinol-binding protein 1P09455Details
Thyroid hormone receptor betaP10828Details
GMP synthase [glutamine-hydrolyzing]P49915Details
Succinyl-CoA ligase [GDP-forming] subunit beta, mitochondrialQ96I99Details
5-hydroxytryptamine receptor 1FP30939Details
Aminoacylase-1Q03154Details
SerotransferrinP02787Details
Propionyl-CoA carboxylase beta chain, mitochondrialP05166Details
D(3) dopamine receptorP35462Details
Peroxisomal bifunctional enzymeQ08426Details
Choline dehydrogenase, mitochondrialQ8NE62Details
Chloride channel protein 2P51788Details
Activated CDC42 kinase 1Q07912Details
Glutathione peroxidase 1P07203Details
Glutathione peroxidase 3P22352Details
T-lymphocyte activation antigen CD86P42081Details
T-lymphocyte activation antigen CD80P33681Details
C-C chemokine receptor type 5P51681Details
Cytosolic 10-formyltetrahydrofolate dehydrogenaseO75891Details
Catenin beta-1P35222Details
LactotransferrinP02788Details
Kininogen-1P01042Details
Solute carrier family 2, facilitated glucose transporter member 2P11168Details
Prostatic acid phosphataseP15309Details
Solute carrier family 15 member 2Q16348Details
Sucrase-isomaltase, intestinalP14410Details
Transforming protein RhoAP61586Details
Nicotinamide/nicotinic acid mononucleotide adenylyltransferase 3Q96T66Details
TetranectinP05452Details
Acidic amino acid decarboxylase GADL1Q6ZQY3Details
Procollagen-lysine,2-oxoglutarate 5-dioxygenase 2O00469Details
Prolyl 3-hydroxylase 2Q8IVL5Details
Glutamine--tRNA ligaseP47897Details
Succinate receptor 1Q9BXA5Details
Diacylglycerol kinase gammaP49619Details
Voltage-dependent L-type calcium channel subunit alpha-1DQ01668Details
Voltage-dependent calcium channel subunit alpha-2/delta-2Q9NY47Details
C-C chemokine receptor type 2P41597Details
cAMP-dependent protein kinase type II-alpha regulatory subunitP13861Details
Interleukin-5 receptor subunit alphaQ01344Details
Microtubule-associated protein 4P27816Details
Carboxypeptidase N subunit 2P22792Details
V-type proton ATPase catalytic subunit AP38606Details
NischarinQ9Y2I1Details
Gamma-aminobutyric acid receptor subunit rho-3A8MPY1Details
Multidrug resistance-associated protein 5O15440Details
Adenylate cyclase type 5O95622Details
60S ribosomal protein L15P61313Details
6-phosphofructo-2-kinase/fructose-2,6-bisphosphatase 4Q16877Details
Guanine nucleotide-binding protein G(t) subunit alpha-1P11488Details
Poly [ADP-ribose] polymerase 3Q9Y6F1Details
Arylacetamide deacetylase-like 2Q6P093Details
Actin-related protein 2/3 complex subunit 4P59998Details
Poly [ADP-ribose] polymerase 15Q460N3Details
Calcium-activated potassium channel subunit beta-3Q9NPA1Details
Uridine 5'-monophosphate synthaseP11172Details
1-phosphatidylinositol 4,5-bisphosphate phosphodiesterase delta-1P51178Details
Glycogenin-1P46976Details
3-ketoacyl-CoA thiolase, peroxisomalP09110Details
Inositol 1,4,5-trisphosphate receptor type 1Q14643Details
Ras-related protein Rab-5AP20339Details
Sodium bicarbonate cotransporter 3Q9Y6M7Details
Sodium- and chloride-dependent GABA transporter 3P48066Details
Protein cereblonQ96SW2Details
Serine/threonine-protein kinase Nek11Q8NG66Details
5-hydroxytryptamine receptor 3DQ70Z44Details
5-hydroxytryptamine receptor 3EA5X5Y0Details
Interphotoreceptor matrix proteoglycan 2Q9BZV3Details
Sodium/potassium-transporting ATPase subunit beta-3P54709Details
Histone deacetylase 11Q96DB2Details
Solute carrier family 41 member 3Q96GZ6Details
Calcium-dependent secretion activator 1Q9ULU8Details
Tubulin monoglycylase TTLL3Q9Y4R7Details
Alpha-2-HS-glycoproteinP02765Details
Inter-alpha-trypsin inhibitor heavy chain H1P19827Details
Inter-alpha-trypsin inhibitor heavy chain H3Q06033Details
Inter-alpha-trypsin inhibitor heavy chain H4Q14624Details
60S ribosomal protein L14P50914Details
Sodium- and chloride-dependent taurine transporterP31641Details
Nuclear receptor subfamily 1 group D member 2Q14995Details
TRAF2 and NCK-interacting protein kinaseQ9UKE5Details
Ephrin type-A receptor 6Q9UF33Details
Ephrin type-B receptor 1P54762Details
Mitogen-activated protein kinase kinase kinase 13O43283Details
Macrophage-stimulating protein receptorQ04912Details
Myosin light chain kinase, smooth muscleQ15746Details
Serine/threonine-protein kinase Nek4P51957Details
P2Y purinoceptor 13Q9BPV8Details
Potassium voltage-gated channel subfamily H member 8Q96L42Details
Plasma membrane calcium-transporting ATPase 2Q01814Details
Beta-galactosidaseP16278Details
Hyaluronidase-3O43820Details
Hyaluronidase-1Q12794Details
Hyaluronidase-2Q12891Details
CX3C chemokine receptor 1P49238Details
Microphthalmia-associated transcription factorO75030Details
Arylacetamide deacetylaseP22760Details