Rice Gene Index (RGI): a comprehensive pan-genome database for comparative and functional genomics of Asian rice.

Basic Info

Gene ID		OGI # \| Score			Accession \| Assembly \| Annotation			Location		Links
OsNaBo_10g0005740		OGI:10024530 \| 16/16			NATEL BORO \| Os127652RS1 \| Gramene(+IsoSeq)			Chr10:8353787-8359406		Homologues MicroCollinearity RGI-JBrowse
Gene Symbol		PEPCK, OsPEPCK
DNA seq		atacatcactctgaaatagcttttaatatatatatgtcaccatcctcAaaatgggcattttgttcagttttaccgtacaagactaggtaacgagagataccatattttagtgttaatttatgatactttttggtactttacactagagaagtaccataaggtatcaaaaatttacactaaaataagtggtaccttgcgatacatcctcgaggaacataaaaaatcccttttatttggtatacattaagacatactactactattcaattaaaatcagaaatttggtcctgcagcagcaatctcatcagccagatcactaacaccacctttcttgtaatttgcaaataccttgaaatttctcttgaacagatctgccagctttagaagtgtcaacttgtatgagtctttgtcttcccactacatcatagttgaaaatggttggccaagctgcagcataaatcccatgcaaaaatatataatgttgaaattatggacttacggtatttattgggtcaagcaattcagatggaactccttccacttttgtggggatgtctagtccaaagacatctgtctttttgtagcttgtagccaaaagctcacccgagtgaatggcatcgatgattttccttgtgtaggccaagctgattcgctcacctacaccataactgaacaaccacaaagtgtgacatagtatgtgggtaagtttgtctaggccaagattatgcaagtttttcttctgtgctttggaggtacgtatataccttttagtagaggtattatatctcttgatgattaataacaccatatacctctacctccaccatagatcagagctcatatttcaatattactatactcAaatggactaggtttgtcagaccatacattatatgtcctacttgagtgctataaattattatttaaatcacaagtttgaaaTtttgaggtataaatccctaattgcaattcaaacaagcgtcatccttacaattctcgaagtacgtacttactctcgctaattagttgatgattttttttaatggaattcaatccagcctctacatcaaattagttgagtaatcatagtaaacataatatcagaaaaacaagtcAacagtttaatttaccttcccccgatccaaccagtgttgacaagccatccggtagctccatgcttgttcatcttatctgccagcatggcagcgtaccgagttgggtggagcattataaaagctgcaccaaagcaggcagaaaatgtagcctgtggctccttgataccatcttcagttccagcgacctacacattgccatatatagcaacacgagaactaagaccaatagttcctccaatagagattaaatctaataaactgtgtctaattaccaatgcagtgtagccactgataaaatggtacatggtttgtgcatggctcaacttgctgacaggagggaggacaccaaatgcatcacatgcaagtaggataacattctttgggtgtggcccaacacatggtatcttagcattagctatgtattcaatagggtaagcagcacgggtattctctgcagaacagattatgaatgtcatgaattaggtacaattttctgttagtgtcacatgctatattctataaggttattatacttcggaaaacatttacctgtgacagatttttctgtataatcaacttcacgggagtgctcatcgaaaacaacattctccaacactAaaagttgatcaacgagagtaattaagAaaagaagtaaaaataaatccaaagttgttgagttgataaattctgcaagtgaggtgcatatagaagaaggattttgatccctcgaggggatatccccttgttgtctgcatttcactcaaatggttatgaaaaaatttgAaaaaaaattaagaagatgtattaacatgtgaatttgaacttacatatttgtggagtgttatatcatatgttaatacaccttctcaaTtttttttaatttttttcataaccatttaagtgacatgcaaagaacgagaggatatcctctctagggattaaaaaagtttccccgtgcatatacctgtgccaaacttgattgcatcccaaatgtcaggttctttctcctgagaaagatctatgcacttagcatagcagccgccctcaatgttagagataccattatcactccagcagtgttcatcatcaccaattaagatcctattcctgtctgttgacagagttgtctttccagtaccttgaagcatgcatatttagatagttactcacaagtaaaaacatatagtaattgccaatcaagaactatcttatcgcaaccattataaataattcagctacctgacaatccaaaaaacagggctacatcaccccctctgcccatgttgcagccagagtgcaacgagaggatctgctttttgggcatgaggtagtgcatcacactgaagaggcctttcttcatctctccagcatattgtgttcccaggatgaccatttctctccgcttaagatttaagtctatgctagttgacgatgtcatgtaatgcgtgtaacggttgcacgggaactgtccagcattgtagatggtgaagtcgggctcgccaaaattctctagttcctcgtatgttggccggatgcacctgtcatttacaaagaaaagtatttatatggaaacgcactaccagaatttgtactattctcAagtatcatgttgaataattggaatgacttgtaatatatagtaactactagaagcattaaagattgaaaattctggtagtactatttatgtttgagatacacgaaggcaaagtgaggatttacttatcttgttcagggtggcataaggagtgacctagaacagttcagagtattagaattgtctccatttgctggtacaaacatttgcacttacatgttgtgcatgaagagagaatggtaggccctcgcagagatgattcgaacttttatcctattgttggggtcccagtttaggaactgatcattaacAaacacctgtgacgaaattcatcattaaatacagtactatagtaacacattcaggtttagatgtcaagttacataggacaaatttccaTttttgttttgtaacactacctgcaatgtgcttagtttgatgttttaaagttgttttccataaacctgtcactcatgcaccacaattttttttaaaagaaacattacaggattatatcaccaaactgcagccacaacattcaatattcatgaaggtgtgatagccctagcctaccttatcaagggagttcaagtagtcaacagctctctccctgttgatcagaaaggtttgctcgtccatttcaatgtttggtgatccccttaaataagtgaaaaaaaaattatttgttcgctcaactttatattgtatggactataaatttggaaatagttttttaagtgtttatcatttgctctggtcagggatgcttacttgccccaccacagatcatctgttgtttcatccttgacaacacgcttgtccctaggtgatcgaccggtctttgctcctgatagcgtcgctaacgccccactggatgtgatgaatgaccctttctcatatttgattgcatgctcatAaagttctacacagcaaaaaaaaaaaaaacacacaGagagagaggttatgtaaagagaactcagcatagtaagatgtggattttctaaacctgtgtgcatgctaattagatgagacgtaagttgtaatgcatctatcattctatcaaattttcattgctgAaaaatatggattacatatagaagcaaataatagaaatagctttagggagtaaagtgaaccgtttttaatattttaggatgtAaaataagccaaaaaataatttaggagtttaagtactcgggtaaaataatttggatgtgtgtaccagaaggggataagttgtacagaacatGggtgaacttgaggtcactgtcgctcacagtgatcgtggggacagtgatatggtgttggtgatgtgtcacagccttgccagccatttCttttttccttgctgggtcaccgttgacgagttttggcccaatcccacatgtcatcgatgccaaagacgcactgtataattcattgtaaatatgcatagatgtcaatccatatgAaaatgatagccacatgtatttgttttacagaactaataaccacgtattggaattgattgaagtatcgaaattaatactttaagtataacagctgtatgcatgcttacatatgtatcgatattttcctcgtataaatgtgattcttaaaatggagaaaaattatcacaaatttcataagttcgttaagtcgcaatgaccacatgagagtcacaaacaggtactttctaggaacttaaTGtgtgttactttagatataaaaactataacccttAaagaactgtgtaataaaagatataatggtataaataaattttgtgaaaaatcatcttatatcatttccAaataggaaaaatctaaacatgtgtacaatAaatatcgtgccatagtttcaaagatattgcacatagttagcatatagttgacgaaatttAacaccatcTtagaacatgtgtaccAacccgtctacgcaatcaaccatttatgctatactatcccttttAaaaaaaataaggaagaagatgcaggatatagttctaaaatgtatgttgctctctagttagtactaaatggtatgttggggtttgctacttcattggttttcataagcacactttacagactatAaatggtatgtGtttttacAaaatcctttctatataaaagttactttttaaaaaaataaatctatttttcaaatttacaatagcgtgtactccctctgtcccataaaaaattaatctgaacatatctctgtccagattcgttgtattacatccgatcctatattcttttttttagaacggagggagtacttcattaattatatactaataatctcattttctgtatcagagaaaacagccccaacctcttttaaactcagccttagtcggacccaaatgatcatgcaaaacttccacgactacacaaccaattctgtacaattccgaccattttaaaCcccagctcactgatcaccagacatacacccaaaaaaaattaattaacacatgtactgatgtacaattccattgatatttctaacAaaattaaatgaacggcatgatgtgcatgcagcaaacgggagcatcaaaatacatgacctgatggactgaagctgcagcctgtggcgatcctccactacctgaggcttcctctgcagcgagtgtagctcgtcgacagtgttcgccctcaccggtgtcgcgctgtcgtcgtggcacacgccgtcttcctCcctcctgctgccgtatccgttcgtccccagccatgcttgcccgtctttcgcctccatcatttcgatcccttctgcaagagccaaaacaaacagaaacgaagcaactcaagaacagagtaatcgcttggtacaatcttatgatcgatcATatagtaatgggatgcttacagaaatggagcgagagtagagatgctgaagagagaaagactgaagttttcagaat More
CDS seq		atgatggaggcgaaagacgggcaagcatggctggggacgaacggatacggcagcaggaggGaggaagacggcgtgtgccacgacgacagcgcgacaccggtgagggcgaacactgtcgacgagctacactcgctgcagaggaagcctcaggtagtggaggatcgccacaggctgcagcttcagtccatcagtgcgtctttggcatcgatgacatgtgggattgggccaaaactcgtcaacggtgacccagcaaggaaaaaaGaaatggctggcaaggctgtgacacatcaccaacaccatatcactgtccccacgatcactgtgagcgacagtgacctcaagttcaccCatgttctgtacaacttatccccttctgaacttTatgagcatgcaatcaaatatgagaaagggtcattcatcacatccagtggggcgttagcgacgctatcaggagcaaagaccggtcgatcacctagggacaagcgtgttgtcaaggatgaaacaacagatgatctgtggtggggcaagggatcaccaaacattgaaatggacgagcaaacctttctgatcaacagggagagagctgttgactacttgaactcccttgataaggtgttTgttaatgatcagttcctaaactgggaccccaacaataggataaaagttcgaatcatctctgcgagggcctaccattctctcttcatgcacaacatgtgcatccggccaacatacgaggaactagagaattttggcgagcccgacttcaccatctacaatgctggacagttcccgtgcaaccgttacacgcattacatgacatcgtcaactagcatagacttaaatcttaagcggagagaaatggtcatcctgggaacacaatatgctggagagatgaagaaaggcctcttcagtgtgatgcactacctcatgcccaaaaagcagatcctctcgttgcactctggctgcaacatgggcagagggggtgatgtagccctgttttttggattgtcaggtactggaaagacaactctgtcaacagacaggaataggatcttaattggtgatgatgaacactgctggagtgataatgtgttggagaatgttgttttcgatgagcactcccgtgaagttgattatacagaaaaatctgtcacagagaatacccgtgctgcttaccctattgaatacatagctaatgctaagataccatgtgttgggccacacccaaagaatgttatcctacttgcatgtgatgcatttggtgtcctccctcctgtcagcaagttgagccatgcacaaaccatgtaccattttatcagtggctacactgcattggtcgctggaactgaagatggtatcaaggagccacaggctacattttctgcctgctttggtgcagcttttataatgctccacccaactcggtacgctgccatgctggcagataagatgaacaagcatggagctaccggatggcttgtcaacactggttggatcgggggaagttatggtgtaggtgagcgaatcagcttggcctacacaaggaaaatcatcgatgccattcactcgggtgagcttttggctacaagctacaaaaagacagatgtctttggactagacatccccacaaaagtggaaggagttccatctgaattgcttgacccaataaatacctgggaagacaaagactcatacaagttgacacttctaaagctggcagatctgttcaagagaaatttcaaggtatttgcaaattacaagaaaggtggtgttagtgatctggctgatgagattgctgctgcaggaccaaatttctga More
Protein seq		MMEAKDGQAWLGTNGYGSRREEDGVCHDDSATPVRANTVDELHSLQRKPQVVEDRHRLQLQSISASLASMTCGIGPKLVNGDPARKKEMAGKAVTHHQHHITVPTITVSDSDLKFTHVLYNLSPSELYEHAIKYEKGSFITSSGALATLSGAKTGRSPRDKRVVKDETTDDLWWGKGSPNIEMDEQTFLINRERAVDYLNSLDKVFVNDQFLNWDPNNRIKVRIISARAYHSLFMHNMCIRPTYEELENFGEPDFTIYNAGQFPCNRYTHYMTSSTSIDLNLKRREMVILGTQYAGEMKKGLFSVMHYLMPKKQILSLHSGCNMGRGGDVALFFGLSGTGKTTLSTDRNRILIGDDEHCWSDNVLENVVFDEHSREVDYTEKSVTENTRAAYPIEYIANAKIPCVGPHPKNVILLACDAFGVLPPVSKLSHAQTMYHFISGYTALVAGTEDGIKEPQATFSACFGAAFIMLHPTRYAAMLADKMNKHGATGWLVNTGWIGGSYGVGERISLAYTRKIIDAIHSGELLATSYKKTDVFGLDIPTKVEGVPSELLDPINTWEDKDSYKLTLLKLADLFKRNFKVFANYKKGGVSDLADEIAAAGPNF
Function		Phosphoenolpyruvate carboxykinase (ATP) [UniProtKB/Swiss-Prot:Q9T074]

Transcripts

Gene	Transcript	Chromosome	Start	End	Strand	Source
OsNaBo_10g0005740	OsNaBo_10g0005740.02	Chr10	8353787	8359406	-	NAM
CDS seq	atgatggaggcgaaagacgggcaagcatggctggggacgaacggatacggcagcaggaggGaggaagacggcgtgtgccacgacgacagcgcgacaccggtgagggcgaacactgtcgacgagctacactcgctgcagaggaagcctcaggtagtggaggatcgccacaggctgcagcttcagtccatcagtgcgtctttggcatcgatgacatgtgggattgggccaaaactcgtcaacggtgacccagcaaggaaaaaaGaaatggctggcaaggctgtgacacatcaccaacaccatatcactgtccccacgatcactgtgagcgacagtgacctcaagttcaccCatgttctgtacaacttatccccttctgaacttTatgagcatgcaatcaaatatgagaaagggtcattcatcacatccagtggggcgttagcgacgctatcaggagcaaagaccggtcgatcacctagggacaagcgtgttgtcaaggatgaaacaacagatgatctgtggtggggcaagggatcaccaaacattgaaatggacgagcaaacctttctgatcaacagggagagagctgttgactacttgaactcccttgataaggtgttTgttaatgatcagttcctaaactgggaccccaacaataggataaaagttcgaatcatctctgcgagggcctaccattctctcttcatgcacaacatgtgcatccggccaacatacgaggaactagagaattttggcgagcccgacttcaccatctacaatgctggacagttcccgtgcaaccgttacacgcattacatgacatcgtcaactagcatagacttaaatcttaagcggagagaaatggtcatcctgggaacacaatatgctggagagatgaagaaaggcctcttcagtgtgatgcactacctcatgcccaaaaagcagatcctctcgttgcactctggctgcaacatgggcagagggggtgatgtagccctgttttttggattgtcaggtactggaaagacaactctgtcaacagacaggaataggatcttaattggtgatgatgaacactgctggagtgataatgtgttggagaatgttgttttcgatgagcactcccgtgaagttgattatacagaaaaatctgtcacagagaatacccgtgctgcttaccctattgaatacatagctaatgctaagataccatgtgttgggccacacccaaagaatgttatcctacttgcatgtgatgcatttggtgtcctccctcctgtcagcaagttgagccatgcacaaaccatgtaccattttatcagtggctacactgcattggtcgctggaactgaagatggtatcaaggagccacaggctacattttctgcctgctttggtgcagcttttataatgctccacccaactcggtacgctgccatgctggcagataagatgaacaagcatggagctaccggatggcttgtcaacactggttggatcgggggaagttatggtgtaggtgagcgaatcagcttggcctacacaaggaaaatcatcgatgccattcactcgggtgagcttttggctacaagctacaaaaagacagatgtctttggactagacatccccacaaaagtggaaggagttccatctgaattgcttgacccaataaatacctgggaagacaaagactcatacaagttgacacttctaaagctggcagatctgttcaagagaaatttcaaggtatttgcaaattacaagaaaggtggtgttagtgatctggctgatgagattgctgctgcaggaccaaatttctga More
Protein seq	MMEAKDGQAWLGTNGYGSRREEDGVCHDDSATPVRANTVDELHSLQRKPQVVEDRHRLQLQSISASLASMTCGIGPKLVNGDPARKKEMAGKAVTHHQHHITVPTITVSDSDLKFTHVLYNLSPSELYEHAIKYEKGSFITSSGALATLSGAKTGRSPRDKRVVKDETTDDLWWGKGSPNIEMDEQTFLINRERAVDYLNSLDKVFVNDQFLNWDPNNRIKVRIISARAYHSLFMHNMCIRPTYEELENFGEPDFTIYNAGQFPCNRYTHYMTSSTSIDLNLKRREMVILGTQYAGEMKKGLFSVMHYLMPKKQILSLHSGCNMGRGGDVALFFGLSGTGKTTLSTDRNRILIGDDEHCWSDNVLENVVFDEHSREVDYTEKSVTENTRAAYPIEYIANAKIPCVGPHPKNVILLACDAFGVLPPVSKLSHAQTMYHFISGYTALVAGTEDGIKEPQATFSACFGAAFIMLHPTRYAAMLADKMNKHGATGWLVNTGWIGGSYGVGERISLAYTRKIIDAIHSGELLATSYKKTDVFGLDIPTKVEGVPSELLDPINTWEDKDSYKLTLLKLADLFKRNFKVFANYKKGGVSDLADEIAAAGPNF More

Gene	Transcript	Chromosome	Start	End	Strand	Source
OsNaBo_10g0005740	OsNaBo_10g0005740.01	Chr10	8353787	8359406	-	NAM
CDS seq	atgatggaggcgaaagacgggcaagcatggctggggacgaacggatacggcagcaggaggGaggaagacggcgtgtgccacgacgacagcgcgacaccggtgagggcgaacactgtcgacgagctacactcgctgcagaggaagcctcaggtagtggaggatcgccacaggctgcagcttcagtccatcagtgcgtctttggcatcgatgacatgtgggattgggccaaaactcgtcaacggtgacccagcaaggaaaaaaGaaatggctggcaaggctgtgacacatcaccaacaccatatcactgtccccacgatcactgtgagcgacagtgacctcaagttcaccCatgttctgtacaacttatccccttctgaacttTatgagcatgcaatcaaatatgagaaagggtcattcatcacatccagtggggcgttagcgacgctatcaggagcaaagaccggtcgatcacctagggacaagcgtgttgtcaaggatgaaacaacagatgatctgtggtggggcaagggatcaccaaacattgaaatggacgagcaaacctttctgatcaacagggagagagctgttgactacttgaactcccttgataaggtgttTgttaatgatcagttcctaaactgggaccccaacaataggataaaagttcgaatcatctctgcgagggcctaccattctctcttcatgcacaacatgtgcatccggccaacatacgaggaactagagaattttggcgagcccgacttcaccatctacaatgctggacagttcccgtgcaaccgttacacgcattacatgacatcgtcaactagcatagacttaaatcttaagcggagagaaatggtcatcctgggaacacaatatgctggagagatgaagaaaggcctcttcagtgtgatgcactacctcatgcccaaaaagcagatcctctcgttgcactctggctgcaacatgggcagagggggtgatgtagccctgttttttggattgtcaggtactggaaagacaactctgtcaacagacaggaataggatcttaattggtgatgatgaacactgctggagtgataatgtgttggagaatgttgttttcgatgagcactcccgtgaagttgattatacagaaaaatctgtcacagagaatacccgtgctgcttaccctattgaatacatagctaatgctaagataccatgtgttgggccacacccaaagaatgttatcctacttgcatgtgatgcatttggtgtcctccctcctgtcagcaagttgagccatgcacaaaccatgtaccattttatcagtggctacactgcattggtcgctggaactgaagatggtatcaaggagccacaggctacattttctgcctgctttggtgcagcttttataatgctccacccaactcggtacgctgccatgctggcagataagatgaacaagcatggagctaccggatggcttgtcaacactggttggatcgggggaaggtaa More
Protein seq	MMEAKDGQAWLGTNGYGSRREEDGVCHDDSATPVRANTVDELHSLQRKPQVVEDRHRLQLQSISASLASMTCGIGPKLVNGDPARKKEMAGKAVTHHQHHITVPTITVSDSDLKFTHVLYNLSPSELYEHAIKYEKGSFITSSGALATLSGAKTGRSPRDKRVVKDETTDDLWWGKGSPNIEMDEQTFLINRERAVDYLNSLDKVFVNDQFLNWDPNNRIKVRIISARAYHSLFMHNMCIRPTYEELENFGEPDFTIYNAGQFPCNRYTHYMTSSTSIDLNLKRREMVILGTQYAGEMKKGLFSVMHYLMPKKQILSLHSGCNMGRGGDVALFFGLSGTGKTTLSTDRNRILIGDDEHCWSDNVLENVVFDEHSREVDYTEKSVTENTRAAYPIEYIANAKIPCVGPHPKNVILLACDAFGVLPPVSKLSHAQTMYHFISGYTALVAGTEDGIKEPQATFSACFGAAFIMLHPTRYAAMLADKMNKHGATGWLVNTGWIGGR More

Event Type	Chromosome	Start	End	Strand	Alternative mRNAs	Total mRNAs	Source
RI	Chr10	8354286	8355086	-	OsNaBo_10g0005740.01	OsNaBo_10g0005740.01,OsNaBo_10g0005740.02	All

Expression

	Leaf	Root	Panicle
FPKM	0.0	0.0	0.000000

Homologues

Genome & Annotation	Homologs	Type	Expression(FPKM)
Genome & Annotation	Homologs	Type	Leaf	Root	Panicle
Nipponbare \| IRGSP 1.0 \| Gramene(+IsoSeq)	OsNip_10g0204400	RBH	1.101321	0.576761	0.640526
Nipponbare \| IRGSP 1.0 \| MSU	LOC_Os10g13700	RBH	0.844830	0.486094	0.304640
Nipponbare \| IRGSP 1.0 \| RAP-db	Os10g0204400	RBH	None	None	None
Azucena \| AzucenaRS1 \| Gramene(+IsoSeq)	OsAzu_10g0005690	RBH	0.0	0.0	0.0
KETAN NANGKA \| Os128077RS1 \| Gramene(+IsoSeq)	OsKeNa_10g0005590	RBH	0.000000	4.977574	0.000000
CHAO MEO \| Os132278RS1 \| Gramene(+IsoSeq)	OsCMeo_10g0005530	RBH	0.188256	0.686445	6.258861
ARC 10497 \| Os117425RS1 \| Gramene(+IsoSeq)	OsARC_10g0005860	RBH	0.0	0.046133	None
PR 106 \| Os127742RS1 \| Gramene(+IsoSeq)	OsPr106_10g0005530	RBH	0.0	18.946213	0.000000
Minghui 63 \| MH63RS3 \| HZAU	OsMH63_10G0125400	RBH	0.2360025	0.9128685	4.610118
IR 64 \| OsIR64RS1 \| Gramene(+IsoSeq)	OsIR64_10g0005740	RBH	0.000000	0.000000	0.209453
Zhenshan 97 \| ZS97RS3 \| HZAU	OsZS97_10G0130700	RBH	1.2212025	0.1650125	0.101631
LIMA \| Os127564RS1 \| Gramene(+IsoSeq)	OsLima_10g0005610	RBH	0.031632	6.861538	None
KHAO YAI GUANG \| Os127518RS1 \| Gramene(+IsoSeq)	OsKYG_10g0005660	RBH	0.0	0.0	None
GOBOL SAIL \| Os132424RS1 \| Gramene(+IsoSeq)	OsGoSa_10g0005770	RBH	0.000000	20.231873	None
LIU XU \| Os125827RS1 \| Gramene(+IsoSeq)	OsLiXu_10g0005520	RBH	0.061314	0.0	0.000000
LARHA MUGAD \| Os125619RS1 \| Gramene(+IsoSeq)	OsLaMu_10g0005870	RBH	0.147037	0.0	None
N22 \| OsN22RS2 \| Gramene(+IsoSeq)	OsN22_10G005710	RBH	0.0	0.339605	0.000000
NATEL BORO \| Os127652RS1 \| Gramene(+IsoSeq)	OsNaBo_03g0010960	RBH	10.948016	87.683693	5.756063

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National Key Laboratory of Crop Genetic Improvement

Huazhong Agricultural University

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