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
OsLiXu_06g0020990		OGI:06064590 \| 16/16			LIU XU \| Os125827RS1 \| Gramene(+IsoSeq)			Chr06:24094624-24098784		Homologues MicroCollinearity RGI-JBrowse
Gene Symbol		-
DNA seq		atgctttaccacgactttgagtcttccatcacagcctgcgagcaccatttgaaggttcttgtacttcggtttcacaacaagttatgcacttgaaactcagaagctatttaagacaggtgagttcgccttacctgagatgcaatacattatacccattgtctcttgatcatcctgggttcaatggagctaggaagctttcttcttgggcagtaagctttcttcttgcagctgctttgctatctaacgccccaagcaccaccgatgcctccatgctcaaagctccaactgcaaacactgcctccaacagctcagatcgccaagtgctcctctcattcaagtcactcataacaaaagacccctctggagcgctcacctcatggggaaacaggtcactgcaccactgcagatggcaaggtgtgacgtgcgggaagcgtgggcgtcgtcgtggtcgcgtcatcgccatcgaccttaacaatctcgggctggttggtagcatctccccttccatttctaatcttacgtacctcaggaagctccacttgccacagaaccagtttggtgggcacatcccacatgaactcggccttcttgacgatcttaagtttctgaacttgagtatcaactctctcgagggagaaattccgacatctctgtctcaatgctcgtgtcttcaaaccattagtttgtggtacaataacctccaaggcagaattccatccaatcttagccactgttcatacctccgaaccattgaggtctttgctaattatctagagggagagatacccagtgagcttggttcactccaacgtcttgagctcctcaatctttacaataataatctcacaggaagcatcccttcttacatagggaatttaaaaaacttaatcttgattgatataagtgataatggcctcactggatccatccctcctgaaattggcaaccttcaaaatttgcagttcatggactttggaaagaacaaactttcaggatccattccagcatctttaggtaacctattctccctaaattggttggatcttggaaacaacagtctcgttggaaccatcccgccatcacttggtggactcccttatctcagtacttttattttagcaaggaacaaacttgtagggaacatccctccatcattagggaacctttcttccctcacagagttaaactttgcaaggaataatcttactggaatcatcccccattccttaggcaatatttatggtctgcatagtctccgtcttacggagaacatgctcacaggcaccattccttcgtccctaggcaaacttattaatcttgtttatattggtttgcagttcaacaaccttataggggagatccctctatcgctatttaacctctcatctcttcagaagctggatctgcaaaataataagttaagtggcagcttgcagaattattttggagataagttccctctactccagggacttgccttgaatgacaacaaatttcatggtcccattcctttatccctttccaactgttcaatgcttgaactaattcaactagatagtaactcattctcaggaacaattccttcaaatctcggaaacctcaagagattgtccaaactgcgtctcgattacaataaattagaggcaaactacaactctgactgggatttcttgaacgccttgacaaactgcacccaactacaagttctgcagttaagtttcaataggcttaggggtgtgctaccacactcactttctaatctttcaatcagcttagaacacctagcgattctcaacaatgaagtaggaggaaatatacctgaaggaattgggaggctttctaatttgatggcactttacatgggtcctaatctcctcactggttccatacctgcttctctcggaaaactatcaaaattgaatgtgatatcactagctcaaaatagactatcaggagagatcccaccaactcttggaaatctcacacagttgagtgaactctatctatctatgaatgcatttactggggaaataccttcagctcttggaaaatgccctttaggtgtattagctcttgcttacaacaaacttagtggaaatataccaaaagaaattttctcgtctagtagactaagatccattagcttgctgagcaacatgttagtagggcccatgccttcggagcttggtctattgaaaaatttgcaaggtcttgatttctcacaaaacaagctaactggtgagattcccatctcaattggaggatgccagagtttggaattccttcttgtttcacaaaatttccttcatggttcaattccttctacaatgaacaagttgacaggccttcaagagctagatctttcaagcaacaacatttcggggatcattccagtgtttcttggcagctttattggtctcacgtatctgaacctctccttcaacaacttgataggtgaagttccagatgatgggatatttcgtaatgcaactgcattctcaattgttggaaatgtgggcctatgtgggggcattccagtattaagtttgccatcatgtacaaaccaacaagcaagagagcataaattcccaaaactagctgtagccatgtcagtgtccataacatgcttgtttcttgtcatcggcataggtttgatctccgttttatgtaagaaacataaatccagcagtggacagacatctaccagagctatcaggaatcaactgccaagagtttcttatactgagctatctatgggaacaaatgggttctcctcttcaaatctcattggtgaaggaagatttggttcagtgtacaaggcaaatatgagtttcgatcaatatagtgttgttgcagtaaaggtactcaagctccaagagaggggagcatcacatagttttcttgtggaatgtgaggcattaagatacctacggcatcgcaatcttgtgaagatattaacagcttgctcatcaattgatcctagggggcatgattttaaagcacttatctttgagtatctaccaaatggaagccttgaaaaatggttgcatactcatatagatgagcaaagtgatcaaagtgtcctaaatatttaccagaagctaagcattgccaccgatgtaggatctgcagtggagtatcttcatgattacaagccagttccaatagttcattgtgatcttaagcctagcaatattcttctagacagtgatatgatggctcatgtgggtgactttggactggcaaggttcacaaatcaaggagataacaatgcatctcaagtctcatccagctgggccgcatttagagggaccattggatatgctgctccaggtgcgcatttatcacttgccaaaaatatacttcttgccttgttaccatttaaaatatatgagacatttacgataccttgtaaataatttacttaggtaatgacccattgagcttatgcttgtgctgcattcacattttcagaatatggaattggcaatgaagttactacaagtggagatgtttatagctatgggataatcttactagaaatgtttacaggaagaaggcctaccgaacaaaattagtatatacttacagtacaatgtaccgtaaaagttctctagtgtagaggatgttgtggaccagaatctcatattaccaagggaagacacagagatggatcacaacacactcctaaacaaggaagcagcacttgcatgcataacttctattttgagggttggtatcctctgttcaaaacaattgcctacagaacgggtgcaaatacgagatgttgtaatagaacttcacaaaatcaaagaaaaattctttccatgaagagtccatttatgaagaagggtaagtccagtaccagaaaatgcatgtgagcaagcagagtagtaggcagacggagttcataaagcttactccttaagtagcaaaatagtctggtactagatacatagtccaaaagtggagtttgaataattgaccatctaggcatcaaggcttgtcatattatcttgaatttcacttcatatgtaaatcatgtaatgcataccagtattatcttcctaaagcaataaacaatgttgtatcggtaccttgacttcaaggatgtgaacttactaagaaaatgatcaatttttcgtattggcagtacagtga More
CDS seq		atgctttaccacgactttgagtcttccatcacagcctgcgagcaccatttgaaggttcttgtacttcggtttcacaacaagaagctttcttcttgggcagtaagctttcttcttgcagctgctttgctatctaacgccccaagcaccaccgatgcctccatgctcaaagctccaactgcaaacactgcctccaacagctcagatcgccaagtgctcctctcattcaagtcactcataacaaaagacccctctggagcgctcacctcatggggaaacaggtcactgcaccactgcagatggcaaggtgtgacgtgcgggaagcgtgggcgtcgtcgtggtcgcgtcatcgccatcgaccttaacaatctcgggctggttggtagcatctccccttccatttctaatcttacgtacctcaggaagctccacttgccacagaaccagtttggtgggcacatcccacatgaactcggccttcttgacgatcttaagtttctgaacttgagtatcaactctctcgagggagaaattccgacatctctgtctcaatgctcgtgtcttcaaaccattagtttgtggtacaataacctccaaggcagaattccatccaatcttagccactgttcatacctccgaaccattgaggtctttgctaattatctagagggagagatacccagtgagcttggttcactccaacgtcttgagctcctcaatctttacaataataatctcacaggaagcatcccttcttacatagggaatttaaaaaacttaatcttgattgatataagtgataatggcctcactggatccatccctcctgaaattggcaaccttcaaaatttgcagttcatggactttggaaagaacaaactttcaggatccattccagcatctttaggtaacctattctccctaaattggttggatcttggaaacaacagtctcgttggaaccatcccgccatcacttggtggactcccttatctcagtacttttattttagcaaggaacaaacttgtagggaacatccctccatcattagggaacctttcttccctcacagagttaaactttgcaaggaataatcttactggaatcatcccccattccttaggcaatatttatggtctgcatagtctccgtcttacggagaacatgctcacaggcaccattccttcgtccctaggcaaacttattaatcttgtttatattggtttgcagttcaacaaccttataggggagatccctctatcgctatttaacctctcatctcttcagaagctggatctgcaaaataataagttaagtggcagcttgcagaattattttggagataagttccctctactccagggacttgccttgaatgacaacaaatttcatggtcccattcctttatccctttccaactgttcaatgcttgaactaattcaactagatagtaactcattctcaggaacaattccttcaaatctcggaaacctcaagagattgtccaaactgcgtctcgattacaataaattagaggcaaactacaactctgactgggatttcttgaacgccttgacaaactgcacccaactacaagttctgcagttaagtttcaataggcttaggggtgtgctaccacactcactttctaatctttcaatcagcttagaacacctagcgattctcaacaatgaagtaggaggaaatatacctgaaggaattgggaggctttctaatttgatggcactttacatgggtcctaatctcctcactggttccatacctgcttctctcggaaaactatcaaaattgaatgtgatatcactagctcaaaatagactatcaggagagatcccaccaactcttggaaatctcacacagttgagtgaactctatctatctatgaatgcatttactggggaaataccttcagctcttggaaaatgccctttaggtgtattagctcttgcttacaacaaacttagtggaaatataccaaaagaaattttctcgtctagtagactaagatccattagcttgctgagcaacatgttagtagggcccatgccttcggagcttggtctattgaaaaatttgcaaggtcttgatttctcacaaaacaagctaactggtgagattcccatctcaattggaggatgccagagtttggaattccttcttgtttcacaaaatttccttcatggttcaattccttctacaatgaacaagttgacaggccttcaagagctagatctttcaagcaacaacatttcggggatcattccagtgtttcttggcagctttattggtctcacgtatctgaacctctccttcaacaacttgataggtgaagttccagatgatgggatatttcgtaatgcaactgcattctcaattgttggaaatgtgggcctatgtgggggcattccagtattaagtttgccatcatgtacaaaccaacaagcaagagagcataaattcccaaaactagctgtagccatgtcagtgtccataacatgcttgtttcttgtcatcggcataggtttgatctccgttttatgtaagaaacataaatccagcagtggacagacatctaccagagctatcaggaatcaactgccaagagtttcttatactgagctatctatgggaacaaatgggttctcctcttcaaatctcattggtgaaggaagatttggttcagtgtacaaggcaaatatgagtttcgatcaatatagtgttgttgcagtaaaggtactcaagctccaagagaggggagcatcacatagttttcttgtggaatgtgaggcattaagatacctacggcatcgcaatcttgtgaagatattaacagcttgctcatcaattgatcctagggggcatgattttaaagcacttatctttgagtatctaccaaatggaagccttgaaaaatggttgcatactcatatagatgagcaaagtgatcaaagtgtcctaaatatttaccagaagctaagcattgccaccgatgtaggatctgcagtggagtatcttcatgattacaagccagttccaatagttcattgtgatcttaagcctagcaatattcttctagacagtgatatgatggctcatgtgggtgactttggactggcaaggttcacaaatcaaggagataacaatgcatctcaagtctcatccagctgggccgcatttagagggaccattggatatgctgctccagtacagtga More
Protein seq		MLYHDFESSITACEHHLKVLVLRFHNKKLSSWAVSFLLAAALLSNAPSTTDASMLKAPTANTASNSSDRQVLLSFKSLITKDPSGALTSWGNRSLHHCRWQGVTCGKRGRRRGRVIAIDLNNLGLVGSISPSISNLTYLRKLHLPQNQFGGHIPHELGLLDDLKFLNLSINSLEGEIPTSLSQCSCLQTISLWYNNLQGRIPSNLSHCSYLRTIEVFANYLEGEIPSELGSLQRLELLNLYNNNLTGSIPSYIGNLKNLILIDISDNGLTGSIPPEIGNLQNLQFMDFGKNKLSGSIPASLGNLFSLNWLDLGNNSLVGTIPPSLGGLPYLSTFILARNKLVGNIPPSLGNLSSLTELNFARNNLTGIIPHSLGNIYGLHSLRLTENMLTGTIPSSLGKLINLVYIGLQFNNLIGEIPLSLFNLSSLQKLDLQNNKLSGSLQNYFGDKFPLLQGLALNDNKFHGPIPLSLSNCSMLELIQLDSNSFSGTIPSNLGNLKRLSKLRLDYNKLEANYNSDWDFLNALTNCTQLQVLQLSFNRLRGVLPHSLSNLSISLEHLAILNNEVGGNIPEGIGRLSNLMALYMGPNLLTGSIPASLGKLSKLNVISLAQNRLSGEIPPTLGNLTQLSELYLSMNAFTGEIPSALGKCPLGVLALAYNKLSGNIPKEIFSSSRLRSISLLSNMLVGPMPSELGLLKNLQGLDFSQNKLTGEIPISIGGCQSLEFLLVSQNFLHGSIPSTMNKLTGLQELDLSSNNISGIIPVFLGSFIGLTYLNLSFNNLIGEVPDDGIFRNATAFSIVGNVGLCGGIPVLSLPSCTNQQAREHKFPKLAVAMSVSITCLFLVIGIGLISVLCKKHKSSSGQTSTRAIRNQLPRVSYTELSMGTNGFSSSNLIGEGRFGSVYKANMSFDQYSVVAVKVLKLQERGASHSFLVECEALRYLRHRNLVKILTACSSIDPRGHDFKALIFEYLPNGSLEKWLHTHIDEQSDQSVLNIYQKLSIATDVGSAVEYLHDYKPVPIVHCDLKPSNILLDSDMMAHVGDFGLARFTNQGDNNASQVSSSWAAFRGTIGYAAPVQ
Function		Receptor kinase-like protein Xa21 [UniProtKB/Swiss-Prot:Q1MX30]

Transcripts

Gene	Transcript	Chromosome	Start	End	Strand	Source
OsLiXu_06g0020990	OsLiXu_06g0020990.01	Chr06	24094624	24098784	+	NAM
CDS seq	atgctttaccacgactttgagtcttccatcacagcctgcgagcaccatttgaaggttcttgtacttcggtttcacaacaagaagctttcttcttgggcagtaagctttcttcttgcagctgctttgctatctaacgccccaagcaccaccgatgcctccatgctcaaagctccaactgcaaacactgcctccaacagctcagatcgccaagtgctcctctcattcaagtcactcataacaaaagacccctctggagcgctcacctcatggggaaacaggtcactgcaccactgcagatggcaaggtgtgacgtgcgggaagcgtgggcgtcgtcgtggtcgcgtcatcgccatcgaccttaacaatctcgggctggttggtagcatctccccttccatttctaatcttacgtacctcaggaagctccacttgccacagaaccagtttggtgggcacatcccacatgaactcggccttcttgacgatcttaagtttctgaacttgagtatcaactctctcgagggagaaattccgacatctctgtctcaatgctcgtgtcttcaaaccattagtttgtggtacaataacctccaaggcagaattccatccaatcttagccactgttcatacctccgaaccattgaggtctttgctaattatctagagggagagatacccagtgagcttggttcactccaacgtcttgagctcctcaatctttacaataataatctcacaggaagcatcccttcttacatagggaatttaaaaaacttaatcttgattgatataagtgataatggcctcactggatccatccctcctgaaattggcaaccttcaaaatttgcagttcatggactttggaaagaacaaactttcaggatccattccagcatctttaggtaacctattctccctaaattggttggatcttggaaacaacagtctcgttggaaccatcccgccatcacttggtggactcccttatctcagtacttttattttagcaaggaacaaacttgtagggaacatccctccatcattagggaacctttcttccctcacagagttaaactttgcaaggaataatcttactggaatcatcccccattccttaggcaatatttatggtctgcatagtctccgtcttacggagaacatgctcacaggcaccattccttcgtccctaggcaaacttattaatcttgtttatattggtttgcagttcaacaaccttataggggagatccctctatcgctatttaacctctcatctcttcagaagctggatctgcaaaataataagttaagtggcagcttgcagaattattttggagataagttccctctactccagggacttgccttgaatgacaacaaatttcatggtcccattcctttatccctttccaactgttcaatgcttgaactaattcaactagatagtaactcattctcaggaacaattccttcaaatctcggaaacctcaagagattgtccaaactgcgtctcgattacaataaattagaggcaaactacaactctgactgggatttcttgaacgccttgacaaactgcacccaactacaagttctgcagttaagtttcaataggcttaggggtgtgctaccacactcactttctaatctttcaatcagcttagaacacctagcgattctcaacaatgaagtaggaggaaatatacctgaaggaattgggaggctttctaatttgatggcactttacatgggtcctaatctcctcactggttccatacctgcttctctcggaaaactatcaaaattgaatgtgatatcactagctcaaaatagactatcaggagagatcccaccaactcttggaaatctcacacagttgagtgaactctatctatctatgaatgcatttactggggaaataccttcagctcttggaaaatgccctttaggtgtattagctcttgcttacaacaaacttagtggaaatataccaaaagaaattttctcgtctagtagactaagatccattagcttgctgagcaacatgttagtagggcccatgccttcggagcttggtctattgaaaaatttgcaaggtcttgatttctcacaaaacaagctaactggtgagattcccatctcaattggaggatgccagagtttggaattccttcttgtttcacaaaatttccttcatggttcaattccttctacaatgaacaagttgacaggccttcaagagctagatctttcaagcaacaacatttcggggatcattccagtgtttcttggcagctttattggtctcacgtatctgaacctctccttcaacaacttgataggtgaagttccagatgatgggatatttcgtaatgcaactgcattctcaattgttggaaatgtgggcctatgtgggggcattccagtattaagtttgccatcatgtacaaaccaacaagcaagagagcataaattcccaaaactagctgtagccatgtcagtgtccataacatgcttgtttcttgtcatcggcataggtttgatctccgttttatgtaagaaacataaatccagcagtggacagacatctaccagagctatcaggaatcaactgccaagagtttcttatactgagctatctatgggaacaaatgggttctcctcttcaaatctcattggtgaaggaagatttggttcagtgtacaaggcaaatatgagtttcgatcaatatagtgttgttgcagtaaaggtactcaagctccaagagaggggagcatcacatagttttcttgtggaatgtgaggcattaagatacctacggcatcgcaatcttgtgaagatattaacagcttgctcatcaattgatcctagggggcatgattttaaagcacttatctttgagtatctaccaaatggaagccttgaaaaatggttgcatactcatatagatgagcaaagtgatcaaagtgtcctaaatatttaccagaagctaagcattgccaccgatgtaggatctgcagtggagtatcttcatgattacaagccagttccaatagttcattgtgatcttaagcctagcaatattcttctagacagtgatatgatggctcatgtgggtgactttggactggcaaggttcacaaatcaaggagataacaatgcatctcaagtctcatccagctgggccgcatttagagggaccattggatatgctgctccagtacagtga More
Protein seq	MLYHDFESSITACEHHLKVLVLRFHNKKLSSWAVSFLLAAALLSNAPSTTDASMLKAPTANTASNSSDRQVLLSFKSLITKDPSGALTSWGNRSLHHCRWQGVTCGKRGRRRGRVIAIDLNNLGLVGSISPSISNLTYLRKLHLPQNQFGGHIPHELGLLDDLKFLNLSINSLEGEIPTSLSQCSCLQTISLWYNNLQGRIPSNLSHCSYLRTIEVFANYLEGEIPSELGSLQRLELLNLYNNNLTGSIPSYIGNLKNLILIDISDNGLTGSIPPEIGNLQNLQFMDFGKNKLSGSIPASLGNLFSLNWLDLGNNSLVGTIPPSLGGLPYLSTFILARNKLVGNIPPSLGNLSSLTELNFARNNLTGIIPHSLGNIYGLHSLRLTENMLTGTIPSSLGKLINLVYIGLQFNNLIGEIPLSLFNLSSLQKLDLQNNKLSGSLQNYFGDKFPLLQGLALNDNKFHGPIPLSLSNCSMLELIQLDSNSFSGTIPSNLGNLKRLSKLRLDYNKLEANYNSDWDFLNALTNCTQLQVLQLSFNRLRGVLPHSLSNLSISLEHLAILNNEVGGNIPEGIGRLSNLMALYMGPNLLTGSIPASLGKLSKLNVISLAQNRLSGEIPPTLGNLTQLSELYLSMNAFTGEIPSALGKCPLGVLALAYNKLSGNIPKEIFSSSRLRSISLLSNMLVGPMPSELGLLKNLQGLDFSQNKLTGEIPISIGGCQSLEFLLVSQNFLHGSIPSTMNKLTGLQELDLSSNNISGIIPVFLGSFIGLTYLNLSFNNLIGEVPDDGIFRNATAFSIVGNVGLCGGIPVLSLPSCTNQQAREHKFPKLAVAMSVSITCLFLVIGIGLISVLCKKHKSSSGQTSTRAIRNQLPRVSYTELSMGTNGFSSSNLIGEGRFGSVYKANMSFDQYSVVAVKVLKLQERGASHSFLVECEALRYLRHRNLVKILTACSSIDPRGHDFKALIFEYLPNGSLEKWLHTHIDEQSDQSVLNIYQKLSIATDVGSAVEYLHDYKPVPIVHCDLKPSNILLDSDMMAHVGDFGLARFTNQGDNNASQVSSSWAAFRGTIGYAAPVQ More

Event Type

Chromosome

Start

End

Strand

Alternative mRNAs

Total mRNAs

Source

Expression

	Leaf	Root	Panicle
FPKM	0.0	0.0	0.0

Homologues

Genome & Annotation	Homologs	Type	Expression(FPKM)
Genome & Annotation	Homologs	Type	Leaf	Root	Panicle
Nipponbare \| IRGSP 1.0 \| Gramene(+IsoSeq)	OsNip_06g0583600	RBH	0.0	0.120431	0.574042
Nipponbare \| IRGSP 1.0 \| MSU	LOC_Os06g38490	RBH	0.000000	0.058048	0.105899
Nipponbare \| IRGSP 1.0 \| RAP-db	Os06g0583600	RBH	None	None	None
Azucena \| AzucenaRS1 \| Gramene(+IsoSeq)	OsAzu_06g0020690	RBH	0.0	0.0	0.732130
KETAN NANGKA \| Os128077RS1 \| Gramene(+IsoSeq)	OsKeNa_06g0020480	RBH	0.035566	0.000000	0.040024
CHAO MEO \| Os132278RS1 \| Gramene(+IsoSeq)	OsCMeo_06g0020620	RBH	0.108950	0.0	0.430098
ARC 10497 \| Os117425RS1 \| Gramene(+IsoSeq)	OsARC_06g0020390	RBH	0.0	0.0	None
PR 106 \| Os127742RS1 \| Gramene(+IsoSeq)	OsPr106_06g0020790	RBH	0.0	0.955273	0.955475
Minghui 63 \| MH63RS3 \| HZAU	OsMH63_06G0360500	SBH	0.014929	0.119307	0.139784
IR 64 \| OsIR64RS1 \| Gramene(+IsoSeq)	OsIR64_06g0020200	RBH	0.054808	0.0	0.0
Zhenshan 97 \| ZS97RS3 \| HZAU	OsZS97_06G0337500	SBH	0.1316725	0.675055	2.2701885
LIMA \| Os127564RS1 \| Gramene(+IsoSeq)	OsLima_06g0020650	RBH	0.0	0.0	None
KHAO YAI GUANG \| Os127518RS1 \| Gramene(+IsoSeq)	OsKYG_06g0020690	RBH	0.0	0.858495	None
GOBOL SAIL \| Os132424RS1 \| Gramene(+IsoSeq)	OsGoSa_06g0020300	RBH	0.0	0.000000	None
LIU XU \| Os125827RS1 \| Gramene(+IsoSeq)	OsLiXu_Ung0036960	RBH	0.0	0.0	0.0
LARHA MUGAD \| Os125619RS1 \| Gramene(+IsoSeq)	OsLaMu_06g0020450	RBH	0.0	0.0	None
N22 \| OsN22RS2 \| Gramene(+IsoSeq)	OsN22_06G020360	RBH	0.000000	0.0	0.100837
NATEL BORO \| Os127652RS1 \| Gramene(+IsoSeq)	OsNaBo_06g0020610	RBH	0.0	0.0	0.0

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National Key Laboratory of Crop Genetic Improvement

Huazhong Agricultural University

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