Basic Info

Gene ID OGI # | Score   Accession | Assembly | Annotation Location Links
OsARC_04g0012500 OGI:04063200 | 14/16 ARC 10497 | Os117425RS1 | Gramene(+IsoSeq) Chr04:18941144-18947851
Gene Symbol OsS1Fa1, -
DNA seq

GCAGAAGGAAGTCGGTGGCATCAAATGCAACCAAAAACAGAACAGATTCAAAGGGGTCATCCAGGCCCAGGAGACAGAGAGTTTGCAGAAGACCACTACTACTAAAAATTGCAGTTTGAAAGCCTTAAAAATACGAACAGCACAATAGATCAATTTGGGCTAAGGTTCAACCGTTTGCTGAAATAAGTTGTCCAATAACGGAGAATCACTATATAAAGCTTATACAGAACATAGTAACTGTAAGCACTGCGGTTCCAGCTGATATATATCATGTTTTCTAACAAGCGAAGAGGGTCGTCTGAATCAAATCAGCAACATCATAACTGGTGGCTCTCTTCACTCTCCTGGGGCAGAGACACCTTGCTTCAGTTTTTCCCTCTTCATCTTCTTCTTCGAGACTGGCTTCTTTTTGCGAGGAGGAAGCGTCTTCTGAGCGTACACATAGAGAGCGTAGTTCCCGACAAAGAAAAGCAGCAGGAAGGTCGCGACCACAATCAGTACTATCATTCCAGGGTTCAGTCCCTTGTTGACCTCCTCAATGACTACATTGTTCTGAAGACCAGAAAACAAATCTATCAAGCACTATGCATGACAAAAGGGCACTGCAATTTAAATGTATGTGACTTCTTTATCGAAAAAATACTATGAGGCTTGCAGGGTTAGAAGAAGTTAACCCTTCCATAGGAGTATATGTTACAAGTTACTAGACACATAGAGCCAGAGCAGAGATATCTGTGGACATGGATGAGTCTGCACATATTGCCATGTATAGATCTCCATACACAGATAATTCGAAAGCTAGATAACAATTATTTGTACTGTATAGTCACCCACATCTGTAGTTCTGTACAGTTTGATCACAGCACAAAATAAAGCTTATTACTAAGGATTGCATGTTTTCAACACTAGCAACTAGCCCATCCAAGAGTGGCCAAAACTAAATGGAACATGATAGATAAAGTGAAGTGGTCTGCCTAGAATTACCATTTGCATAAGATACACAGGATTGCTATTAAACATATGCAGTAGACATATACAAGGTTGGTAGTAATCACATACAAGGTTGAACAGAGGGAAATGGGATGGCAGTGCATAACTGCATATATATATTCATTGAAAACAGCAGCAATCTATGTCAACATTCAATTTCAGCATATTTACAGGATAAAAAATATTCAAAATAGTGAACAAACAATGTGGACTTGATAACTGAACAAAAAATGAACTATTGGAATTTGGAAAGCGCAAAGTTCGCGATATAACTTGATTCAAAAATTAATTTAAGTTTAAGAAACTAAAAGATCAAGTGTACATCATGGACATCATGGTAAGTAATACTCCCTAATGAATGACCACCGAATGTATGACCATGCAAAGACTACTGCAATAATCCGACAGATCTAACCCTACTCATAAAAAAAGCAACAAGTGCGTGAATCCATTGGCACTACCATATCAACGGAACAAAAGAAGTATAAGAAGCCCGTAAGTTCCTTACCGCAGAGTCCGCGAACTGATCCGCCATGGCTGACCGGGACCAAACACCTGCAACTCTGGATCCAACGATGGATCAAACTCTGGCGAAAAAAGAAAAAGAAAAAGAGGAGCAATTCTTAATCGAGAAGGGGTTGTATCAATCTCCACCAAACCTCAATCCCTACCTCTCCTTTTTTAGATATTTTATTTAGCCTACGGCAGCTGCTGCACTATTCCGCTGTTCGTGGCCGATCGATCGTCGGGTCTCACCCTCCCGCTTACGGGATTCGGTTAAGGAGTTCGATGATCTGATAGGATTGGAAGGTGCGAGTGAGGAATACTACTGAAATTTTTGGGGGAGTTCTGAGAGACGGCAGGACGAGGATTCGAGCGAGGAGGAGGGGATCGAAGGGGAAGACAACAATATATTTGGGCAGATGACCCCACCCAGCAGATGGTCAGACGGTGCATGTGTCAAAATGGGACAAAATAAACATGTCATCGCCACCTGCTGGATAGGATAAGGATATCCTTACAAAGACATAGTAGGTACAATCCTATTATTTTCTTTTATTCGAATCACTTATTATTAAATAAAAATTTATTTGTGTGTAAAATTTTTACATGGTGTCCTTAGCCACTCAAAAGCAAATGACGTAAAATAAACTACGGTGAAAAACCAAAAAATCAAATTCAAAATTAAGTTCTAGTAAAATTTAATTTTTGACTTATAAACATAAGCATAAGCCAAACAATAAGACTATATTAGTAGGAGGGGCCGTAGTATTGCTATGGCTACAGCTGCAACTAGATAAGGCATAGACTATTGTCGGCTTGCAACTATAGTAGGAGCATCTCCAACAGCCTCTTCAAATAACTCACTAAGCTAAATTTTAGCCATTCCAGTGAAAAAACACCCTCCAACAGCCTCTCCAACAGGATGGCTAAGCCATCTGGCTGGCCAAAACCCTCCCCACACTAGCCAAATTTGACTAGTCAAAAATCACTGGCCAACTGTGGACCCCACGCGTATTCTCCTCCCATCTCGTTGCCGGCCATAGTCCACAGCGCCGACGTCGTCGCATGCAACCGCCGTCGCCCGCCACGGCCTCCGCCGCCGTCCGCACCGTCGCCGGCCGCGGCCTCCGCCGCCATCCATGCCGTTGCCGCCCGCGACCTCCGCCGTCATCCGCGCCGTCGCCGGCCGCGACCGCCGCCGTCGTCCACCGCAACCGCCGCCGCCGACCCCACGCACAAGCTGGAGCACGAGCAGAGCTGCAGAGGATTGGAGAAAGGGGAGGAAGAAGAAAGAGGAGAATGAAAGGTGGGCCCATTGATTAATAGAGAGTGGAATGTGGAGAGTCTGTTGGAATAGAAGACAAATTTGACTCTCTAAATTTTTGTTAGGCTGGCCAAATTGGTATTTGGAGAGTCAAAAATGACCACTCTGTTGGAGATGCTCTTAGGGTGTGTTCAGCACCCCTTTTTCCCAGCCCATTTCTCTCGTTTTTCACGCGCACGTTTTTCAAATTATTAAATGGTGTATTTTTTGTAAAAAGTTTCTATACAAAAGTTGCTTAAAAAATCATATTAATCTATTTTTGAAAAAAGATTAGTAAATACTTAATTACTCACGTGCTAATGAACTGCTCCGTTTTCCGTGTTACTGTTCCGGGTTGGGAACCAGTGTATACGAACACACCCTAAGAGGGCCCAAAAAAAAGAAAAACTATAGTAAGAGGGACATTTTAACAATTTGTCACTCATAGAGTATGACTTGTGGGCTCACATTTGTCAATAATATGTGGGTCTAATAACAAAATCGTTAAATGTAACACGTGAAAGTGGCAAATAGTAAATATGTGATAGTAAAAGGGCAGCAGAGCAGGCCCATTATCATATATGAAACCTTCTCATTATCATATATGAAGTAGATTTATCATATACTCCCTCCGTCCCTAAATATAAGGGATTGTGGGTGAATGTAACATATCCTAGGCTATGAATCTGGATAAGGAGTATGTCCAGATTCATACTCCTAGGATACATCATATCTATTTATAATCCCTTATATTTTAGGGCGGAGAGAGTAATAAATTAGTAGTAGTTGGCACTATGCATAAGAATTAAAGCAACAAGTGAATGTATTAGCACTATCATCAGTATAGGTTTTTCACTCTTGGAAATACATTTCCTCTATTTTAAAATGAACTAATTTCTATATCTAAATTTTTAGGCAAGGGTTGGTTTATTTTGGTACGAAAGATTGCTATCATGTTTGGTTGCTTGATGCAGAGCTGTGCGGCAGCAATGGTTGCTTGAAGCAGTTGGCTGCGACGCAGCCAATCCACCAAACAGCCGAACAAGGCCTACGATAATATACATATGCCAGAAACCGTCGTTGTATCATAATGTTGCATCACATCATTTTGTTTGGCTGTATGTATCATACTCTCTTCGTTAAAAAAAAATTAACCTAGGATATTTTGAGTTTTCTTGGGACGGAGTTCATAACTGTATATTGTATATTTTGATGGTTATATATTGTGAATTGGACGTCATAGTTGCGCAGAGGATATGATTGACTACTTGTGATCAAGCTGGTGTGGATACATGAGATGGTCAAGACTCTTGTGATCAAGCTGGTGTGGATACATGAGATGGTCAAGACTAGTGACAGTAGCCGAGCCAAAACAGATCAAAGCATCATCAAGGATCCAAGGGCAACCGGGACCCTGGAGCATGAAATCTGTCTTTGTGGGTTTGATGATAGGCGTGCAGCTCTTTTTTTTTTTCGCGAAAGTACGAAAGTACAGCTATTACAATCAACATAAGCGCATGGATTATGTGCACACGTTTCTTTTGAAATGAAGATTTAATCAATTTGCCATTTATTAGGAATAGTTAGCAATATAACTGAAAAACGTTCAGATATGTATGGCCTGTTCAGGCTCAATTTAATTTGGGATGACGCAAGCATCATCTTGTGCAACAAACTTGAAAATGCGAAGGAGGGAGCCCAAGCTACTATGGCACGCCGGATGCATGTCAGCACCAAGCCATCAAATACAACAGAAAACAGCATCAAGTTATAAATCATTCAGATTTCAGATTGCAAGATGGCTACGCAGGTTGCAGAAATTTTCAGGCACGATCGCCAGCTAAATCAAAGAGACACGCAGAAACAAACCAAAAGAAGGGCTCAATTTGCAGTGCTGTTCAACAGATTGCTCAAATAAGGCGTCTAATACAAATGTAAACCACTTAGGACAAAGCTTCTACATAACATAGTTACTGTAAACACTGCCGCTCCAGCTGATAATTCTTATCATGCAAAAGAAGCTCAGGATAAAATCAGTAACATTGGTAAACTGACGAATCTCTTCACTCTCCGGGTGCAGAAACCCCCTGCTTCAGCTTTTCCCTCTTCAGCTTCTTCTTGGAGACTGGCTTCTTCTTCCGAGGAGGAAGCGTCTTCTGAGCATACATGTAGAGCGCATAGTTTCCAACAAAGAAAAGAATCAGGAGAGTTGCAACCACAAGAAGGACTATCGTTCCAGGGTTCAGGCCCTTGTTGACCTCCTCGATGATCATGTTGTTCTGAAGAACAAAAAAATAAACTATCAGAAACCACCCTAAAGATTGAAAATATAATTGCGATTTAGGTAGCTGGAAAAATCAAAATAGTTAACCCTTCAAACTTATATATTACAAGGTTAGTATGAACAAATTAGAGCAGACATGTACACCCTTTTGTACACATGGGAAACCCAAAAGCTGACTTCACAGATCAGCATGTCTAAGCATGTCAACAGAGCATGTCGACAAATTATGTTCAATATGGACTGTTCAGTTCCACTACATATCTGTTACCCTTTATTCATACAGATTTATCACTGCGCAGACGAAGCTTAATTTTAATACATTATTGAGTCTGACATTTCATACATTTACATGTTTTCTACACTAGCAACTAGCCTATAAGTAAGATTCCAAAAACTAGTCCGAGGTCAGCCAAAACGAAATAGAATGTGTGTAAAGGTTTGCCATTCAGAGAAAGATATGACGGTTAACTGATATAAGGATGAATACAGAACAACAAGACACAAGTGTTCAGAACACCTGAAAGTGTTTGAAAGCAAGAACATATACATTTAAAAGAGGCAATCATGCCAACATACAGTTCCAGTGGATTCACAGAACATAAATTATAAAACACTCCAAATGAGAGCACACAATTGTGCTCTTAATTATTTATTGAACAGAACTACACTAATGAAAAGGTAGTCATGAATGCCATGAGGACAAAGTTAAATTAAGCAACGATTAAACGATCATGTATGTATCATAAATAAAATAGCAATTCAGCAGACCGGCAAGAGTAAAATTATCTAGTGATGTCAATTCTTGAAACAAGTTATACACAACCAGACACACTAACCTAATCAGGTAGCAATTTAATCATTCAGCTAGGGGATATTTTCCTTTTTGAGTTGGTTCATGTGGCTCAACTTTGGTTTCATATCTAGTCTACCAGCTAATTTGCTTCAGATTAGAGGCTGATGATGATAGGACACAGCTAAAAAAACAAAAAACTGAAGAGGAAACGGAACAACCATAAAATTTACCGAGATGTAACAAAATGTATGACCATGCAAAAACTACAGCGCAAATTCTACAGATCTAACTATCCACGCCAGGGGACTGATCCAACTTGGGACATGGGGGTTCAGTTTTTGGGGGGAACAAACAAATTGTTACTTGTATTAGTTAAGGCTCTGAAATTAAGAGAAGAGCTTCTTCCAGATCTACAAGAGAAGCTAGGGTCAACACAAGCAAATTCCAGACAAAAGCAAATCCGCCGTAAAAACGCGTCGAGATCCGGTCAAACAACCGAAACGTCGAAGGTTTCGCACCCCTAAAACCAAGAGATTAAACAGAAACAGCTCGCAGATCCTTACCGACTGATCCGCCATGGCAGCGACGATACCCGCAGCACCAGACGACACCAGCTGCGGACCTCTGTGGATCGAAAAGAAAATTAGATCAGCGGCTTTAGCCAAAGAAGAATTTCTCGGAGGAAGAAGAGACCCCGTGGAAGTGAGAGATCTCCACCGTGGATTAAGCCCGCCGTCCTCACCTCTCGCTTCTTGGCGCGGATTTCTCACTTCTCTTCCTCCCCCCCTTGGCGACAAGCTCGCGTGATCTGCTCTGTCACCGCTTGCTGCTCAT

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CDS seq

ATGAGCAGCAAGCGAGGTCCGCAGCTGGTGTCGTCTGGTGCTGCGGGTATCGTCGCTGCCATGGCGGATCAGTCGAACAACATGATCATCGAGGAGGTCAACAAGGGCCTGAACCCTGGAACGATAGTCCTTCTTGTGGTTGCAACTCTCCTGATTCTTTTCTTTGTTGGAAACTATGCGCTCTACATGTATGCTCAGAAGACGCTTCCTCCTCGGAAGAAGAAGCCAGTCTCCAAGAAGAAGCTGAAGAGGGAAAAGCTGAAGCAGGGGGTTTCTGCACCCGGAGAGTGA

Protein seq

MSSKRGPQLVSSGAAGIVAAMADQSNNMIIEEVNKGLNPGTIVLLVVATLLILFFVGNYALYMYAQKTLPPRKKKPVSKKKLKREKLKQGVSAPGE

Function DNA-binding protein S1FA1 [UniProtKB/Swiss-Prot:P42553]

Transcripts

sorry
Gene Transcript Chromosome Start End Strand Source
OsARC_04g0012500 OsARC_04g0012500.04 Chr04 18941144 18943041 - NAM
CDS seq

ATGGCGGATCAGTTCGCGGACTCTGCGAACAATGTAGTCATTGAGGAGGTCAACAAGGGACTGAACCCTGGAATGATAGTACTGATTGTGGTCGCGACCTTCCTGCTGCTTTTCTTTGTCGGGAACTACGCTCTCTATGTGTACGCTCAGAAGACGCTTCCTCCTCGCAAAAAGAAGCCAGTCTCGAAGAAGAAGATGAAGAGGGAAAAACTGAAGCAAGGTGTCTCTGCCCCAGGAGAGTGA

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Protein seq

MADQFADSANNVVIEEVNKGLNPGMIVLIVVATFLLLFFVGNYALYVYAQKTLPPRKKKPVSKKKMKREKLKQGVSAPGE

Gene Transcript Chromosome Start End Strand Source
OsARC_04g0012500 OsARC_04g0012500.01 Chr04 18941144 18947851 - NAM
CDS seq

ATGGCGGATCAGTTCGCGGACTCTGCGAACAATGTAGTCATTGAGGAGGTCAACAAGGGACTGAACCCTGGAATGATAGTACTGATTGTGGTCGCGACCTTCCTGCTGCTTTTCTTTGTCGGGAACTACGCTCTCTATGTGTACGCTCAGAAGACGCTTCCTCCTCGCAAAAAGAAGCCAGTCTCGAAGAAGAAGATGAAGAGGGAAAAACTGAAGCAAGGTGTCTCTGCCCCAGGAGAGTGA

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Protein seq

MADQFADSANNVVIEEVNKGLNPGMIVLIVVATFLLLFFVGNYALYVYAQKTLPPRKKKPVSKKKMKREKLKQGVSAPGE

Gene Transcript Chromosome Start End Strand Source
OsARC_04g0012500 OsARC_04g0012500.02 Chr04 18945645 18947851 - NAM
CDS seq

ATGAGCAGCAAGCGAGGTCCGCAGCTGGTGTCGTCTGGTGCTGCGGGTATCGTCGCTGCCATGGCGGATCAGTCGAACAACATGATCATCGAGGAGGTCAACAAGGGCCTGAACCCTGGAACGATAGTCCTTCTTGTGGTTGCAACTCTCCTGATTCTTTTCTTTGTTGGAAACTATGCGCTCTACATGTATGCTCAGAAGACGCTTCCTCCTCGGAAGAAGAAGCCAGTCTCCAAGAAGAAGCTGAAGAGGGAAAAGCTGAAGCAGGGGGTTTCTGCACCCGGAGAGTGA

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Protein seq

MSSKRGPQLVSSGAAGIVAAMADQSNNMIIEEVNKGLNPGTIVLLVVATLLILFFVGNYALYMYAQKTLPPRKKKPVSKKKLKREKLKQGVSAPGE

Gene Transcript Chromosome Start End Strand Source
OsARC_04g0012500 OsARC_04g0012500.05 Chr04 18941144 18943041 - NAM
CDS seq

ATGGCGGATCAGTTCGCGGACTCTGCGAACAATGTAGTCATTGAGGAGGTCAACAAGGGACTGAACCCTGGAATGATAGTACTGATTGTGGTCGCGACCTTCCTGCTGCTTTTCTTTGTCGGGAACTACGCTCTCTATGTGTACGCTCAGAAGACGCTTCCTCCTCGCAAAAAGAAGCCAGTCTCGAAGAAGAAGATGAAGAGGGAAAAACTGAAGCAAGGTGTCTCTGCCCCAGGAGAGTGA

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Protein seq

MADQFADSANNVVIEEVNKGLNPGMIVLIVVATFLLLFFVGNYALYVYAQKTLPPRKKKPVSKKKMKREKLKQGVSAPGE

Gene Transcript Chromosome Start End Strand Source
OsARC_04g0012500 OsARC_04g0012500.03 Chr04 18941144 18943041 - NAM
CDS seq

ATGGCGGATCAGTTCGCGGACTCTGCGAACAATGTAGTCATTGAGGAGGTCAACAAGGGACTGAACCCTGGAATGATAGTACTGATTGTGGTCGCGACCTTCCTGCTGCTTTTCTTTGTCGGGAACTACGCTCTCTATGTGTACGCTCAGAAGACGCTTCCTCCTCGCAAAAAGAAGCCAGTCTCGAAGAAGAAGATGAAGAGGGAAAAACTGAAGCAAGGTGTCTCTGCCCCAGGAGAGTGA

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Protein seq

MADQFADSANNVVIEEVNKGLNPGMIVLIVVATFLLLFFVGNYALYVYAQKTLPPRKKKPVSKKKMKREKLKQGVSAPGE

Gene Transcript Chromosome Start End Strand Source
OsARC_04g0012500 OsARC_04g0012500.06 Chr04 18941228 18943017 - IsoSeq
CDS seq

ATGATATATATCAGCTGGAACCGCAGTGCTTACAGTTACTATGTTCTGTATAAGCTTTATATAGTGATTCTCCGTTATTGGACAACTTATTTCAGCAAACGGTTGAACCTTAGCCCA

Protein seq

MIYISWNRSAYSYYVLYKLYIVILRYWTTYFSKRLNLSP

OsARC_04g0012500.06OsARC_04g0012500.05OsARC_04g0012500.04OsARC_04g0012500.03OsARC_04g0012500.02OsARC_04g0012500.01AS18941100 bp18941400 bp18941700 bp18942000 bp18942300 bp18942600 bp18942900 bp18943200 bpAll AS eventsIsoSeq based ASRoot based ASLeaf based ASPanicle based AS
Event Type Chromosome Start End Strand Alternative mRNAs Total mRNAs Source
A3 Chr04 18942688 18942805 - OsARC_04g0012500.03 OsARC_04g0012500.03,OsARC_04g0012500.04 All
A3 Chr04 18942696 18942805 - OsARC_04g0012500.03 OsARC_04g0012500.03,OsARC_04g0012500.06 All
A3 Chr04 18942688 18942805 - OsARC_04g0012500.06 OsARC_04g0012500.06,OsARC_04g0012500.04 All
RI Chr04 18942642 18943041 - OsARC_04g0012500.05 OsARC_04g0012500.05,OsARC_04g0012500.04 All
RI Chr04 18942642 18943041 - OsARC_04g0012500.05 OsARC_04g0012500.03,OsARC_04g0012500.05 All

Expression

Leaf Root Panicle
FPKM 1.172246 4.197772 None

Homologues

Genome & Annotation Homologs Type Expression(FPKM)
Leaf Root Panicle
Nipponbare | IRGSP 1.0 | Gramene(+IsoSeq) OsNip_04g0408900 RBH 4.100325 6.737687 20.460737
Nipponbare | IRGSP 1.0 | MSU LOC_Os04g33420 RBH 2.619889 4.622616 7.466525
Nipponbare | IRGSP 1.0 | RAP-db Os04g0408900 RBH None None None
Azucena | AzucenaRS1 | Gramene(+IsoSeq) OsAzu_04g0012350 RBH 2.092329 100.913033 30.746635
KETAN NANGKA | Os128077RS1 | Gramene(+IsoSeq) OsKeNa_04g0013170 RBH 1.663235 25.212797 21.374359
CHAO MEO | Os132278RS1 | Gramene(+IsoSeq) OsCMeo_04g0012880 RBH 11.276484 114.519402 83.443199
ARC 10497 | Os117425RS1 | Gramene(+IsoSeq) NA NA NA NA NA
PR 106 | Os127742RS1 | Gramene(+IsoSeq) OsPr106_04g0012830 RBH 64.807030 113.732841 129.961197
Minghui 63 | MH63RS3 | HZAU OsMH63_04G0318900 RBH 28.2292375 35.106577 46.755041
IR 64 | OsIR64RS1 | Gramene(+IsoSeq) OsIR64_04g0011740 RBH 1.438176 13.881351 9.928241
Zhenshan 97 | ZS97RS3 | HZAU OsZS97_04G0315900 RBH 16.94485 22.3743565 26.9082965
LIMA | Os127564RS1 | Gramene(+IsoSeq) OsLima_04g0012320 RBH 1.207969 1.050883 None
KHAO YAI GUANG | Os127518RS1 | Gramene(+IsoSeq) OsKYG_04g0011940 RBH 6.247502 48.935226 None
GOBOL SAIL | Os132424RS1 | Gramene(+IsoSeq) OsGoSa_04g0011970 RBH 20.176132 207.476059 None
LIU XU | Os125827RS1 | Gramene(+IsoSeq) OsLiXu_04g0012520 RBH 4.040506 8.355080 13.800089
LARHA MUGAD | Os125619RS1 | Gramene(+IsoSeq) OsLaMu_04g0012750 RBH 2.058736 50.088398 None
N22 | OsN22RS2 | Gramene(+IsoSeq) OsN22_04G011880 RBH 3.493813 37.833382 26.254240
NATEL BORO | Os127652RS1 | Gramene(+IsoSeq) OsNaBo_04g0011900 RBH 4.816360 156.067032 64.483360
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National Key Laboratory of Crop Genetic Improvement

Huazhong Agricultural University

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