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Introduction info

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◯ Introduction

We perform genome decoding for each variety that shows phenotypic differences in quality such as rice taste, environmental stress, or disease resistance.


✓ Secure high-quality genome sequences for each breed that meet the genome analysis performance evaluation standards
✓ Discovery of new genes related to major breeding that could not be confirmed compared to IRGSP 1.0
✓ Identification of presence-absence variation (PAV), a breeding-related gene that contributes to genetic diversity and has a significant impact on phenotypic variation
✓ Secure specific and common genes for each variety and analyze evolution patterns of genes related to expansion and breeding
Discovery of markers for early selection of individuals according to breeding goals such as multiplicity and disease resistance


◯ Genome Browser 

  http://nabic.rda.go.kr/post_jbrowse.do?data=K_RICE


◯ Genome statistics 

 

기호벼(Giho)

밀양23(Milyang23)

삼광(Samgkwnag)

오대(Odae)

참동진(Chamdongjin)

No. Contigs

194

33

225

224

37

No. scaffolds (pre-test)

- Reference: XL628S

(Zhang et al., Plant Biotechnology Journal, 2022)

12 chrs +

160 unlocalized

12 chrs +

8 unlocalized

12 chrs +

203 unlocalized

12 chrs +

202 unlocalized

12 chrs +

14 unlocalized

Total size (bp)

390,247,117

395,802,071

391,619,564

390,349,611

383,559,072

Avg. length (bp)

2,011,583.08

11,994,002.15

1,740,531.40

1,742,632.19

10,366,461.41

Min. length (bp)

15,699

20,478

10,377

11,679

15,340

Max. length (bp)

 43,771,465 

44,821,825

43,927,368

43,973,068

43,785,576

N50

27,280,009

30,979,570

31,684,489

30,548,822

31,715,650

N (%)

0.00

0.00

0.00

0.00

0.00

GC (%)

43.71

43.64

43.71

43.70

43.60

Complete BUSCOs

4826

4825

4828

4822

4824

Complete & Single-Copy BUSCOs

4715

4717

4718

4714

4714

Complete & Duplicated BUSCOs

111

108

110

108

110

Fragmented BUSCOs

12

12

11

12

11

Missing BUSCOs

58

59

57

62

61

Number of telomeres

16

19

14

14

15

Number of genes

63,887

65,427

64,174

64,223

64,371




◯ Wokrflow 

  - Chamdongjin[참동진]




  - Others [giho, milyang23, samgwang, odae (기호, 밀양23, 삼광, 오대) ]




Contacts

Dr. Jeong-Gu KIM  (email:jkim5aug@korea.kr)

 

Reference Publication

(not yet)




Open genome list