AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0180000650.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0180000650.01.T01 MTR_1g010250 80.488 82 16 0 15 96 546 627 1.20e-40 141
MsG0180000650.01.T01 MTR_1g010260 79.268 82 17 0 15 96 650 731 2.64e-39 138
MsG0180000650.01.T01 MTR_1g010240 79.268 82 17 0 15 96 564 645 6.63e-39 136
MsG0180000650.01.T01 MTR_1g027640 57.831 83 34 1 15 96 667 749 8.47e-25 97.1
MsG0180000650.01.T01 MTR_1g027600 59.036 83 33 1 15 96 665 747 1.26e-24 96.7
MsG0180000650.01.T01 MTR_1g027570 56.627 83 35 1 15 96 662 744 4.42e-24 95.1
MsG0180000650.01.T01 MTR_1g027660 57.831 83 34 1 15 96 639 721 4.81e-24 94.7
MsG0180000650.01.T01 MTR_1g027580 56.627 83 35 1 15 96 662 744 1.83e-23 93.2
MsG0180000650.01.T01 MTR_1g027670 59.494 79 30 2 20 96 309 387 6.47e-22 88.2
MsG0180000650.01.T01 MTR_1g027490 54.545 66 30 0 15 80 647 712 2.34e-17 75.9
MsG0180000650.01.T01 MTR_1g010220 77.778 45 10 0 15 59 665 709 3.13e-17 75.5
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score

Find 26 sgRNAs with CRISPR-Local

Find 26 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CTGCCAGTCCAAGTTCTTTC+AGG 0.231916 1:+9217706 None:intergenic
AGCAGCAAACATGGAGATAT+TGG 0.271632 1:-9217738 MsG0180000650.01.T01:CDS
ATTGGAAGGAATGAGGTTAA+TGG 0.364326 1:-9217853 MsG0180000650.01.T01:CDS
ATAGCCACTTCTTTCATGCT+TGG 0.391402 1:+9217879 None:intergenic
GAAAGAAGTGGCTATGGAAT+TGG 0.399445 1:-9217871 MsG0180000650.01.T01:CDS
AGCGAAGTGTTTGAACTTAG+AGG 0.400157 1:-9217912 MsG0180000650.01.T01:CDS
TGCTATCACCAGGTTCATAA+AGG 0.440169 1:+9217757 None:intergenic
CCATGTTTGCTGCTATCACC+AGG 0.462783 1:+9217747 None:intergenic
GCAGCAAACATGGAGATATT+GGG 0.463881 1:-9217737 MsG0180000650.01.T01:CDS
GGTTAATGGATAAGCACTCT+TGG 0.484671 1:-9217839 MsG0180000650.01.T01:CDS
TACGACAGCCTGAAAGAACT+TGG 0.490584 1:-9217714 MsG0180000650.01.T01:CDS
AGAACTTGGACTGGCAGTAT+TGG 0.493013 1:-9217700 MsG0180000650.01.T01:CDS
CCTGGTGATAGCAGCAAACA+TGG 0.497176 1:-9217747 MsG0180000650.01.T01:CDS
GCGAAGTGTTTGAACTTAGA+GGG 0.499813 1:-9217911 MsG0180000650.01.T01:CDS
AAAACAAACAAGAGATCAAG+AGG 0.523355 1:-9217948 MsG0180000650.01.T01:CDS
AAGCATGAAAGAAGTGGCTA+TGG 0.524993 1:-9217877 MsG0180000650.01.T01:CDS
CTATGGAATTGGAAGGAATG+AGG 0.554723 1:-9217860 MsG0180000650.01.T01:CDS
TCATCTAGCCTTTATGAACC+TGG 0.561743 1:-9217765 MsG0180000650.01.T01:CDS
CAGCCTGAAAGAACTTGGAC+TGG 0.565664 1:-9217709 MsG0180000650.01.T01:CDS
CGAAGTGTTTGAACTTAGAG+GGG 0.615540 1:-9217910 MsG0180000650.01.T01:CDS
GGACTGGCAGTATTGGATGA+TGG 0.624089 1:-9217693 MsG0180000650.01.T01:CDS
AGTGTTTGAACTTAGAGGGG+AGG 0.624748 1:-9217907 MsG0180000650.01.T01:CDS
AAGACCAAGCATGAAAGAAG+TGG 0.627019 1:-9217883 MsG0180000650.01.T01:CDS
ACTTAAATGTAGACGAGAGT+CGG 0.632909 1:-9217806 MsG0180000650.01.T01:CDS
TGGCAGTATTGGATGATGGA+AGG 0.667963 1:-9217689 MsG0180000650.01.T01:CDS
GAAGTGGCTATGGAATTGGA+AGG 0.672104 1:-9217867 MsG0180000650.01.T01:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
AAAACAAACAAGAGATCAAG+AGG - Chr1:9217692-9217711 MsG0180000650.01.T01:CDS 30.0%
ACTTAAATGTAGACGAGAGT+CGG - Chr1:9217834-9217853 MsG0180000650.01.T01:CDS 35.0%
ATTGGAAGGAATGAGGTTAA+TGG - Chr1:9217787-9217806 MsG0180000650.01.T01:CDS 35.0%
AAGACCAAGCATGAAAGAAG+TGG - Chr1:9217757-9217776 MsG0180000650.01.T01:CDS 40.0%
AAGCATGAAAGAAGTGGCTA+TGG - Chr1:9217763-9217782 MsG0180000650.01.T01:CDS 40.0%
AGCAGCAAACATGGAGATAT+TGG - Chr1:9217902-9217921 MsG0180000650.01.T01:CDS 40.0%
ATAGCCACTTCTTTCATGCT+TGG + Chr1:9217764-9217783 None:intergenic 40.0%
CTATGGAATTGGAAGGAATG+AGG - Chr1:9217780-9217799 MsG0180000650.01.T01:CDS 40.0%
GAAAGAAGTGGCTATGGAAT+TGG - Chr1:9217769-9217788 MsG0180000650.01.T01:CDS 40.0%
GCAGCAAACATGGAGATATT+GGG - Chr1:9217903-9217922 MsG0180000650.01.T01:CDS 40.0%
TGCTATCACCAGGTTCATAA+AGG + Chr1:9217886-9217905 None:intergenic 40.0%
! AGCGAAGTGTTTGAACTTAG+AGG - Chr1:9217728-9217747 MsG0180000650.01.T01:CDS 40.0%
! CGAAGTGTTTGAACTTAGAG+GGG - Chr1:9217730-9217749 MsG0180000650.01.T01:CDS 40.0%
! GCGAAGTGTTTGAACTTAGA+GGG - Chr1:9217729-9217748 MsG0180000650.01.T01:CDS 40.0%
! GGTTAATGGATAAGCACTCT+TGG - Chr1:9217801-9217820 MsG0180000650.01.T01:CDS 40.0%
! TCATCTAGCCTTTATGAACC+TGG - Chr1:9217875-9217894 MsG0180000650.01.T01:CDS 40.0%
AGTGTTTGAACTTAGAGGGG+AGG - Chr1:9217733-9217752 MsG0180000650.01.T01:CDS 45.0%
GAAGTGGCTATGGAATTGGA+AGG - Chr1:9217773-9217792 MsG0180000650.01.T01:CDS 45.0%
TACGACAGCCTGAAAGAACT+TGG - Chr1:9217926-9217945 MsG0180000650.01.T01:CDS 45.0%
!! AGAACTTGGACTGGCAGTAT+TGG - Chr1:9217940-9217959 MsG0180000650.01.T01:CDS 45.0%
!! TGGCAGTATTGGATGATGGA+AGG - Chr1:9217951-9217970 MsG0180000650.01.T01:CDS 45.0%
CAGCCTGAAAGAACTTGGAC+TGG - Chr1:9217931-9217950 MsG0180000650.01.T01:CDS 50.0%
CCTGGTGATAGCAGCAAACA+TGG - Chr1:9217893-9217912 MsG0180000650.01.T01:CDS 50.0%
CTGCCAGTCCAAGTTCTTTC+AGG + Chr1:9217937-9217956 None:intergenic 50.0%
! CCATGTTTGCTGCTATCACC+AGG + Chr1:9217896-9217915 None:intergenic 50.0%
! GGACTGGCAGTATTGGATGA+TGG - Chr1:9217947-9217966 MsG0180000650.01.T01:CDS 50.0%
Chromosome Type Strat End Strand Name
Chr1 gene 9217686 9217976 9217686 ID=MsG0180000650.01;Name=MsG0180000650.01
Chr1 mRNA 9217686 9217976 9217686 ID=MsG0180000650.01.T01;Parent=MsG0180000650.01;Name=MsG0180000650.01.T01;_AED=0.49;_eAED=0.49;_QI=0|-1|0|1|-1|1|1|0|96
Chr1 exon 9217686 9217976 9217686 ID=MsG0180000650.01.T01:exon:1978;Parent=MsG0180000650.01.T01
Chr1 CDS 9217686 9217976 9217686 ID=MsG0180000650.01.T01:cds;Parent=MsG0180000650.01.T01
Gene Sequence

>MsG0180000650.01.T01

ATGAAGAAAACAAACAAGAGATCAAGAGGTAGCTGTTCTTGCAGCGAAGTGTTTGAACTTAGAGGGGAGGAAAGACCAAGCATGAAAGAAGTGGCTATGGAATTGGAAGGAATGAGGTTAATGGATAAGCACTCTTGGATCAATGATGACTTAAATGTAGACGAGAGTCGGTACTTGCTTCATGAATCATCATCTAGCCTTTATGAACCTGGTGATAGCAGCAAACATGGAGATATTGGGTACGACAGCCTGAAAGAACTTGGACTGGCAGTATTGGATGATGGAAGGTGA

Protein sequence

>MsG0180000650.01.T01

MKKTNKRSRGSCSCSEVFELRGEERPSMKEVAMELEGMRLMDKHSWINDDLNVDESRYLLHESSSSLYEPGDSSKHGDIGYDSLKELGLAVLDDGR*