AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0480024029.01

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0480024029.01.T01 MTR_5g065580 84.348 115 15 1 1 115 1 112 2.52e-69 205
MsG0480024029.01.T01 MTR_5g065580 84.348 115 15 1 1 115 1 112 6.23e-69 206
MsG0480024029.01.T01 MTR_5g032660 69.231 104 32 0 6 109 2 105 1.29e-53 167
MsG0480024029.01.T01 MTR_6g037260 81.579 76 11 1 1 76 1 73 9.02e-41 131
MsG0480024029.01.T01 MTR_7g087570 52.174 115 51 1 1 115 1 111 1.02e-39 133
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0480024029.01.T01 AT4G24380 72.973 111 30 0 3 113 2 112 1.03e-61 186
MsG0480024029.01.T01 AT4G24380 74.312 109 28 0 5 113 4 112 6.30e-61 187
MsG0480024029.01.T01 AT4G24380 70.796 113 33 0 3 115 2 114 7.12e-61 184
MsG0480024029.01.T01 AT4G24380 70.796 113 33 0 3 115 2 114 1.11e-60 182
MsG0480024029.01.T01 AT4G24380 71.429 112 32 0 3 114 2 113 3.30e-60 184
MsG0480024029.01.T01 AT5G65400 65.714 105 36 0 11 115 28 132 1.11e-41 138
MsG0480024029.01.T01 AT5G65400 65.714 105 36 0 11 115 46 150 1.71e-41 138
MsG0480024029.01.T01 AT4G24380 70.588 34 10 0 76 109 53 86 5.48e-12 60.1

Find 23 sgRNAs with CRISPR-Local

Find 29 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GGACCGTTTGATGGTCTTCT+TGG 0.283927 4:+92706941 MsG0480024029.01.T01:CDS
CCAAGATTTATGTGTCTTCA+TGG 0.291824 4:+92706600 MsG0480024029.01.T01:CDS
CTCCTTATTATGAGTGGTTC+GGG 0.359841 4:+92706760 MsG0480024029.01.T01:CDS
CCTCCTTATTATGAGTGGTT+CGG 0.369390 4:+92706759 MsG0480024029.01.T01:CDS
TACCCGAACCACTCATAATA+AGG 0.388373 4:-92706762 None:intergenic
CCATGAAGACACATAAATCT+TGG 0.393495 4:-92706600 None:intergenic
ATCAAACATGGACCGTTTGA+TGG 0.413598 4:+92706932 MsG0480024029.01.T01:CDS
TTGAATTAGGAAGTTAATGA+AGG 0.452075 4:-92706977 None:intergenic
ACAGCAGATTTGCCCTTACA+AGG 0.470231 4:-92706720 None:intergenic
CAAGATTTATGTGTCTTCAT+GGG 0.487719 4:+92706601 MsG0480024029.01.T01:CDS
TGGTCTTCTTGGATTCTCAC+AGG 0.488533 4:+92706952 MsG0480024029.01.T01:CDS
GATTTGCCCTTACAAGGAAA+AGG 0.497499 4:-92706714 None:intergenic
AAGGGCAAATCTGCTGTTGA+AGG 0.498184 4:+92706726 MsG0480024029.01.T01:CDS
TCGACCCTCCTTATTATGAG+TGG 0.538420 4:+92706754 MsG0480024029.01.T01:CDS
CTTCATGGGTTTCGAACAAG+TGG 0.558594 4:+92706615 MsG0480024029.01.T01:CDS
TGGAAAACGAAGAGAAGAAG+AGG 0.605903 4:+92706565 MsG0480024029.01.T01:CDS
AATCCAAGAAGACCATCAAA+CGG 0.617555 4:-92706944 None:intergenic
CCGAACCACTCATAATAAGG+AGG 0.630666 4:-92706759 None:intergenic
AAACGAAGAGAAGAAGAGGA+CGG 0.638054 4:+92706569 MsG0480024029.01.T01:CDS
CGAACCACTCATAATAAGGA+GGG 0.642917 4:-92706758 None:intergenic
GAGGATTACATGATCAAACA+TGG 0.657463 4:+92706920 MsG0480024029.01.T01:CDS
TGAGTGTCTGCAATATATTG+AGG 0.665567 4:+92706901 MsG0480024029.01.T01:CDS
TGAGTGGTTCGGGTACAACG+AGG 0.765548 4:+92706770 MsG0480024029.01.T01:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! TATTATTTTTTCATAATTTC+GGG + Chr4:92706794-92706813 MsG0480024029.01.T01:intron 10.0%
! TGAAAAAACAGATACATAAG+TGG + Chr4:92706646-92706665 MsG0480024029.01.T01:CDS 25.0%
CAAGATTTATGTGTCTTCAT+GGG + Chr4:92706601-92706620 MsG0480024029.01.T01:CDS 30.0%
AATCCAAGAAGACCATCAAA+CGG - Chr4:92706947-92706966 None:intergenic 35.0%
CCAAGATTTATGTGTCTTCA+TGG + Chr4:92706600-92706619 MsG0480024029.01.T01:CDS 35.0%
CCATGAAGACACATAAATCT+TGG - Chr4:92706603-92706622 None:intergenic 35.0%
GAGGATTACATGATCAAACA+TGG + Chr4:92706920-92706939 MsG0480024029.01.T01:CDS 35.0%
TGAGTGTCTGCAATATATTG+AGG + Chr4:92706901-92706920 MsG0480024029.01.T01:CDS 35.0%
!! AGTTTGTCTAGAACGTTTTG+TGG - Chr4:92706672-92706691 None:intergenic 35.0%
AAACGAAGAGAAGAAGAGGA+CGG + Chr4:92706569-92706588 MsG0480024029.01.T01:CDS 40.0%
ATCAAACATGGACCGTTTGA+TGG + Chr4:92706932-92706951 MsG0480024029.01.T01:CDS 40.0%
CCTCCTTATTATGAGTGGTT+CGG + Chr4:92706759-92706778 MsG0480024029.01.T01:CDS 40.0%
CGAACCACTCATAATAAGGA+GGG - Chr4:92706761-92706780 None:intergenic 40.0%
CTCCTTATTATGAGTGGTTC+GGG + Chr4:92706760-92706779 MsG0480024029.01.T01:CDS 40.0%
GATTTGCCCTTACAAGGAAA+AGG - Chr4:92706717-92706736 None:intergenic 40.0%
TACCCGAACCACTCATAATA+AGG - Chr4:92706765-92706784 None:intergenic 40.0%
TGGAAAACGAAGAGAAGAAG+AGG + Chr4:92706565-92706584 MsG0480024029.01.T01:CDS 40.0%
! GATGCTCCTTTTCCTTGTAA+GGG + Chr4:92706708-92706727 MsG0480024029.01.T01:CDS 40.0%
!!! TGTTTTGTTGTTGTCTGTGC+AGG + Chr4:92706853-92706872 MsG0480024029.01.T01:intron 40.0%
AAGGGCAAATCTGCTGTTGA+AGG + Chr4:92706726-92706745 MsG0480024029.01.T01:CDS 45.0%
ACAGCAGATTTGCCCTTACA+AGG - Chr4:92706723-92706742 None:intergenic 45.0%
CCGAACCACTCATAATAAGG+AGG - Chr4:92706762-92706781 None:intergenic 45.0%
CTTCATGGGTTTCGAACAAG+TGG + Chr4:92706615-92706634 MsG0480024029.01.T01:CDS 45.0%
TCGACCCTCCTTATTATGAG+TGG + Chr4:92706754-92706773 MsG0480024029.01.T01:CDS 45.0%
TGGTCTTCTTGGATTCTCAC+AGG + Chr4:92706952-92706971 MsG0480024029.01.T01:CDS 45.0%
! CGATGCTCCTTTTCCTTGTA+AGG + Chr4:92706707-92706726 MsG0480024029.01.T01:CDS 45.0%
!!! TTATTATTTTTTCATAATTT+CGG + Chr4:92706793-92706812 MsG0480024029.01.T01:intron 5.0%
! GGACCGTTTGATGGTCTTCT+TGG + Chr4:92706941-92706960 MsG0480024029.01.T01:CDS 50.0%
! TGAGTGGTTCGGGTACAACG+AGG + Chr4:92706770-92706789 MsG0480024029.01.T01:CDS 55.0%
Chromosome Type Strat End Strand Name
Chr4 gene 92706564 92706994 92706564 ID=MsG0480024029.01;Name=MsG0480024029.01
Chr4 mRNA 92706564 92706994 92706564 ID=MsG0480024029.01.T01;Parent=MsG0480024029.01;Name=MsG0480024029.01.T01;_AED=0.38;_eAED=0.38;_QI=0|0|0|1|1|1|2|0|115
Chr4 exon 92706564 92706791 92706564 ID=MsG0480024029.01.T01:exon:10745;Parent=MsG0480024029.01.T01
Chr4 exon 92706875 92706994 92706875 ID=MsG0480024029.01.T01:exon:10744;Parent=MsG0480024029.01.T01
Chr4 CDS 92706564 92706791 92706564 ID=MsG0480024029.01.T01:cds;Parent=MsG0480024029.01.T01
Chr4 CDS 92706875 92706994 92706875 ID=MsG0480024029.01.T01:cds;Parent=MsG0480024029.01.T01
Gene Sequence

>MsG0480024029.01.T01

ATGGAAAACGAAGAGAAGAAGAGGACGGCAAGAAAACCAAGATTTATGTGTCTTCATGGGTTTCGAACAAGTGGAGAGATCATGAAAAAACAGATACATAAGTGGCCACAAAACGTTCTAGACAAACTCGATCTTGTTTTTGTCGATGCTCCTTTTCCTTGTAAGGGCAAATCTGCTGTTGAAGGCATTTTCGACCCTCCTTATTATGAGTGGTTCGGGTACAACGAGGATTTTACAGAGTACGCAAACTTTGATGAGTGTCTGCAATATATTGAGGATTACATGATCAAACATGGACCGTTTGATGGTCTTCTTGGATTCTCACAGGTTCCTTCATTAACTTCCTAA
Protein sequence

>MsG0480024029.01.T01

MENEEKKRTARKPRFMCLHGFRTSGEIMKKQIHKWPQNVLDKLDLVFVDAPFPCKGKSAVEGIFDPPYYEWFGYNEDFTEYANFDECLQYIEDYMIKHGPFDGLLGFSQVPSLTS*