AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG016843

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG016843 MtrunA17_Chr3g0134461 91.589 107 8 1 1 106 1 107 1.04e-53 166
MsaG016843 MtrunA17_Chr3g0134481 76.415 106 25 0 1 106 1 106 6.21e-47 149
MsaG016843 MtrunA17_Chr3g0137101 72.642 106 29 0 1 106 1 106 8.31e-44 150
MsaG016843 MtrunA17_Chr1g0149841 64.706 102 36 0 5 106 2 103 3.56e-38 133
MsaG016843 MtrunA17_Chr7g0275401 62.745 102 38 0 5 106 2 103 4.37e-38 129
MsaG016843 MtrunA17_Chr1g0149851 63.725 102 37 0 5 106 2 103 1.57e-36 129
MsaG016843 MtrunA17_Chr7g0275891 62.136 103 38 1 5 106 2 104 1.58e-36 126
MsaG016843 MtrunA17_Chr2g0304841 59.048 105 43 0 2 106 12 116 2.52e-33 121
MsaG016843 MtrunA17_Chr4g0067981 54.808 104 47 0 3 106 26 129 6.20e-32 117
MsaG016843 MtrunA17_Chr2g0294911 54.902 102 46 0 5 106 26 127 3.42e-31 115
MsaG016843 MtrunA17_Chr4g0074411 56.566 99 43 0 8 106 18 116 1.55e-30 113
MsaG016843 MtrunA17_Chr4g0074401 58.586 99 41 0 8 106 17 115 2.57e-30 112
MsaG016843 MtrunA17_Chr3g0123131 54.545 99 45 0 8 106 13 111 6.60e-30 111
MsaG016843 MtrunA17_Chr1g0161431 54.369 103 47 0 4 106 7 109 1.69e-28 107
MsaG016843 MtrunA17_Chr8g0376881 53.465 101 47 0 6 106 23 123 1.49e-26 102
MsaG016843 MtrunA17_Chr4g0009851 38.462 104 63 1 3 106 6 108 2.47e-18 77.8
MsaG016843 MtrunA17_Chr4g0009901 35.354 99 63 1 8 106 10 107 6.53e-16 70.9
MsaG016843 MtrunA17_Chr5g0423031 37.037 81 50 1 8 88 10 89 8.01e-16 68.9
MsaG016843 MtrunA17_Chr6g0456631 33.654 104 66 2 5 106 6 108 1.29e-13 63.2
MsaG016843 MtrunA17_Chr4g0010001 35.802 81 51 1 8 88 10 89 3.51e-13 60.1
MsaG016843 MtrunA17_Chr8g0383961 32.075 106 72 0 1 106 7 112 4.17e-13 63.2
MsaG016843 MtrunA17_Chr4g0074421 64.000 50 18 0 57 106 1 50 7.77e-13 61.6
MsaG016843 MtrunA17_Chr6g0471041 31.132 106 73 0 1 106 7 112 1.63e-12 62.0
MsaG016843 MtrunA17_Chr8g0391911 33.663 101 63 3 8 106 9 107 1.45e-11 58.9
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG016843 AT2G25180.1 63.462 104 38 0 3 106 8 111 1.56e-38 135
MsaG016843 AT4G31920.1 64.356 101 36 0 6 106 11 111 4.59e-38 134
MsaG016843 AT3G16857.1 55.556 99 44 0 8 106 33 131 1.56e-29 110
MsaG016843 AT3G16857.2 55.556 99 44 0 8 106 33 131 1.94e-29 110
MsaG016843 AT5G58080.1 59.406 101 40 1 2 102 8 107 3.59e-29 110
MsaG016843 AT1G67710.1 54.082 98 45 0 9 106 8 105 8.42e-29 108
MsaG016843 AT2G01760.1 48.544 103 52 1 5 106 4 106 2.23e-23 92.4
MsaG016843 AT2G01760.2 38.168 131 52 2 5 106 4 134 5.40e-18 77.8
MsaG016843 AT3G16857.3 57.377 61 26 0 46 106 1 61 2.50e-17 76.3
MsaG016843 AT5G49240.1 38.636 88 54 0 5 92 35 122 1.29e-14 67.8
MsaG016843 AT1G49190.1 36.458 96 61 0 7 102 29 124 4.12e-14 67.0
MsaG016843 AT1G49190.2 36.458 96 61 0 7 102 29 124 7.18e-14 66.2
MsaG016843 AT3G62670.1 38.298 94 56 1 13 106 42 133 7.75e-13 63.5

Find 27 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GGAACTTGAGACGGACCTTC+CGG 0.436170 3:+102759121 MsaT016843.1:CDS
AGCTTAAGTCCATCCATGTC+AGG 0.462326 3:-102759086 None:intergenic
CACGCATTCCGATCGGAAAC+CGG 0.464291 3:-102758346 None:intergenic
TCCGATCGGAAACCGGTCAC+TGG 0.478251 3:-102758339 None:intergenic
ATGCGTGTTCTCGCCGTCGA+TGG 0.504335 3:+102758362 MsaT016843.1:CDS
CGATAATGAGCTAGTGATGA+AGG 0.518138 3:+102759242 MsaT016843.1:CDS
TTCTAAATCCGAGAGATAAG+TGG 0.525410 3:-102758390 None:intergenic
GGTGCACATCAGCGATTACC+AGG 0.528972 3:-102759061 None:intergenic
ACTTAAGCTGCTTGAACTTG+TGG 0.534364 3:+102759100 MsaT016843.1:CDS
TGGCGATTCCACTTATCTCT+CGG 0.540916 3:+102758382 MsaT016843.1:CDS
GTGCACCTGCCTGACATGGA+TGG 0.546404 3:+102759077 MsaT016843.1:CDS
GAACTGAACTTACTTACGAC+CGG 0.554201 3:-102759140 None:intergenic
TTATGGATGACTCCAGTGAC+CGG 0.561206 3:+102758327 None:intergenic
TGAACTTGTGGAACTTGAGA+CGG 0.569359 3:+102759112 MsaT016843.1:CDS
TCCAGTGACCGGTTTCCGAT+CGG 0.572245 3:+102758338 MsaT016843.1:CDS
TGATGTGCACCTGCCTGACA+TGG 0.573968 3:+102759073 MsaT016843.1:CDS
TAAGTCCATCCATGTCAGGC+AGG 0.574028 3:-102759082 None:intergenic
GTGATGAAGGCGGAAGAAGA+AGG 0.583509 3:+102759255 MsaT016843.1:CDS
GACCGTGGTATTGACATGAT+CGG 0.585397 3:-102758421 None:intergenic
GCGAGAACACGCATTCCGAT+CGG 0.623599 3:-102758353 None:intergenic
TGAACTTACTTACGACCGGA+AGG 0.625105 3:-102759136 None:intergenic
ATAAGTGGAATCGCCATCGA+CGG 0.627981 3:-102758375 None:intergenic
AAACAAAGACATGTTTGACC+TGG 0.656788 3:+102759043 MsaT016843.1:CDS
GCGGAAGAAGAAGGACAATG+AGG 0.667849 3:+102759264 MsaT016843.1:CDS
CTCCGATCATGTCAATACCA+CGG 0.699650 3:+102758419 MsaT016843.1:CDS
CGTGGTATTGACATGATCGG+AGG 0.711493 3:-102758418 None:intergenic
TAATGAGCTAGTGATGAAGG+CGG 0.713986 3:+102759245 MsaT016843.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr3 gene 102758329 102759284 102758329 ID=MsaG016843
Chr3 mRNA 102758329 102759284 102758329 ID=MsaT016843.1;Parent=MsaG016843
Chr3 exon 102758329 102758440 102758329 ID=MsaT016843.1.exon1;Parent=MsaT016843.1
Chr3 CDS 102758329 102758440 102758329 ID=cds.MsaT016843.1;Parent=MsaT016843.1
Chr3 exon 102758997 102759149 102758997 ID=MsaT016843.1.exon2;Parent=MsaT016843.1
Chr3 CDS 102758997 102759149 102758997 ID=cds.MsaT016843.1;Parent=MsaT016843.1
Chr3 exon 102759226 102759284 102759226 ID=MsaT016843.1.exon3;Parent=MsaT016843.1
Chr3 CDS 102759226 102759284 102759226 ID=cds.MsaT016843.1;Parent=MsaT016843.1
Gene Sequence

>MsaT016843.1

ATGGATGACTCCAGTGACCGGTTTCCGATCGGAATGCGTGTTCTCGCCGTCGATGGCGATTCCACTTATCTCTCGGATTTAGAAACTCGCCTCCGATCATGTCAATACCACGTAACAACAGCTAGCGAAGCAAAAATGGCATTGACTATGTTGCGAGAAAACAAAGACATGTTTGACCTGGTAATCGCTGATGTGCACCTGCCTGACATGGATGGACTTAAGCTGCTTGAACTTGTGGAACTTGAGACGGACCTTCCGGTCGTAATGTTGTCTGAATCTAGCGATAATGAGCTAGTGATGAAGGCGGAAGAAGAAGGACAATGA
Protein sequence

>MsaT016843.1

MDDSSDRFPIGMRVLAVDGDSTYLSDLETRLRSCQYHVTTASEAKMALTMLRENKDMFDLVIADVHLPDMDGLKLLELVELETDLPVVMLSESSDNELVMKAEEEGQ*