AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0780041262.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0780041262.01.T01 MTR_7g108200 99.020 102 1 0 1 102 1 102 1.58e-72 210
MsG0780041262.01.T01 MTR_1g088920 78.571 98 21 0 1 98 1 98 2.58e-57 172
MsG0780041262.01.T01 MTR_1g088925 76.531 98 23 0 1 98 1 98 3.71e-57 171
MsG0780041262.01.T01 MTR_1g088910 57.447 94 40 0 1 94 1 94 2.67e-37 121
MsG0780041262.01.T01 MTR_2g019900 55.789 95 42 0 1 95 1 95 3.25e-37 121
MsG0780041262.01.T01 MTR_2g019950 55.789 95 42 0 1 95 1 95 6.14e-37 120
MsG0780041262.01.T01 MTR_7g108220 53.684 95 43 1 1 94 1 95 1.60e-32 109
MsG0780041262.01.T01 MTR_7g022690 46.875 96 50 1 1 95 30 125 3.99e-32 109
MsG0780041262.01.T01 MTR_7g108210 52.632 95 44 1 1 94 1 95 1.09e-31 107
MsG0780041262.01.T01 MTR_7g022710 46.875 96 50 1 1 95 30 125 1.09e-31 108
MsG0780041262.01.T01 MTR_4g119050 50.000 96 47 1 1 95 1 96 1.82e-31 107
MsG0780041262.01.T01 MTR_4g119030 50.000 96 47 1 1 95 1 96 1.82e-31 107
MsG0780041262.01.T01 MTR_4g119040 50.000 96 47 1 1 95 1 96 1.82e-31 107
MsG0780041262.01.T01 MTR_7g022550 45.833 96 51 1 1 95 30 125 7.04e-31 106
MsG0780041262.01.T01 MTR_7g026770 50.000 96 47 1 1 95 22 117 1.40e-30 110
MsG0780041262.01.T01 MTR_7g108250 45.263 95 52 0 1 95 1 95 4.06e-26 93.6
MsG0780041262.01.T01 MTR_1g088905 42.553 94 54 0 1 94 1 94 1.06e-24 89.7
MsG0780041262.01.T01 MTR_1g088895 44.681 94 52 0 1 94 1 94 6.93e-22 82.8
MsG0780041262.01.T01 MTR_7g108260 42.553 94 54 0 1 94 1 94 1.73e-21 81.6
MsG0780041262.01.T01 MTR_2g014760 38.298 94 58 0 2 95 27 120 8.60e-19 75.5
MsG0780041262.01.T01 MTR_2g048970 38.776 98 56 1 2 95 29 126 1.25e-17 72.8
MsG0780041262.01.T01 MTR_2g090755 34.375 96 56 2 4 95 41 133 1.81e-16 70.1
MsG0780041262.01.T01 MTR_1g069255 36.170 94 59 1 2 94 84 177 1.64e-15 68.6
MsG0780041262.01.T01 MTR_4g079110 36.082 97 59 2 2 95 52 148 9.42e-15 65.9
MsG0780041262.01.T01 MTR_3g077570 32.979 94 63 0 1 94 18 111 1.86e-13 61.6
MsG0780041262.01.T01 MTR_7g035245 34.043 94 62 0 1 94 3 96 4.57e-13 60.5
MsG0780041262.01.T01 MTR_3g077560 32.979 94 63 0 1 94 21 114 1.80e-12 59.3
MsG0780041262.01.T01 MTR_1g015890 34.737 95 52 2 3 91 48 138 3.05e-12 59.3
MsG0780041262.01.T01 MTR_2g038560 31.707 82 56 0 13 94 40 121 4.10e-11 55.8
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0780041262.01.T01 AT2G47880 75.758 99 24 0 1 99 1 99 1.19e-54 165
MsG0780041262.01.T01 AT2G30540 71.000 100 29 0 1 100 1 100 5.06e-54 164
MsG0780041262.01.T01 AT1G06830 74.227 97 25 0 1 97 1 97 2.70e-53 162
MsG0780041262.01.T01 AT3G62960 71.569 102 29 0 1 102 1 102 5.12e-53 161
MsG0780041262.01.T01 AT3G62950 53.000 100 46 1 1 99 1 100 1.05e-37 122
MsG0780041262.01.T01 AT2G47870 53.125 96 44 1 1 95 1 96 4.26e-36 118
MsG0780041262.01.T01 AT3G21460 54.737 95 43 0 1 95 1 95 2.00e-35 117
MsG0780041262.01.T01 AT4G15680 49.474 95 48 0 1 95 1 95 1.32e-32 109
MsG0780041262.01.T01 AT5G18600 50.526 95 47 0 1 95 1 95 2.39e-32 109
MsG0780041262.01.T01 AT4G15670 48.421 95 49 0 1 95 1 95 5.73e-32 108
MsG0780041262.01.T01 AT4G15660 47.423 97 51 0 1 97 1 97 1.02e-31 107
MsG0780041262.01.T01 AT4G15700 48.421 95 49 0 1 95 1 95 1.49e-31 107
MsG0780041262.01.T01 AT4G15690 48.421 95 49 0 1 95 1 95 2.77e-31 106
MsG0780041262.01.T01 AT5G14070 43.689 103 50 2 1 95 31 133 3.63e-26 94.7
MsG0780041262.01.T01 AT3G62930 42.105 95 55 0 1 95 1 95 2.58e-25 91.3
MsG0780041262.01.T01 AT3G02000 43.434 99 50 1 3 95 31 129 1.28e-23 88.2
MsG0780041262.01.T01 AT1G03020 42.105 95 55 0 1 95 1 95 1.90e-23 86.7
MsG0780041262.01.T01 AT1G28480 33.673 98 61 2 2 95 33 130 4.07e-15 66.2
MsG0780041262.01.T01 AT4G33040 39.785 93 50 2 3 90 41 132 5.39e-15 66.2
MsG0780041262.01.T01 AT4G28730 35.556 90 57 1 2 90 71 160 1.11e-14 66.2
MsG0780041262.01.T01 AT5G40370 31.915 94 64 0 1 94 3 96 1.33e-12 59.3
MsG0780041262.01.T01 AT5G20500 33.333 93 62 0 2 94 33 125 4.87e-12 58.5
MsG0780041262.01.T01 AT4G28730 38.571 70 42 1 2 70 71 140 1.15e-11 57.8
MsG0780041262.01.T01 AT2G20270 31.915 94 63 1 2 94 76 169 1.68e-11 57.8

Find 34 sgRNAs with CRISPR-Local

Find 32 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TTCTCCATTTCCCTTCCTTC+AGG 0.237314 7:+88919386 None:intergenic
CCTGTTCCTGCTGTGTTCAT+TGG 0.272350 7:-88919335 MsG0780041262.01.T01:CDS
TGTTTCAAGAACTTGGGATT+AGG 0.357723 7:-88919436 MsG0780041262.01.T01:CDS
TCTCCATTTCCCTTCCTTCA+GGG 0.366539 7:+88919387 None:intergenic
AACATTCTGTTTCAAGAACT+TGG 0.368312 7:-88919443 MsG0780041262.01.T01:CDS
GTGAAGGGACATAATTTCAT+TGG 0.393227 7:+88919292 None:intergenic
AGACCCTGAAGGAAGGGAAA+TGG 0.401791 7:-88919390 MsG0780041262.01.T01:CDS
TTGAGGTTGGCATCTGAAAA+AGG 0.425553 7:-88919512 MsG0780041262.01.T01:CDS
TGATTCAATTAGAACGAGAT+TGG 0.435807 7:+88919234 None:intergenic
AGAACTTGGGATTAGGCCTA+TGG 0.436071 7:-88919429 MsG0780041262.01.T01:CDS
GTTCCTGCTGTGTTCATTGG+AGG 0.437740 7:-88919332 MsG0780041262.01.T01:CDS
GAGAAAGCTTTGTTGAGGTT+AGG 0.441107 7:-88919368 MsG0780041262.01.T01:CDS
TTCATTGGAGGGCAACTGAT+GGG 0.446550 7:-88919320 MsG0780041262.01.T01:CDS
CCAATGAACACAGCAGGAAC+AGG 0.496655 7:+88919335 None:intergenic
GTTCATTGGAGGGCAACTGA+TGG 0.499451 7:-88919321 MsG0780041262.01.T01:CDS
ATTGAGTGAGGGAGCCACTT+AGG 0.507881 7:+88919270 None:intergenic
CAATTAGAACGAGATTGGTA+TGG 0.511391 7:+88919239 None:intergenic
TGATCAATTTCATGAACCAT+AGG 0.516130 7:+88919413 None:intergenic
TTCCTGCTGTGTTCATTGGA+GGG 0.520038 7:-88919331 MsG0780041262.01.T01:CDS
ACATTCTGTTTCAAGAACTT+GGG 0.523434 7:-88919442 MsG0780041262.01.T01:CDS
TGCCCTCCAATGAACACAGC+AGG 0.533916 7:+88919329 None:intergenic
TTGATCAAGACCCTGAAGGA+AGG 0.541164 7:-88919397 MsG0780041262.01.T01:CDS
AAGGGACATAATTTCATTGG+TGG 0.541849 7:+88919295 None:intergenic
ATTATGTCCCTTCACCTAAG+TGG 0.557113 7:-88919284 MsG0780041262.01.T01:CDS
TGATCAAGACCCTGAAGGAA+GGG 0.574619 7:-88919396 MsG0780041262.01.T01:CDS
TCATTGGAGGGCAACTGATG+GGG 0.576911 7:-88919319 MsG0780041262.01.T01:CDS
TGAGGGAGCCACTTAGGTGA+AGG 0.580811 7:+88919276 None:intergenic
AAATGGAGAAAGCTTTGTTG+AGG 0.591044 7:-88919373 MsG0780041262.01.T01:CDS
GATGGACAAAGTGTTGAGGT+TGG 0.596621 7:-88919525 MsG0780041262.01.T01:CDS
GAGGGAGCCACTTAGGTGAA+GGG 0.625802 7:+88919277 None:intergenic
TCAAGATGGACAAAGTGTTG+AGG 0.649690 7:-88919529 None:intergenic
TGGCTTGATCAATTGAGTGA+GGG 0.652206 7:+88919259 None:intergenic
GAAATTGATCAAGACCCTGA+AGG 0.656540 7:-88919401 MsG0780041262.01.T01:CDS
ATGGCTTGATCAATTGAGTG+AGG 0.695900 7:+88919258 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
AACATTCTGTTTCAAGAACT+TGG - Chr7:88919319-88919338 MsG0780041262.01.T01:CDS 30.0%
ACATTCTGTTTCAAGAACTT+GGG - Chr7:88919320-88919339 MsG0780041262.01.T01:CDS 30.0%
TGATCAATTTCATGAACCAT+AGG + Chr7:88919352-88919371 None:intergenic 30.0%
AAGGGACATAATTTCATTGG+TGG + Chr7:88919470-88919489 None:intergenic 35.0%
CAATTAGAACGAGATTGGTA+TGG + Chr7:88919526-88919545 None:intergenic 35.0%
GTGAAGGGACATAATTTCAT+TGG + Chr7:88919473-88919492 None:intergenic 35.0%
TGTTTCAAGAACTTGGGATT+AGG - Chr7:88919326-88919345 MsG0780041262.01.T01:CDS 35.0%
!! AAATGGAGAAAGCTTTGTTG+AGG - Chr7:88919389-88919408 MsG0780041262.01.T01:CDS 35.0%
ATGGCTTGATCAATTGAGTG+AGG + Chr7:88919507-88919526 None:intergenic 40.0%
ATTATGTCCCTTCACCTAAG+TGG - Chr7:88919478-88919497 MsG0780041262.01.T01:CDS 40.0%
GAAATTGATCAAGACCCTGA+AGG - Chr7:88919361-88919380 MsG0780041262.01.T01:CDS 40.0%
TGGCTTGATCAATTGAGTGA+GGG + Chr7:88919506-88919525 None:intergenic 40.0%
TTGAGGTTGGCATCTGAAAA+AGG - Chr7:88919250-88919269 MsG0780041262.01.T01:CDS 40.0%
!! GAGAAAGCTTTGTTGAGGTT+AGG - Chr7:88919394-88919413 MsG0780041262.01.T01:CDS 40.0%
AGAACTTGGGATTAGGCCTA+TGG - Chr7:88919333-88919352 MsG0780041262.01.T01:CDS 45.0%
GTTGGCATCTGAAAAAGGTG+TGG - Chr7:88919255-88919274 MsG0780041262.01.T01:CDS 45.0%
TCTCCATTTCCCTTCCTTCA+GGG + Chr7:88919378-88919397 None:intergenic 45.0%
TGATCAAGACCCTGAAGGAA+GGG - Chr7:88919366-88919385 MsG0780041262.01.T01:CDS 45.0%
TTCATTGGAGGGCAACTGAT+GGG - Chr7:88919442-88919461 MsG0780041262.01.T01:CDS 45.0%
TTCCTGCTGTGTTCATTGGA+GGG - Chr7:88919431-88919450 MsG0780041262.01.T01:CDS 45.0%
TTCTCCATTTCCCTTCCTTC+AGG + Chr7:88919379-88919398 None:intergenic 45.0%
TTGATCAAGACCCTGAAGGA+AGG - Chr7:88919365-88919384 MsG0780041262.01.T01:CDS 45.0%
AGACCCTGAAGGAAGGGAAA+TGG - Chr7:88919372-88919391 MsG0780041262.01.T01:CDS 50.0%
ATTGAGTGAGGGAGCCACTT+AGG + Chr7:88919495-88919514 None:intergenic 50.0%
CCAATGAACACAGCAGGAAC+AGG + Chr7:88919430-88919449 None:intergenic 50.0%
CCTGTTCCTGCTGTGTTCAT+TGG - Chr7:88919427-88919446 MsG0780041262.01.T01:CDS 50.0%
GTTCATTGGAGGGCAACTGA+TGG - Chr7:88919441-88919460 MsG0780041262.01.T01:CDS 50.0%
GTTCCTGCTGTGTTCATTGG+AGG - Chr7:88919430-88919449 MsG0780041262.01.T01:CDS 50.0%
TCATTGGAGGGCAACTGATG+GGG - Chr7:88919443-88919462 MsG0780041262.01.T01:CDS 50.0%
GAGGGAGCCACTTAGGTGAA+GGG + Chr7:88919488-88919507 None:intergenic 55.0%
TGAGGGAGCCACTTAGGTGA+AGG + Chr7:88919489-88919508 None:intergenic 55.0%
TGCCCTCCAATGAACACAGC+AGG + Chr7:88919436-88919455 None:intergenic 55.0%
Chromosome Type Strat End Strand Name
Chr7 gene 88919238 88919546 88919238 ID=MsG0780041262.01;Name=MsG0780041262.01
Chr7 mRNA 88919238 88919546 88919238 ID=MsG0780041262.01.T01;Parent=MsG0780041262.01;Name=MsG0780041262.01.T01;_AED=0.50;_eAED=0.50;_QI=0|-1|0|1|-1|1|1|0|102
Chr7 exon 88919238 88919546 88919238 ID=MsG0780041262.01.T01:exon:20519;Parent=MsG0780041262.01.T01
Chr7 CDS 88919238 88919546 88919238 ID=MsG0780041262.01.T01:cds;Parent=MsG0780041262.01.T01
Gene Sequence

>MsG0780041262.01.T01

ATGGACAAAGTGTTGAGGTTGGCATCTGAAAAAGGTGTGGTGATTTTCACAAAGAGTTCATGTTGTCTATGCTATGCAGTTAACATTCTGTTTCAAGAACTTGGGATTAGGCCTATGGTTCATGAAATTGATCAAGACCCTGAAGGAAGGGAAATGGAGAAAGCTTTGTTGAGGTTAGGTTGTACTGCACCTGTTCCTGCTGTGTTCATTGGAGGGCAACTGATGGGGTCCACCAATGAAATTATGTCCCTTCACCTAAGTGGCTCCCTCACTCAATTGATCAAGCCATACCAATCTCGTTCTAATTGA

Protein sequence

>MsG0780041262.01.T01

MDKVLRLASEKGVVIFTKSSCCLCYAVNILFQELGIRPMVHEIDQDPEGREMEKALLRLGCTAPVPAVFIGGQLMGSTNEIMSLHLSGSLTQLIKPYQSRSN*