AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0680035048.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0680035048.01.T01 MTR_6g079550 100.000 73 0 0 1 73 1 73 8.84e-49 153
MsG0680035048.01.T01 MTR_8g107070 91.304 69 6 0 5 73 7 75 1.09e-41 136
MsG0680035048.01.T01 MTR_2g090865 73.529 68 18 0 6 73 5 72 1.98e-32 111
MsG0680035048.01.T01 MTR_2g014990 75.000 68 17 0 6 73 7 74 1.68e-31 109
MsG0680035048.01.T01 MTR_4g088090 75.000 68 17 0 6 73 7 74 2.73e-31 108
MsG0680035048.01.T01 MTR_4g079350 75.000 68 17 0 6 73 7 74 3.57e-31 108
MsG0680035048.01.T01 MTR_4g064897 67.123 73 24 0 1 73 1 73 1.98e-30 106
MsG0680035048.01.T01 MTR_3g069510 68.493 73 23 0 1 73 1 73 2.63e-30 106
MsG0680035048.01.T01 MTR_2g075950 73.529 68 18 0 6 73 7 74 2.78e-30 106
MsG0680035048.01.T01 MTR_2g083860 73.529 68 18 0 6 73 7 74 3.39e-30 105
MsG0680035048.01.T01 MTR_2g005510 69.118 68 21 0 6 73 9 76 2.35e-29 103
MsG0680035048.01.T01 MTR_8g036220 65.672 67 23 0 7 73 11 77 1.23e-25 94.4
MsG0680035048.01.T01 MTR_8g027220 60.870 69 27 0 5 73 19 87 1.93e-25 94.0
MsG0680035048.01.T01 MTR_1g052475 57.971 69 29 0 5 73 8 76 3.78e-25 93.2
MsG0680035048.01.T01 MTR_1g078200 67.188 64 21 0 10 73 12 75 5.27e-25 92.8
MsG0680035048.01.T01 MTR_8g089985 60.294 68 27 0 6 73 11 78 5.44e-25 92.8
MsG0680035048.01.T01 MTR_7g117910 62.687 67 25 0 7 73 15 81 7.55e-25 92.0
MsG0680035048.01.T01 MTR_0262s0050 59.420 69 28 0 5 73 8 76 7.60e-25 92.4
MsG0680035048.01.T01 MTR_7g405790 65.079 63 22 0 11 73 14 76 1.29e-24 91.7
MsG0680035048.01.T01 MTR_3g086980 57.353 68 29 0 6 73 10 77 3.60e-24 90.5
MsG0680035048.01.T01 MTR_7g051940 66.667 63 21 0 11 73 12 74 1.03e-23 89.4
MsG0680035048.01.T01 MTR_8g093740 56.716 67 28 1 7 73 8 73 2.43e-19 77.8
MsG0680035048.01.T01 MTR_1g029450 60.938 64 24 1 10 73 15 77 5.50e-19 77.0
MsG0680035048.01.T01 MTR_8g031870 53.968 63 29 0 11 73 5 67 9.25e-18 73.2
MsG0680035048.01.T01 MTR_8g031660 57.143 63 27 0 10 72 4 66 1.02e-17 73.6
MsG0680035048.01.T01 MTR_8g031680 51.562 64 31 0 10 73 4 67 1.47e-17 73.2
MsG0680035048.01.T01 MTR_3g096350 50.685 73 35 1 1 73 1 72 1.61e-17 71.6
MsG0680035048.01.T01 MTR_8g006970 53.623 69 32 0 5 73 1 69 1.70e-17 72.4
MsG0680035048.01.T01 MTR_3g096350 53.731 67 30 1 7 73 7 72 1.78e-17 71.6
MsG0680035048.01.T01 MTR_2g027660 58.065 62 26 0 11 72 5 66 2.76e-17 72.4
MsG0680035048.01.T01 MTR_8g031830 53.968 63 29 0 11 73 5 67 2.88e-17 72.0
MsG0680035048.01.T01 MTR_7g081700 53.623 69 32 0 5 73 1 69 3.02e-17 72.0
MsG0680035048.01.T01 MTR_6g021790 55.556 63 28 0 10 72 4 66 3.07e-17 72.4
MsG0680035048.01.T01 MTR_8g006970 57.812 64 27 0 10 73 20 83 3.52e-17 72.4
MsG0680035048.01.T01 MTR_1g068730 56.250 64 28 0 10 73 13 76 5.50e-17 70.9
MsG0680035048.01.T01 MTR_3g096350 50.685 73 35 1 1 73 1 72 7.22e-17 71.2
MsG0680035048.01.T01 MTR_1g068740 56.250 64 28 0 10 73 13 76 1.12e-16 70.5
MsG0680035048.01.T01 MTR_1g115325 56.250 64 28 0 10 73 13 76 1.29e-16 70.9
MsG0680035048.01.T01 MTR_4g063160 56.250 64 28 0 10 73 13 76 1.46e-16 70.5
MsG0680035048.01.T01 MTR_1g068740 56.250 64 28 0 10 73 13 76 1.49e-16 70.5
MsG0680035048.01.T01 MTR_1g068730 56.250 64 28 0 10 73 13 76 1.52e-16 70.5
MsG0680035048.01.T01 MTR_7g100020 56.250 64 28 0 10 73 13 76 1.79e-16 70.5
MsG0680035048.01.T01 MTR_1g090717 56.923 65 27 1 10 73 13 77 3.91e-16 69.3
MsG0680035048.01.T01 MTR_2g005500 53.125 64 30 0 10 73 7 70 4.61e-16 68.9
MsG0680035048.01.T01 MTR_1g097420 46.774 62 33 0 12 73 8 69 8.08e-16 68.6
MsG0680035048.01.T01 MTR_2g101890 48.387 62 32 0 12 73 10 71 2.42e-15 67.4
MsG0680035048.01.T01 MTR_8g092020 50.000 62 31 0 12 73 12 73 3.51e-15 67.0
MsG0680035048.01.T01 MTR_7g103070 54.688 64 29 0 10 73 14 77 5.74e-15 66.2
MsG0680035048.01.T01 MTR_8g031810 48.387 62 32 0 9 70 3 64 6.95e-15 63.5
MsG0680035048.01.T01 MTR_4g069850 46.774 62 33 0 12 73 8 69 1.35e-14 65.1
MsG0680035048.01.T01 MTR_4g012940 46.774 62 33 0 12 73 8 69 1.46e-14 65.1
MsG0680035048.01.T01 MTR_2g096550 45.588 68 37 0 6 73 9 76 2.89e-14 64.3
MsG0680035048.01.T01 MTR_3g087160 44.262 61 34 0 13 73 10 70 6.08e-14 63.5
MsG0680035048.01.T01 MTR_3g064390 50.000 60 30 0 14 73 12 71 6.34e-14 62.8
MsG0680035048.01.T01 MTR_8g090215 44.262 61 34 0 13 73 10 70 6.78e-14 63.5
MsG0680035048.01.T01 MTR_5g013900 44.262 61 34 0 13 73 10 70 9.79e-14 63.2
MsG0680035048.01.T01 MTR_4g098950 44.262 61 34 0 13 73 10 70 1.04e-13 62.8
MsG0680035048.01.T01 MTR_6g039490 44.262 61 34 0 12 72 8 68 1.56e-13 62.8
MsG0680035048.01.T01 MTR_3g064390 50.000 60 30 0 14 73 12 71 1.84e-13 62.0
MsG0680035048.01.T01 MTR_5g076590 50.000 60 30 0 14 73 12 71 1.88e-13 62.0
MsG0680035048.01.T01 MTR_1g062760 53.125 64 29 1 10 73 12 74 2.00e-13 62.4
MsG0680035048.01.T01 MTR_1g094220 50.820 61 29 1 14 73 33 93 3.68e-13 61.6
MsG0680035048.01.T01 MTR_1g094220 50.820 61 29 1 14 73 33 93 4.45e-13 61.2
MsG0680035048.01.T01 MTR_1g094220 50.820 61 29 1 14 73 33 93 5.08e-13 60.8
MsG0680035048.01.T01 MTR_1g094220 50.820 61 29 1 14 73 33 93 6.84e-13 61.2
MsG0680035048.01.T01 MTR_3g053480 50.943 53 26 0 2 54 6 58 1.76e-12 56.6
MsG0680035048.01.T01 MTR_2g102060 46.667 60 32 0 14 73 12 71 1.97e-12 59.3
MsG0680035048.01.T01 MTR_8g099250 56.250 48 21 0 2 49 6 53 4.12e-12 55.8
MsG0680035048.01.T01 MTR_8g103550 45.000 60 33 0 14 73 11 70 2.66e-11 56.6
MsG0680035048.01.T01 MTR_2g005500 47.368 57 30 0 10 66 7 63 6.14e-11 55.1
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0680035048.01.T01 AT1G73640 80.282 71 14 0 3 73 4 74 1.46e-38 127
MsG0680035048.01.T01 AT1G18200 77.465 71 16 0 3 73 4 74 1.80e-37 124
MsG0680035048.01.T01 AT5G45750 75.000 68 17 0 6 73 7 74 1.09e-31 109
MsG0680035048.01.T01 AT1G06400 76.471 68 16 0 6 73 7 74 1.89e-31 108
MsG0680035048.01.T01 AT5G60860 73.529 68 18 0 6 73 7 74 2.20e-31 108
MsG0680035048.01.T01 AT1G07410 67.123 73 24 0 1 73 1 73 9.41e-31 107
MsG0680035048.01.T01 AT1G09630 68.493 73 23 0 1 73 1 73 1.33e-30 107
MsG0680035048.01.T01 AT4G18800 72.059 68 19 0 6 73 7 74 1.62e-30 106
MsG0680035048.01.T01 AT1G16920 76.562 64 15 0 10 73 11 74 1.17e-29 104
MsG0680035048.01.T01 AT3G46830 67.123 73 24 0 1 73 1 73 2.22e-29 103
MsG0680035048.01.T01 AT3G46830 67.123 73 24 0 1 73 1 73 2.22e-29 103
MsG0680035048.01.T01 AT3G15060 69.118 68 21 0 6 73 7 74 2.27e-29 103
MsG0680035048.01.T01 AT4G18430 69.118 68 21 0 6 73 7 74 3.35e-29 103
MsG0680035048.01.T01 AT5G59150 64.384 73 26 0 1 73 1 73 6.90e-29 102
MsG0680035048.01.T01 AT2G33870 71.875 64 18 0 10 73 11 74 1.95e-28 101
MsG0680035048.01.T01 AT1G28550 70.312 64 19 0 10 73 11 74 1.22e-27 99.4
MsG0680035048.01.T01 AT4G39990 65.152 66 23 0 8 73 13 78 5.73e-26 95.1
MsG0680035048.01.T01 AT1G01200 65.714 70 24 0 4 73 20 89 7.04e-26 95.1
MsG0680035048.01.T01 AT5G47960 60.870 69 27 0 5 73 8 76 7.92e-26 94.7
MsG0680035048.01.T01 AT3G12160 59.420 69 28 0 5 73 8 76 2.27e-25 93.6
MsG0680035048.01.T01 AT5G47520 66.176 68 23 0 6 73 8 75 3.60e-25 93.2
MsG0680035048.01.T01 AT3G07410 67.188 64 21 0 10 73 10 73 7.73e-25 92.0
MsG0680035048.01.T01 AT2G31680 64.062 64 23 0 10 73 10 73 8.98e-25 92.0
MsG0680035048.01.T01 AT5G65270 61.194 67 26 0 7 73 12 78 2.20e-24 91.3
MsG0680035048.01.T01 AT1G05810 62.500 64 24 0 10 73 10 73 3.59e-24 90.5
MsG0680035048.01.T01 AT1G05810 62.500 64 24 0 10 73 56 119 6.26e-24 90.9
MsG0680035048.01.T01 AT2G43130 56.164 73 32 0 1 73 1 73 6.24e-23 87.0
MsG0680035048.01.T01 AT1G43890 59.375 64 25 1 10 73 11 73 3.82e-18 74.7
MsG0680035048.01.T01 AT1G43890 59.375 64 25 1 10 73 11 73 3.82e-18 74.7
MsG0680035048.01.T01 AT1G43890 59.375 64 25 1 10 73 11 73 3.82e-18 74.7
MsG0680035048.01.T01 AT1G02130 53.623 69 32 0 5 73 1 69 8.99e-18 73.6
MsG0680035048.01.T01 AT5G47200 53.623 69 32 0 5 73 1 69 1.69e-17 72.8
MsG0680035048.01.T01 AT4G17530 53.623 69 32 0 5 73 1 69 1.73e-17 72.8
MsG0680035048.01.T01 AT4G35860 57.143 63 27 0 10 72 4 66 1.97e-17 72.8
MsG0680035048.01.T01 AT4G17160 58.065 62 26 0 11 72 5 66 2.56e-17 72.4
MsG0680035048.01.T01 AT4G17170 58.065 62 26 0 11 72 5 66 2.92e-17 72.4
MsG0680035048.01.T01 AT5G59840 56.250 64 28 0 10 73 13 76 1.42e-16 70.5
MsG0680035048.01.T01 AT3G46060 56.250 64 28 0 10 73 13 76 1.51e-16 70.5
MsG0680035048.01.T01 AT3G46060 56.250 64 28 0 10 73 13 76 1.51e-16 70.5
MsG0680035048.01.T01 AT3G46060 56.250 64 28 0 10 73 13 76 1.51e-16 70.5
MsG0680035048.01.T01 AT3G53610 56.250 64 28 0 10 73 13 76 1.53e-16 70.5
MsG0680035048.01.T01 AT3G53610 56.250 64 28 0 10 73 13 76 1.53e-16 70.5
MsG0680035048.01.T01 AT3G53610 56.250 64 28 0 10 73 13 76 1.53e-16 70.5
MsG0680035048.01.T01 AT3G11730 57.812 64 27 0 10 73 6 69 2.33e-16 70.1
MsG0680035048.01.T01 AT1G22740 46.774 62 33 0 12 73 8 69 7.07e-16 68.6
MsG0680035048.01.T01 AT4G09720 46.774 62 33 0 12 73 8 69 7.19e-16 68.6
MsG0680035048.01.T01 AT4G09720 46.774 62 33 0 12 73 8 69 8.54e-16 68.6
MsG0680035048.01.T01 AT4G09720 46.774 62 33 0 12 73 8 69 8.77e-16 68.6
MsG0680035048.01.T01 AT4G39890 47.541 61 32 0 13 73 10 70 8.94e-16 68.6
MsG0680035048.01.T01 AT5G03520 56.250 64 28 0 10 73 13 76 4.47e-15 66.6
MsG0680035048.01.T01 AT3G09900 56.250 64 28 0 10 73 13 76 4.84e-15 66.6
MsG0680035048.01.T01 AT4G19640 51.667 60 29 0 14 73 12 71 6.78e-15 65.1
MsG0680035048.01.T01 AT3G16100 46.774 62 33 0 12 73 8 69 8.70e-15 65.9
MsG0680035048.01.T01 AT1G52280 46.774 62 33 0 12 73 8 69 1.01e-14 65.5
MsG0680035048.01.T01 AT3G18820 46.774 62 33 0 12 73 8 69 1.13e-14 65.5
MsG0680035048.01.T01 AT1G49300 46.774 62 33 0 12 73 8 69 1.17e-14 65.5
MsG0680035048.01.T01 AT1G49300 46.774 62 33 0 12 73 8 69 1.17e-14 65.5
MsG0680035048.01.T01 AT4G19640 51.667 60 29 0 14 73 12 71 1.21e-14 65.1
MsG0680035048.01.T01 AT5G03530 54.688 64 28 1 10 73 11 73 1.21e-14 65.5
MsG0680035048.01.T01 AT5G03530 54.688 64 28 1 10 73 11 73 1.21e-14 65.5
MsG0680035048.01.T01 AT4G19640 51.667 60 29 0 14 73 12 71 2.01e-14 64.7
MsG0680035048.01.T01 AT5G45130 51.667 60 29 0 14 73 12 71 2.12e-14 64.7
MsG0680035048.01.T01 AT5G45130 51.724 58 28 0 16 73 22 79 6.62e-14 63.5
MsG0680035048.01.T01 AT5G10260 44.262 61 34 0 13 73 10 70 6.88e-14 63.5
MsG0680035048.01.T01 AT2G22290 44.262 61 34 0 13 73 10 70 6.95e-14 63.5
MsG0680035048.01.T01 AT2G44610 44.262 61 34 0 13 73 10 70 9.97e-14 63.2
MsG0680035048.01.T01 AT2G21880 45.161 62 34 0 12 73 9 70 1.02e-13 63.2
MsG0680035048.01.T01 AT3G54840 50.820 61 29 1 14 73 35 95 1.91e-13 62.0
MsG0680035048.01.T01 AT3G54840 50.820 61 29 1 14 73 35 95 3.35e-13 61.6
MsG0680035048.01.T01 AT3G54840 50.847 59 28 1 16 73 3 61 5.43e-13 60.5
MsG0680035048.01.T01 AT3G09910 56.250 64 27 1 10 73 11 73 2.55e-12 59.3
MsG0680035048.01.T01 AT3G09910 56.250 64 27 1 10 73 11 73 2.55e-12 59.3
MsG0680035048.01.T01 AT3G09910 56.250 64 27 1 10 73 11 73 2.55e-12 59.3
MsG0680035048.01.T01 AT3G09910 56.250 64 27 1 10 73 11 73 2.62e-12 58.9
MsG0680035048.01.T01 AT3G09910 56.250 64 27 1 10 73 11 73 2.62e-12 58.9
MsG0680035048.01.T01 AT5G64990 42.623 61 35 0 13 73 8 68 4.30e-12 58.5
MsG0680035048.01.T01 AT5G39620 44.262 61 34 0 13 73 6 66 1.12e-11 57.4

Find 17 sgRNAs with CRISPR-Local

Find 19 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CTCTTCAAAACCGTTCTAAT+TGG 0.205120 6:-98196214 MsG0680035048.01.T01:CDS
ACCGTTCTAATTGGAGATTC+TGG 0.213565 6:-98196205 MsG0680035048.01.T01:CDS
AGCTCATCAAAGCACAAATA+TGG 0.246432 6:-98196072 MsG0680035048.01.T01:CDS
CCAACCATAGGTGTGGAATT+TGG 0.291621 6:-98196121 MsG0680035048.01.T01:CDS
CTAATTGGAGATTCTGGAGT+TGG 0.427347 6:-98196199 MsG0680035048.01.T01:CDS
TTCCACACCTATGGTTGGCT+TGG 0.432211 6:+98196126 None:intergenic
GGAAATCAAACCTTATTTCA+AGG 0.434954 6:-98196177 MsG0680035048.01.T01:CDS
TAATTGGAGATTCTGGAGTT+GGG 0.471690 6:-98196198 MsG0680035048.01.T01:CDS
GCTCATCAAAGCACAAATAT+GGG 0.473052 6:-98196071 MsG0680035048.01.T01:CDS
GTAACCAAATTCCACACCTA+TGG 0.475678 6:+98196117 None:intergenic
CTTGATTCCAAGCCAACCAT+AGG 0.558383 6:-98196133 MsG0680035048.01.T01:CDS
CCAAATTCCACACCTATGGT+TGG 0.560911 6:+98196121 None:intergenic
ATTTGGTTACAAGAACATCA+AGG 0.563030 6:-98196104 MsG0680035048.01.T01:CDS
TCCAGAATCTCCAATTAGAA+CGG 0.576110 6:+98196204 None:intergenic
GCACAAATATGGGACACTGC+CGG 0.604045 6:-98196061 MsG0680035048.01.T01:CDS
GGGACACTGCCGGCCAAGAG+AGG 0.610199 6:-98196051 MsG0680035048.01.T01:CDS
TTCCAAGCCAACCATAGGTG+TGG 0.621032 6:-98196128 MsG0680035048.01.T01:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! CTTTTGTAAACCTTGAAATA+AGG + Chr6:98196131-98196150 None:intergenic 25.0%
ATTTGGTTACAAGAACATCA+AGG - Chr6:98196191-98196210 MsG0680035048.01.T01:CDS 30.0%
! GGAAATCAAACCTTATTTCA+AGG - Chr6:98196118-98196137 MsG0680035048.01.T01:CDS 30.0%
AGCTCATCAAAGCACAAATA+TGG - Chr6:98196223-98196242 MsG0680035048.01.T01:CDS 35.0%
CTCTTCAAAACCGTTCTAAT+TGG - Chr6:98196081-98196100 MsG0680035048.01.T01:CDS 35.0%
GCTCATCAAAGCACAAATAT+GGG - Chr6:98196224-98196243 MsG0680035048.01.T01:CDS 35.0%
TCCAGAATCTCCAATTAGAA+CGG + Chr6:98196094-98196113 None:intergenic 35.0%
!! TAATTGGAGATTCTGGAGTT+GGG - Chr6:98196097-98196116 MsG0680035048.01.T01:CDS 35.0%
!!! CAATTAGAACGGTTTTGAAG+AGG + Chr6:98196083-98196102 None:intergenic 35.0%
ACCGTTCTAATTGGAGATTC+TGG - Chr6:98196090-98196109 MsG0680035048.01.T01:CDS 40.0%
GTAACCAAATTCCACACCTA+TGG + Chr6:98196181-98196200 None:intergenic 40.0%
!! CTAATTGGAGATTCTGGAGT+TGG - Chr6:98196096-98196115 MsG0680035048.01.T01:CDS 40.0%
CCAAATTCCACACCTATGGT+TGG + Chr6:98196177-98196196 None:intergenic 45.0%
CCAACCATAGGTGTGGAATT+TGG - Chr6:98196174-98196193 MsG0680035048.01.T01:CDS 45.0%
CTTGATTCCAAGCCAACCAT+AGG - Chr6:98196162-98196181 MsG0680035048.01.T01:CDS 45.0%
GCACAAATATGGGACACTGC+CGG - Chr6:98196234-98196253 MsG0680035048.01.T01:CDS 50.0%
TTCCAAGCCAACCATAGGTG+TGG - Chr6:98196167-98196186 MsG0680035048.01.T01:CDS 50.0%
! TTCCACACCTATGGTTGGCT+TGG + Chr6:98196172-98196191 None:intergenic 50.0%
GGGACACTGCCGGCCAAGAG+AGG - Chr6:98196244-98196263 MsG0680035048.01.T01:CDS 70.0%
Chromosome Type Strat End Strand Name
Chr6 gene 98196048 98196269 98196048 ID=MsG0680035048.01;Name=MsG0680035048.01
Chr6 mRNA 98196048 98196269 98196048 ID=MsG0680035048.01.T01;Parent=MsG0680035048.01;Name=MsG0680035048.01.T01;_AED=0.47;_eAED=0.47;_QI=0|-1|0|1|-1|1|1|0|73
Chr6 exon 98196048 98196269 98196048 ID=MsG0680035048.01.T01:exon:7483;Parent=MsG0680035048.01.T01
Chr6 CDS 98196048 98196269 98196048 ID=MsG0680035048.01.T01:cds;Parent=MsG0680035048.01.T01
Gene Sequence

>MsG0680035048.01.T01

ATGGCTGATACATTTGATGAGCAGTGTGATTACCTCTTCAAAACCGTTCTAATTGGAGATTCTGGAGTTGGGAAATCAAACCTTATTTCAAGGTTTACAAAAGATGAATTTCGACTTGATTCCAAGCCAACCATAGGTGTGGAATTTGGTTACAAGAACATCAAGGTTAGAGACAAGCTCATCAAAGCACAAATATGGGACACTGCCGGCCAAGAGAGGTAA

Protein sequence

>MsG0680035048.01.T01

MADTFDEQCDYLFKTVLIGDSGVGKSNLISRFTKDEFRLDSKPTIGVEFGYKNIKVRDKLIKAQIWDTAGQER*