AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar zhongmu-4 / Msa0709160

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
Msa0709160 MtrunA17_Chr8g0381841 100.000 79 0 0 1 79 1 79 3.51e-53 165
Msa0709160 MtrunA17_Chr3g0123821 88.608 79 8 1 1 79 1 78 2.11e-46 147
Msa0709160 MtrunA17_Chr1g0174281 86.301 73 10 0 7 79 5 77 2.77e-42 137
Msa0709160 MtrunA17_Chr7g0231131 82.192 73 13 0 7 79 5 77 1.83e-40 132
Msa0709160 MtrunA17_Chr8g0346421 77.465 71 16 0 9 79 18 88 7.44e-36 120
Msa0709160 MtrunA17_Chr7g0275991 76.471 68 16 0 12 79 15 82 4.58e-34 116
Msa0709160 MtrunA17_Chr4g0032201 80.000 65 13 0 15 79 10 74 7.75e-33 112
Msa0709160 MtrunA17_Chr2g0276941 75.000 68 17 0 12 79 10 77 1.54e-32 112
Msa0709160 MtrunA17_Chr3g0112681 78.462 65 14 0 15 79 10 74 1.77e-32 112
Msa0709160 MtrunA17_Chr2g0315551 72.857 70 19 0 10 79 6 75 3.67e-32 111
Msa0709160 MtrunA17_Chr8g0351861 72.603 73 19 1 8 79 6 78 4.34e-32 111
Msa0709160 MtrunA17_Chr2g0283131 72.857 70 19 0 10 79 6 75 1.02e-31 110
Msa0709160 MtrunA17_Chr2g0319951 70.000 70 21 0 10 79 6 75 1.18e-31 109
Msa0709160 MtrunA17_Chr4g0046261 72.857 70 19 0 10 79 6 75 1.24e-31 109
Msa0709160 MtrunA17_Chr4g0040781 72.857 70 19 0 10 79 6 75 2.05e-31 109
Msa0709160 MtrunA17_Chr2g0325091 69.444 72 22 0 8 79 2 73 1.81e-30 106
Msa0709160 MtrunA17_Chr7g0214241 75.000 64 16 0 16 79 14 77 6.32e-30 105
Msa0709160 MtrunA17_Chr1g0189361 73.846 65 17 0 15 79 12 76 3.49e-29 103
Msa0709160 MtrunA17_Chr7g0234201 73.438 64 17 0 16 79 12 75 7.57e-29 102
Msa0709160 MtrunA17_Chr8g0392931 62.319 69 26 0 11 79 8 76 1.09e-26 97.1
Msa0709160 MtrunA17_Chr6g0482721 59.420 69 28 0 11 79 6 74 1.22e-25 94.4
Msa0709160 MtrunA17_Chr4g0055651 60.000 70 26 2 11 79 2 70 5.89e-21 82.0
Msa0709160 MtrunA17_Chr8g0335471 56.522 69 30 0 11 79 2 70 8.64e-21 81.6
Msa0709160 MtrunA17_Chr7g0250531 56.522 69 30 0 11 79 2 70 1.01e-20 81.3
Msa0709160 MtrunA17_Chr1g0182301 55.385 65 29 0 15 79 13 77 8.86e-20 79.3
Msa0709160 MtrunA17_Chr1g0182321 55.385 65 29 0 15 79 13 77 9.15e-20 79.3
Msa0709160 MtrunA17_Chr4g0030911 55.385 65 29 0 15 79 13 77 9.51e-20 79.0
Msa0709160 MtrunA17_Chr1g0212521 55.385 65 29 0 15 79 13 77 9.99e-20 79.0
Msa0709160 MtrunA17_Chr2g0276931 55.385 65 29 0 15 79 7 71 1.09e-19 78.6
Msa0709160 MtrunA17_Chr7g0263071 55.385 65 29 0 15 79 13 77 1.19e-19 79.0
Msa0709160 MtrunA17_Chr8g0384311 51.471 68 32 1 12 79 8 74 6.94e-19 76.6
Msa0709160 MtrunA17_Chr8g0349711 54.688 64 29 0 16 79 5 68 5.38e-18 74.3
Msa0709160 MtrunA17_Chr6g0458081 52.308 65 31 0 15 79 4 68 6.27e-18 74.3
Msa0709160 MtrunA17_Chr1g0197331 52.500 80 35 2 1 79 1 78 7.16e-18 74.3
Msa0709160 MtrunA17_Chr3g0130271 51.471 68 32 1 12 79 7 73 7.84e-18 73.9
Msa0709160 MtrunA17_Chr1g0199331 51.250 80 33 3 6 83 23 98 1.14e-17 73.6
Msa0709160 MtrunA17_Chr8g0349681 55.385 65 29 0 16 80 12 76 1.81e-17 75.1
Msa0709160 MtrunA17_Chr8g0349681 47.826 69 36 0 11 79 169 237 6.84e-15 67.8
Msa0709160 MtrunA17_Chr8g0349681 48.438 64 33 0 16 79 383 446 1.58e-13 63.9
Msa0709160 MtrunA17_Chr2g0290891 51.562 64 31 0 16 79 5 68 2.14e-17 72.8
Msa0709160 MtrunA17_Chr1g0159481 50.769 65 31 1 15 79 15 78 7.81e-17 71.6
Msa0709160 MtrunA17_Chr2g0327911 46.154 65 35 0 15 79 13 77 1.02e-16 71.2
Msa0709160 MtrunA17_Chr1g0201121 49.206 63 32 0 17 79 8 70 1.38e-16 70.9
Msa0709160 MtrunA17_Chr3g0123971 43.548 62 35 0 18 79 10 71 4.31e-16 69.3
Msa0709160 MtrunA17_Chr8g0382221 43.548 62 35 0 18 79 10 71 4.52e-16 69.3
Msa0709160 MtrunA17_Chr8g0383261 44.286 70 39 0 10 79 5 74 5.76e-16 69.3
Msa0709160 MtrunA17_Chr4g0055081 43.548 62 35 0 18 79 10 71 1.02e-15 68.6
Msa0709160 MtrunA17_Chr5g0400131 43.548 62 35 0 18 79 10 71 1.14e-15 68.2
Msa0709160 MtrunA17_Chr6g0466301 47.619 63 33 0 17 79 8 70 1.33e-15 68.2
Msa0709160 MtrunA17_Chr6g0465491 47.619 63 33 0 17 79 8 70 1.33e-15 68.2
Msa0709160 MtrunA17_Chr7g0265001 50.769 65 32 0 15 79 14 78 1.51e-15 68.2
Msa0709160 MtrunA17_Chr3g0109721 50.820 61 30 0 19 79 12 72 4.36e-15 66.6
Msa0709160 MtrunA17_Chr5g0433561 50.820 61 30 0 19 79 12 72 4.85e-15 66.6
Msa0709160 MtrunA17_Chr1g0180291 50.769 65 31 1 15 79 12 75 9.29e-15 65.9
Msa0709160 MtrunA17_Chr8g0390561 50.820 61 30 0 19 79 11 71 1.27e-14 65.5
Msa0709160 MtrunA17_Chr2g0331691 38.571 70 43 0 10 79 3 72 1.84e-13 62.4
Msa0709160 MtrunA17_Chr4g0034871 41.270 63 37 0 17 79 8 70 4.82e-13 61.2
Msa0709160 MtrunA17_Chr4g0004661 41.270 63 37 0 17 79 64 126 4.86e-13 62.0
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
Msa0709160 AT5G65270.1 88.608 79 9 0 1 79 1 79 1.54e-47 150
Msa0709160 AT3G12160.1 87.671 73 9 0 7 79 5 77 9.87e-43 138
Msa0709160 AT5G47960.1 88.406 69 8 0 11 79 9 77 1.03e-39 130
Msa0709160 AT4G39990.1 82.090 67 12 0 13 79 13 79 1.22e-36 123
Msa0709160 AT1G07410.1 80.000 65 13 0 15 79 10 74 8.41e-33 113
Msa0709160 AT1G01200.1 76.471 68 16 0 12 79 23 90 1.02e-32 113
Msa0709160 AT1G09630.1 72.857 70 19 0 10 79 5 74 1.61e-32 112
Msa0709160 AT5G59150.1 76.471 68 16 0 12 79 7 74 2.32e-32 112
Msa0709160 AT5G45750.1 72.857 70 19 0 10 79 6 75 2.97e-32 111
Msa0709160 AT3G46830.1 73.913 69 18 0 11 79 6 74 4.03e-32 111
Msa0709160 AT3G46830.2 73.913 69 18 0 11 79 6 74 4.03e-32 111
Msa0709160 AT5G60860.1 74.286 70 18 0 10 79 6 75 4.07e-32 111
Msa0709160 AT4G18800.1 72.857 70 19 0 10 79 6 75 5.90e-32 110
Msa0709160 AT1G16920.1 78.462 65 14 0 15 79 11 75 7.13e-32 110
Msa0709160 AT3G15060.1 71.429 70 20 0 10 79 6 75 6.21e-31 108
Msa0709160 AT4G18430.1 68.571 70 22 0 10 79 6 75 1.91e-30 107
Msa0709160 AT1G06400.1 68.571 70 22 0 10 79 6 75 2.81e-30 106
Msa0709160 AT2G33870.1 70.000 70 21 0 10 79 6 75 1.66e-29 104
Msa0709160 AT5G47520.1 65.753 73 25 0 7 79 4 76 2.57e-29 104
Msa0709160 AT2G43130.1 69.231 65 20 0 15 79 10 74 2.86e-29 103
Msa0709160 AT1G05810.1 66.197 71 24 0 9 79 4 74 4.24e-29 103
Msa0709160 AT1G05810.2 66.197 71 24 0 9 79 50 120 8.04e-29 103
Msa0709160 AT1G28550.1 72.308 65 18 0 15 79 11 75 1.04e-28 102
Msa0709160 AT1G18200.1 66.667 69 23 0 11 79 7 75 2.83e-28 102
Msa0709160 AT3G07410.1 70.769 65 19 0 15 79 10 74 6.69e-28 100
Msa0709160 AT2G31680.1 67.692 65 21 0 15 79 10 74 1.52e-27 99.8
Msa0709160 AT1G73640.1 64.706 68 24 0 12 79 8 75 1.57e-26 97.4
Msa0709160 AT1G02130.1 57.971 69 29 0 11 79 2 70 2.69e-21 83.2
Msa0709160 AT4G17530.1 60.000 70 26 2 11 79 2 70 7.38e-21 82.0
Msa0709160 AT5G47200.1 60.000 70 26 2 11 79 2 70 7.54e-21 82.0
Msa0709160 AT3G11730.1 58.462 65 27 0 15 79 6 70 3.35e-20 80.5
Msa0709160 AT3G46060.2 55.385 65 29 0 15 79 13 77 1.40e-19 79.0
Msa0709160 AT3G46060.3 55.385 65 29 0 15 79 13 77 1.40e-19 79.0
Msa0709160 AT3G46060.1 55.385 65 29 0 15 79 13 77 1.40e-19 79.0
Msa0709160 AT5G59840.1 55.385 65 29 0 15 79 13 77 1.47e-19 79.0
Msa0709160 AT3G53610.2 55.385 65 29 0 15 79 13 77 1.55e-19 79.0
Msa0709160 AT3G53610.3 55.385 65 29 0 15 79 13 77 1.55e-19 79.0
Msa0709160 AT3G53610.1 55.385 65 29 0 15 79 13 77 1.55e-19 79.0
Msa0709160 AT1G43890.3 51.351 74 35 1 6 79 2 74 8.97e-19 77.0
Msa0709160 AT1G43890.1 51.351 74 35 1 6 79 2 74 8.97e-19 77.0
Msa0709160 AT1G43890.2 51.351 74 35 1 6 79 2 74 8.97e-19 77.0
Msa0709160 AT3G54840.2 54.545 66 29 1 19 83 35 100 2.28e-17 72.8
Msa0709160 AT3G54840.1 54.545 66 29 1 19 83 35 100 2.68e-17 72.8
Msa0709160 AT4G17170.1 51.562 64 31 0 16 79 5 68 3.19e-17 72.8
Msa0709160 AT5G03520.1 55.385 65 29 0 15 79 13 77 4.61e-17 72.4
Msa0709160 AT3G09900.1 55.385 65 29 0 15 79 13 77 5.07e-17 72.4
Msa0709160 AT4G17160.1 51.562 64 31 0 16 79 5 68 6.06e-17 72.0
Msa0709160 AT4G35860.1 49.231 65 33 0 15 79 4 68 6.98e-17 72.0
Msa0709160 AT3G54840.3 53.846 65 29 1 20 83 2 66 9.22e-17 70.9
Msa0709160 AT1G22740.1 49.206 63 32 0 17 79 8 70 1.59e-16 70.9
Msa0709160 AT4G39890.1 45.161 62 34 0 18 79 10 71 2.32e-16 70.5
Msa0709160 AT2G22290.1 43.548 62 35 0 18 79 10 71 4.94e-16 69.7
Msa0709160 AT5G10260.1 43.548 62 35 0 18 79 10 71 6.23e-16 69.3
Msa0709160 AT5G45130.1 46.835 79 35 2 1 79 1 72 1.22e-15 68.6
Msa0709160 AT4G09720.4 47.619 63 33 0 17 79 8 70 1.33e-15 68.6
Msa0709160 AT2G21880.1 47.619 63 33 0 17 79 9 71 1.35e-15 68.6
Msa0709160 AT4G09720.1 47.619 63 33 0 17 79 8 70 1.40e-15 68.6
Msa0709160 AT2G44610.1 43.548 62 35 0 18 79 10 71 1.41e-15 68.6
Msa0709160 AT4G19640.2 50.820 61 30 0 19 79 12 72 1.42e-15 67.4
Msa0709160 AT4G09720.3 47.619 63 33 0 17 79 8 70 1.67e-15 68.6
Msa0709160 AT4G19640.1 50.820 61 30 0 19 79 12 72 3.29e-15 67.4
Msa0709160 AT4G19640.3 50.820 61 30 0 19 79 12 72 4.04e-15 67.0
Msa0709160 AT1G52280.1 46.032 63 34 0 17 79 8 70 1.18e-14 65.9
Msa0709160 AT3G16100.1 46.032 63 34 0 17 79 8 70 1.34e-14 65.9
Msa0709160 AT5G45130.2 50.847 59 29 0 21 79 22 80 2.36e-14 65.1
Msa0709160 AT5G03530.2 49.231 65 32 1 15 79 11 74 7.61e-14 63.9
Msa0709160 AT5G03530.1 49.231 65 32 1 15 79 11 74 7.61e-14 63.9
Msa0709160 AT5G39620.1 45.161 62 34 0 18 79 6 67 6.83e-13 61.2
Msa0709160 AT3G18820.1 41.270 63 37 0 17 79 8 70 7.62e-13 61.2
Msa0709160 AT1G49300.2 41.270 63 37 0 17 79 8 70 7.70e-13 61.2
Msa0709160 AT1G49300.1 41.270 63 37 0 17 79 8 70 7.70e-13 61.2
Msa0709160 AT5G64990.1 40.323 62 37 0 18 79 8 69 2.43e-12 60.1

Find 25 sgRNAs with CRISPR-Local

Find 22 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GTTAGTTAGTTAGTTAGTTA+TGG 0.313345 5_1:+301054 None:intergenic
GTGTTCAAGGTGGTGCTAAT+AGG 0.356230 5_1:-301257 Msa0709160:CDS
ATGGCAAGTGGAGGAGGTTA+TGG 0.360985 5_1:-301305 Msa0709160:CDS
AGACTGTTAAGGCTCAGATC+TGG 0.423616 5_1:-301115 Msa0709160:CDS
TGAATTTCAGACAAGGACTT+TGG 0.450824 5_1:-301150 Msa0709160:CDS
GGTGGGAAAATCACAGATAC+TGG 0.456737 5_1:-301225 Msa0709160:CDS
CATCGATCATAAGACTGTTA+AGG 0.464870 5_1:-301126 Msa0709160:CDS
GAGGATAGACTACGTGTTCA+AGG 0.485779 5_1:-301270 Msa0709160:CDS
TTCTAGGAATGAATTCAGCT+TGG 0.488716 5_1:-301195 Msa0709160:CDS
GACTGTTAAGGCTCAGATCT+GGG 0.511094 5_1:-301114 Msa0709160:CDS
GTGATCATGGCAAGTGGAGG+AGG 0.522777 5_1:-301311 None:intergenic
CTGAAATTCAACTCCGATGG+TGG 0.524809 5_1:+301163 None:intergenic
GCTCAGATCTGGGATACTGC+TGG 0.571910 5_1:-301104 Msa0709160:CDS
CTAATAGGTGATTCAGCGGT+GGG 0.575293 5_1:-301242 Msa0709160:CDS
TGTCTGAAATTCAACTCCGA+TGG 0.591501 5_1:+301160 None:intergenic
TGAACACGTAGTCTATCCTC+TGG 0.595332 5_1:+301273 None:intergenic
TTGGACTCAAAGTCCACCAT+CGG 0.615554 5_1:-301176 Msa0709160:CDS
GGGATACTGCTGGTCAAGAA+CGG 0.618877 5_1:-301094 Msa0709160:CDS
GCTAATAGGTGATTCAGCGG+TGG 0.621664 5_1:-301243 Msa0709160:CDS
TGAGAAGTGATCATGGCAAG+TGG 0.645187 5_1:-301317 None:intergenic
GAAGTGATCATGGCAAGTGG+AGG 0.663980 5_1:-301314 None:intergenic
GGTGCTAATAGGTGATTCAG+CGG 0.697101 5_1:-301246 Msa0709160:CDS
TCGGAGTTGAATTTCAGACA+AGG 0.697673 5_1:-301157 Msa0709160:CDS
GTTATGGAGATGCAAACCAG+AGG 0.738436 5_1:-301289 Msa0709160:CDS
GATAGACTACGTGTTCAAGG+TGG 0.744499 5_1:-301267 Msa0709160:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AGATACTGGCTAGATTTTCT+AGG - chr5_1:301161-301180 Msa0709160:CDS 35.0%
! TTCTAGGAATGAATTCAGCT+TGG - chr5_1:301177-301196 Msa0709160:CDS 35.0%
TGAATTTCAGACAAGGACTT+TGG - chr5_1:301222-301241 Msa0709160:CDS 35.0%
CATCGATCATAAGACTGTTA+AGG - chr5_1:301246-301265 Msa0709160:CDS 35.0%
! TGTCTGAAATTCAACTCCGA+TGG + chr5_1:301215-301234 None:intergenic 40.0%
TCGGAGTTGAATTTCAGACA+AGG - chr5_1:301215-301234 Msa0709160:CDS 40.0%
GTTATGGAGATGCAAACCAG+AGG - chr5_1:301083-301102 Msa0709160:CDS 45.0%
TGAACACGTAGTCTATCCTC+TGG + chr5_1:301102-301121 None:intergenic 45.0%
GAGGATAGACTACGTGTTCA+AGG - chr5_1:301102-301121 Msa0709160:CDS 45.0%
GATAGACTACGTGTTCAAGG+TGG - chr5_1:301105-301124 Msa0709160:CDS 45.0%
! GTGTTCAAGGTGGTGCTAAT+AGG - chr5_1:301115-301134 Msa0709160:CDS 45.0%
GGTGCTAATAGGTGATTCAG+CGG - chr5_1:301126-301145 Msa0709160:CDS 45.0%
CTAATAGGTGATTCAGCGGT+GGG - chr5_1:301130-301149 Msa0709160:CDS 45.0%
GGTGGGAAAATCACAGATAC+TGG - chr5_1:301147-301166 Msa0709160:CDS 45.0%
TTGGACTCAAAGTCCACCAT+CGG - chr5_1:301196-301215 Msa0709160:CDS 45.0%
CTGAAATTCAACTCCGATGG+TGG + chr5_1:301212-301231 None:intergenic 45.0%
AGACTGTTAAGGCTCAGATC+TGG - chr5_1:301257-301276 Msa0709160:CDS 45.0%
GACTGTTAAGGCTCAGATCT+GGG - chr5_1:301258-301277 Msa0709160:CDS 45.0%
ATGGCAAGTGGAGGAGGTTA+TGG - chr5_1:301067-301086 Msa0709160:CDS 50.0%
GCTAATAGGTGATTCAGCGG+TGG - chr5_1:301129-301148 Msa0709160:CDS 50.0%
GGGATACTGCTGGTCAAGAA+CGG - chr5_1:301278-301297 Msa0709160:CDS 50.0%
! GCTCAGATCTGGGATACTGC+TGG - chr5_1:301268-301287 Msa0709160:CDS 55.0%
Chromosome Type Strat End Strand Name
chr5_1 gene 301067 301327 301067 ID=Msa0709160;Name=Msa0709160
chr5_1 mRNA 301067 301327 301067 ID=Msa0709160-mRNA-1;Parent=Msa0709160;Name=Msa0709160-mRNA-1;_AED=0.13;_eAED=0.13;_QI=0|-1|0|1|-1|1|1|0|86
chr5_1 exon 301067 301327 301067 ID=Msa0709160-mRNA-1:exon:119;Parent=Msa0709160-mRNA-1
chr5_1 CDS 301067 301327 301067 ID=Msa0709160-mRNA-1:cds;Parent=Msa0709160-mRNA-1
Gene Sequence

>Msa0709160

ATGGCAAGTGGAGGAGGTTATGGAGATGCAAACCAGAGGATAGACTACGTGTTCAAGGTGGTGCTAATAGGTGATTCAGCGGTGGGAAAATCACAGATACTGGCTAGATTTTCTAGGAATGAATTCAGCTTGGACTCAAAGTCCACCATCGGAGTTGAATTTCAGACAAGGACTTTGGTCATCGATCATAAGACTGTTAAGGCTCAGATCTGGGATACTGCTGGTCAAGAACGGTACTCTCTTTTCTCTCTCCATAACTAA
Protein sequence

>Msa0709160

MASGGGYGDANQRIDYVFKVVLIGDSAVGKSQILARFSRNEFSLDSKSTIGVEFQTRTLVIDHKTVKAQIWDTAGQERYSLFSLHN*