AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0180004899.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0180004899.01.T01 MTR_1g088925 98.990 99 1 0 1 99 1 99 4.66e-69 201
MsG0180004899.01.T01 MTR_1g088920 95.960 99 4 0 1 99 1 99 4.19e-68 199
MsG0180004899.01.T01 MTR_7g108200 76.531 98 23 0 1 98 1 98 3.60e-57 171
MsG0180004899.01.T01 MTR_2g019900 56.842 95 41 0 1 95 1 95 5.30e-39 125
MsG0180004899.01.T01 MTR_1g088910 52.041 98 47 0 1 98 1 98 6.35e-36 118
MsG0180004899.01.T01 MTR_2g019950 54.737 95 43 0 1 95 1 95 1.43e-35 117
MsG0180004899.01.T01 MTR_7g022690 51.042 96 46 1 1 95 30 125 6.65e-34 114
MsG0180004899.01.T01 MTR_7g022710 50.000 96 47 1 1 95 30 125 1.96e-33 112
MsG0180004899.01.T01 MTR_7g022550 50.000 96 47 1 1 95 30 125 1.60e-32 110
MsG0180004899.01.T01 MTR_4g119050 50.000 96 47 1 1 95 1 96 7.69e-32 107
MsG0180004899.01.T01 MTR_4g119030 50.000 96 47 1 1 95 1 96 7.69e-32 107
MsG0180004899.01.T01 MTR_4g119040 50.000 96 47 1 1 95 1 96 7.69e-32 107
MsG0180004899.01.T01 MTR_7g026770 51.042 96 46 1 1 95 22 117 4.16e-31 111
MsG0180004899.01.T01 MTR_7g108220 49.474 95 47 1 1 94 1 95 1.72e-30 104
MsG0180004899.01.T01 MTR_7g108210 48.421 95 48 1 1 94 1 95 1.15e-29 102
MsG0180004899.01.T01 MTR_7g108250 41.053 95 56 0 1 95 1 95 9.80e-26 92.4
MsG0180004899.01.T01 MTR_1g088905 38.298 94 58 0 1 94 1 94 5.82e-25 90.5
MsG0180004899.01.T01 MTR_1g088895 42.857 98 56 0 1 98 1 98 1.91e-21 81.6
MsG0180004899.01.T01 MTR_2g048970 39.796 98 55 1 2 95 29 126 3.66e-21 81.6
MsG0180004899.01.T01 MTR_7g108260 40.426 94 56 0 1 94 1 94 3.42e-20 78.2
MsG0180004899.01.T01 MTR_2g090755 38.542 96 52 2 4 95 41 133 1.56e-19 77.8
MsG0180004899.01.T01 MTR_2g014760 36.170 94 60 0 2 95 27 120 8.61e-19 75.5
MsG0180004899.01.T01 MTR_3g077570 35.789 95 61 0 1 95 18 112 1.35e-16 69.7
MsG0180004899.01.T01 MTR_4g079110 38.710 93 52 3 6 95 58 148 5.51e-16 68.9
MsG0180004899.01.T01 MTR_3g077560 34.043 94 62 0 1 94 21 114 6.50e-16 68.2
MsG0180004899.01.T01 MTR_7g035245 37.234 94 59 0 1 94 3 96 1.03e-15 67.0
MsG0180004899.01.T01 MTR_1g015890 36.170 94 58 1 3 94 48 141 7.61e-14 63.2
MsG0180004899.01.T01 MTR_1g069255 32.979 94 62 1 2 94 84 177 8.54e-14 63.9
MsG0180004899.01.T01 MTR_3g104510 35.484 93 54 3 3 94 23 110 4.10e-13 60.5
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0180004899.01.T01 AT2G47880 72.449 98 27 0 1 98 1 98 2.04e-52 159
MsG0180004899.01.T01 AT1G06830 73.196 97 26 0 1 97 1 97 8.44e-52 158
MsG0180004899.01.T01 AT2G30540 66.327 98 33 0 1 98 1 98 2.71e-51 157
MsG0180004899.01.T01 AT3G62960 70.408 98 29 0 1 98 1 98 8.49e-51 155
MsG0180004899.01.T01 AT3G62950 51.042 96 46 1 1 95 1 96 2.05e-36 119
MsG0180004899.01.T01 AT2G47870 54.167 96 43 1 1 95 1 96 6.62e-36 118
MsG0180004899.01.T01 AT4G15670 50.526 95 47 0 1 95 1 95 3.04e-34 114
MsG0180004899.01.T01 AT4G15680 51.579 95 46 0 1 95 1 95 1.06e-33 112
MsG0180004899.01.T01 AT4G15660 49.485 97 49 0 1 97 1 97 1.11e-33 112
MsG0180004899.01.T01 AT4G15700 51.579 95 46 0 1 95 1 95 1.21e-33 112
MsG0180004899.01.T01 AT3G21460 53.684 95 44 0 1 95 1 95 1.32e-33 112
MsG0180004899.01.T01 AT4G15690 50.526 95 47 0 1 95 1 95 5.35e-33 110
MsG0180004899.01.T01 AT5G18600 46.316 95 51 0 1 95 1 95 8.05e-31 105
MsG0180004899.01.T01 AT5G14070 42.718 103 51 2 1 95 31 133 8.83e-26 93.6
MsG0180004899.01.T01 AT3G62930 41.053 95 56 0 1 95 1 95 1.57e-25 92.0
MsG0180004899.01.T01 AT1G03020 43.158 95 54 0 1 95 1 95 8.45e-25 90.1
MsG0180004899.01.T01 AT3G02000 42.424 99 51 1 3 95 31 129 2.42e-24 89.7
MsG0180004899.01.T01 AT1G28480 36.735 98 58 2 2 95 33 130 2.38e-17 72.0
MsG0180004899.01.T01 AT4G33040 39.175 97 53 2 3 94 41 136 3.13e-16 69.3
MsG0180004899.01.T01 AT5G40370 35.106 94 61 0 1 94 3 96 1.06e-15 67.0
MsG0180004899.01.T01 AT5G11930 41.935 93 44 4 3 94 57 140 5.29e-15 66.2
MsG0180004899.01.T01 AT4G28730 31.915 94 63 1 2 94 71 164 1.23e-13 63.2
MsG0180004899.01.T01 AT5G63030 37.805 82 51 0 13 94 31 112 3.67e-13 60.8
MsG0180004899.01.T01 AT5G20500 29.670 91 64 0 4 94 35 125 2.84e-11 56.2
MsG0180004899.01.T01 AT2G20270 31.915 94 63 1 2 94 76 169 2.85e-11 57.0
MsG0180004899.01.T01 AT1G03850 34.884 86 52 2 10 95 62 143 4.68e-11 56.2

Find 37 sgRNAs with CRISPR-Local

Find 33 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CAGGGTACACTCCAATTTCT+TGG 0.312373 1:-84156421 None:intergenic
TTCTCCATTTCTTTCCCATC+AGG 0.358196 1:-84156467 None:intergenic
GGAGAAAGCTATAACAAAGT+TGG 0.418322 1:+84156484 MsG0180004899.01.T01:CDS
AGATCCTGATGGGAAAGAAA+TGG 0.430695 1:+84156463 MsG0180004899.01.T01:CDS
CCTGTCCCTGCAGTATTCAT+TGG 0.431206 1:+84156518 MsG0180004899.01.T01:CDS
GTGTAGGGACATTACTTCAT+TGG 0.438643 1:-84156561 None:intergenic
GAGAAAGCTATAACAAAGTT+GGG 0.448427 1:+84156485 MsG0180004899.01.T01:CDS
AAATCAAAGTAAGCTAAATT+CGG 0.449656 1:-84156619 None:intergenic
GATGAGGTTGGCTACAGAAA+AGG 0.457049 1:+84156340 MsG0180004899.01.T01:CDS
TTGTCAATTTCATGAATCAC+AGG 0.463222 1:-84156440 None:intergenic
CTTCCTCCAATGAATACTGC+AGG 0.488474 1:-84156524 None:intergenic
GCATAGACAACAAGAGCTCT+TGG 0.505172 1:-84156378 None:intergenic
TCATTGGAGGAAGGCTGGTG+GGG 0.511910 1:+84156534 MsG0180004899.01.T01:CDS
TTCATTGGAGGAAGGCTGGT+GGG 0.512409 1:+84156533 MsG0180004899.01.T01:CDS
ATGAGGTTGGCTACAGAAAA+GGG 0.514459 1:+84156341 MsG0180004899.01.T01:CDS
GATGGAGAAGGTGATGAGGT+TGG 0.515048 1:+84156328 None:intergenic
CCAATGAATACTGCAGGGAC+AGG 0.522380 1:-84156518 None:intergenic
AGTATTCATTGGAGGAAGGC+TGG 0.536333 1:+84156529 MsG0180004899.01.T01:CDS
GTCCCTGCAGTATTCATTGG+AGG 0.543693 1:+84156521 MsG0180004899.01.T01:CDS
GAAATTGACAAAGATCCTGA+TGG 0.544778 1:+84156452 MsG0180004899.01.T01:CDS
AAAGTAAGCTAAATTCGGTA+TGG 0.551896 1:-84156614 None:intergenic
TAGGGACATTACTTCATTGG+TGG 0.552920 1:-84156558 None:intergenic
ATTCGGTATGGCCTGAGTAG+TGG 0.556723 1:-84156602 None:intergenic
CGAGTGAACCACTTAGGTGT+AGG 0.564629 1:-84156577 None:intergenic
ATTCATTGGAGGAAGGCTGG+TGG 0.573512 1:+84156532 MsG0180004899.01.T01:CDS
GTTCACTCGTTCCACTACTC+AGG 0.574323 1:+84156591 MsG0180004899.01.T01:CDS
GAGTGAACCACTTAGGTGTA+GGG 0.588505 1:-84156576 None:intergenic
GGCTACAGAAAAGGGTGTGG+TGG 0.590705 1:+84156349 MsG0180004899.01.T01:CDS
TTATAATATTAAGATGGAGA+AGG 0.591892 1:+84156316 None:intergenic
GTGGAACGAGTGAACCACTT+AGG 0.595515 1:-84156583 None:intergenic
CTGCAGTATTCATTGGAGGA+AGG 0.598971 1:+84156525 MsG0180004899.01.T01:CDS
GTAATGTCCCTACACCTAAG+TGG 0.609456 1:+84156569 MsG0180004899.01.T01:CDS
AAATTGACAAAGATCCTGAT+GGG 0.612548 1:+84156453 MsG0180004899.01.T01:CDS
TTCCTCCAATGAATACTGCA+GGG 0.637919 1:-84156523 None:intergenic
TGTCAATTTCATGAATCACA+GGG 0.646979 1:-84156439 None:intergenic
GTTGGCTACAGAAAAGGGTG+TGG 0.660529 1:+84156346 MsG0180004899.01.T01:CDS
TTAAGATGGAGAAGGTGATG+AGG 0.668317 1:+84156324 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AACATTTTGTTCCAAGAAAT+TGG + Chr1:84156410-84156429 MsG0180004899.01.T01:CDS 25.0%
AAATTGACAAAGATCCTGAT+GGG + Chr1:84156453-84156472 MsG0180004899.01.T01:CDS 30.0%
GAGAAAGCTATAACAAAGTT+GGG + Chr1:84156485-84156504 MsG0180004899.01.T01:CDS 30.0%
TGTCAATTTCATGAATCACA+GGG - Chr1:84156442-84156461 None:intergenic 30.0%
TTGTCAATTTCATGAATCAC+AGG - Chr1:84156443-84156462 None:intergenic 30.0%
GAAATTGACAAAGATCCTGA+TGG + Chr1:84156452-84156471 MsG0180004899.01.T01:CDS 35.0%
GGAGAAAGCTATAACAAAGT+TGG + Chr1:84156484-84156503 MsG0180004899.01.T01:CDS 35.0%
AGATCCTGATGGGAAAGAAA+TGG + Chr1:84156463-84156482 MsG0180004899.01.T01:CDS 40.0%
GTGTAGGGACATTACTTCAT+TGG - Chr1:84156564-84156583 None:intergenic 40.0%
TAGGGACATTACTTCATTGG+TGG - Chr1:84156561-84156580 None:intergenic 40.0%
TTCCTCCAATGAATACTGCA+GGG - Chr1:84156526-84156545 None:intergenic 40.0%
TTCTCCATTTCTTTCCCATC+AGG - Chr1:84156470-84156489 None:intergenic 40.0%
! ATGAGGTTGGCTACAGAAAA+GGG + Chr1:84156341-84156360 MsG0180004899.01.T01:CDS 40.0%
AGTATTCATTGGAGGAAGGC+TGG + Chr1:84156529-84156548 MsG0180004899.01.T01:CDS 45.0%
CAGGGTACACTCCAATTTCT+TGG - Chr1:84156424-84156443 None:intergenic 45.0%
CTGCAGTATTCATTGGAGGA+AGG + Chr1:84156525-84156544 MsG0180004899.01.T01:CDS 45.0%
CTTCCTCCAATGAATACTGC+AGG - Chr1:84156527-84156546 None:intergenic 45.0%
GAGTGAACCACTTAGGTGTA+GGG - Chr1:84156579-84156598 None:intergenic 45.0%
GCATAGACAACAAGAGCTCT+TGG - Chr1:84156381-84156400 None:intergenic 45.0%
GTAATGTCCCTACACCTAAG+TGG + Chr1:84156569-84156588 MsG0180004899.01.T01:CDS 45.0%
! GATGAGGTTGGCTACAGAAA+AGG + Chr1:84156340-84156359 MsG0180004899.01.T01:CDS 45.0%
ATTCATTGGAGGAAGGCTGG+TGG + Chr1:84156532-84156551 MsG0180004899.01.T01:CDS 50.0%
ATTCGGTATGGCCTGAGTAG+TGG - Chr1:84156605-84156624 None:intergenic 50.0%
CCAATGAATACTGCAGGGAC+AGG - Chr1:84156521-84156540 None:intergenic 50.0%
CCTGTCCCTGCAGTATTCAT+TGG + Chr1:84156518-84156537 MsG0180004899.01.T01:CDS 50.0%
CGAGTGAACCACTTAGGTGT+AGG - Chr1:84156580-84156599 None:intergenic 50.0%
GTCCCTGCAGTATTCATTGG+AGG + Chr1:84156521-84156540 MsG0180004899.01.T01:CDS 50.0%
GTGGAACGAGTGAACCACTT+AGG - Chr1:84156586-84156605 None:intergenic 50.0%
GTTCACTCGTTCCACTACTC+AGG + Chr1:84156591-84156610 MsG0180004899.01.T01:CDS 50.0%
GTTGGCTACAGAAAAGGGTG+TGG + Chr1:84156346-84156365 MsG0180004899.01.T01:CDS 50.0%
TTCATTGGAGGAAGGCTGGT+GGG + Chr1:84156533-84156552 MsG0180004899.01.T01:CDS 50.0%
TCATTGGAGGAAGGCTGGTG+GGG + Chr1:84156534-84156553 MsG0180004899.01.T01:CDS 55.0%
! GGCTACAGAAAAGGGTGTGG+TGG + Chr1:84156349-84156368 MsG0180004899.01.T01:CDS 55.0%
Chromosome Type Strat End Strand Name
Chr1 gene 84156329 84156628 84156329 ID=MsG0180004899.01;Name=MsG0180004899.01
Chr1 mRNA 84156329 84156628 84156329 ID=MsG0180004899.01.T01;Parent=MsG0180004899.01;Name=MsG0180004899.01.T01;_AED=0.37;_eAED=0.37;_QI=0|-1|0|1|-1|1|1|0|99
Chr1 exon 84156329 84156628 84156329 ID=MsG0180004899.01.T01:exon:9160;Parent=MsG0180004899.01.T01
Chr1 CDS 84156329 84156628 84156329 ID=MsG0180004899.01.T01:cds;Parent=MsG0180004899.01.T01
Gene Sequence

>MsG0180004899.01.T01

ATGGAGAAGGTGATGAGGTTGGCTACAGAAAAGGGTGTGGTGGTATTCACCAAGAGCTCTTGTTGTCTATGCTATGCAGTGAACATTTTGTTCCAAGAAATTGGAGTGTACCCTGTGATTCATGAAATTGACAAAGATCCTGATGGGAAAGAAATGGAGAAAGCTATAACAAAGTTGGGTTGTAATGCACCTGTCCCTGCAGTATTCATTGGAGGAAGGCTGGTGGGGTCCACCAATGAAGTAATGTCCCTACACCTAAGTGGTTCACTCGTTCCACTACTCAGGCCATACCGAATTTAG

Protein sequence

>MsG0180004899.01.T01

MEKVMRLATEKGVVVFTKSSCCLCYAVNILFQEIGVYPVIHEIDKDPDGKEMEKAITKLGCNAPVPAVFIGGRLVGSTNEVMSLHLSGSLVPLLRPYRI*