AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0480020814.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0480020814.01.T01 MTR_4g059730 94.737 95 5 0 1 95 1 95 3.35e-64 193
MsG0480020814.01.T01 MTR_1g090060 84.783 92 14 0 4 95 3 94 3.83e-55 171
MsG0480020814.01.T01 MTR_1g090070 79.348 92 19 0 4 95 9 100 3.45e-52 163
MsG0480020814.01.T01 MTR_1g090100 82.418 91 16 0 5 95 3 93 8.87e-52 162
MsG0480020814.01.T01 MTR_1g090090 78.261 92 20 0 4 95 3 94 1.60e-49 156
MsG0480020814.01.T01 MTR_3g099757 64.516 93 33 0 3 95 4 96 2.47e-38 127
MsG0480020814.01.T01 MTR_1g090150 62.366 93 35 0 3 95 2 94 9.85e-37 124
MsG0480020814.01.T01 MTR_8g087425 63.830 94 34 0 2 95 3 96 6.80e-36 121
MsG0480020814.01.T01 MTR_2g070200 57.292 96 40 1 1 95 1 96 2.76e-34 117
MsG0480020814.01.T01 MTR_2g070120 57.292 96 40 1 1 95 1 96 3.79e-34 117
MsG0480020814.01.T01 MTR_2g070150 58.333 96 39 1 1 95 1 96 4.79e-34 116
MsG0480020814.01.T01 MTR_4g019780 58.065 93 39 0 3 95 7 99 1.16e-33 115
MsG0480020814.01.T01 MTR_1g115195 61.053 95 36 1 1 95 1 94 2.02e-33 115
MsG0480020814.01.T01 MTR_2g070130 57.292 96 40 1 1 95 1 96 2.99e-33 114
MsG0480020814.01.T01 MTR_2g070180 56.250 96 41 1 1 95 1 96 3.28e-33 114
MsG0480020814.01.T01 MTR_4g019790 58.696 92 38 0 4 95 7 98 4.30e-32 112
MsG0480020814.01.T01 MTR_7g065660 56.989 93 40 0 3 95 6 98 4.79e-32 112
MsG0480020814.01.T01 MTR_7g065640 56.989 93 40 0 3 95 6 98 5.65e-32 111
MsG0480020814.01.T01 MTR_8g087410 59.375 96 38 1 1 95 2 97 7.71e-32 111
MsG0480020814.01.T01 MTR_5g040430 55.789 95 41 1 2 95 5 99 1.09e-31 110
MsG0480020814.01.T01 MTR_2g070070 56.250 96 41 1 1 95 1 96 1.39e-31 110
MsG0480020814.01.T01 MTR_7g065720 56.989 93 40 0 3 95 6 98 3.10e-31 109
MsG0480020814.01.T01 MTR_4g124130 57.732 97 39 2 1 95 1 97 3.45e-31 109
MsG0480020814.01.T01 MTR_7g065740 55.914 93 41 0 3 95 6 98 5.39e-31 109
MsG0480020814.01.T01 MTR_2g070210 55.670 97 40 2 1 94 1 97 9.05e-31 108
MsG0480020814.01.T01 MTR_2g070110 53.125 96 44 1 1 95 1 96 3.90e-30 106
MsG0480020814.01.T01 MTR_7g065230 55.914 93 41 0 3 95 6 98 8.97e-30 105
MsG0480020814.01.T01 MTR_7g065590 53.763 93 43 0 3 95 6 98 1.75e-29 105
MsG0480020814.01.T01 MTR_0186s0030 52.083 96 45 1 1 95 1 96 1.75e-29 102
MsG0480020814.01.T01 MTR_2g070060 53.125 96 44 1 1 95 1 96 1.79e-29 105
MsG0480020814.01.T01 MTR_7g065750 52.688 93 44 0 3 95 6 98 1.93e-29 105
MsG0480020814.01.T01 MTR_8g056940 53.125 96 44 1 1 95 1 96 6.96e-29 103
MsG0480020814.01.T01 MTR_7g065630 52.688 93 44 0 3 95 24 116 4.89e-28 102
MsG0480020814.01.T01 MTR_6g080440 57.692 78 33 0 18 95 17 94 9.67e-28 100
MsG0480020814.01.T01 MTR_5g037380 48.958 96 46 1 3 95 4 99 1.04e-27 100
MsG0480020814.01.T01 MTR_7g065710 53.684 95 44 0 1 95 1 95 1.39e-27 100
MsG0480020814.01.T01 MTR_7g065600 51.613 93 45 0 3 95 6 98 1.77e-27 100
MsG0480020814.01.T01 MTR_7g065680 51.613 93 45 0 3 95 6 98 1.96e-27 100
MsG0480020814.01.T01 MTR_7g065260 52.688 93 44 0 3 95 13 105 2.39e-27 100
MsG0480020814.01.T01 MTR_7g065270 51.613 93 45 0 3 95 6 98 4.80e-27 99.0
MsG0480020814.01.T01 MTR_2g070140 58.750 80 32 1 17 95 1 80 5.28e-27 98.2
MsG0480020814.01.T01 MTR_7g065700 51.579 95 46 0 1 95 4 98 1.01e-26 98.2
MsG0480020814.01.T01 MTR_3g467430 52.128 94 44 1 3 95 8 101 1.41e-26 97.8
MsG0480020814.01.T01 MTR_3g467420 53.261 92 42 1 5 95 10 101 3.94e-26 96.7
MsG0480020814.01.T01 MTR_7g065290 49.462 93 47 0 3 95 6 98 5.86e-26 96.3
MsG0480020814.01.T01 MTR_5g076900 47.368 95 49 1 2 95 4 98 5.92e-26 96.3
MsG0480020814.01.T01 MTR_7g065265 49.462 93 47 0 3 95 6 98 5.99e-26 96.3
MsG0480020814.01.T01 MTR_8g061950 54.255 94 40 3 5 95 6 99 5.83e-25 94.0
MsG0480020814.01.T01 MTR_2g072120 55.102 49 21 1 48 95 2 50 8.20e-15 63.9
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0480020814.01.T01 AT2G29450 63.441 93 34 0 3 95 5 97 3.14e-37 125
MsG0480020814.01.T01 AT2G29420 56.383 94 41 0 2 95 7 100 3.86e-34 117
MsG0480020814.01.T01 AT2G29460 60.870 92 36 0 3 94 6 97 3.95e-34 117
MsG0480020814.01.T01 AT3G09270 58.947 95 37 2 3 95 5 99 3.99e-34 117
MsG0480020814.01.T01 AT2G29490 59.140 93 38 0 3 95 6 98 4.96e-34 117
MsG0480020814.01.T01 AT2G29440 55.914 93 41 0 3 95 5 97 8.49e-34 116
MsG0480020814.01.T01 AT1G78340 56.250 96 41 1 1 95 1 96 2.90e-33 114
MsG0480020814.01.T01 AT1G74590 59.140 93 37 1 4 95 7 99 7.97e-33 114
MsG0480020814.01.T01 AT1G17170 55.208 96 42 1 1 95 1 96 6.67e-32 111
MsG0480020814.01.T01 AT2G29480 58.065 93 39 0 3 95 6 98 1.02e-31 111
MsG0480020814.01.T01 AT1G17180 53.125 96 44 1 1 95 1 96 2.18e-31 110
MsG0480020814.01.T01 AT5G62480 54.167 96 43 1 1 95 5 100 2.31e-31 110
MsG0480020814.01.T01 AT1G78320 52.083 96 45 1 1 95 1 96 1.35e-30 108
MsG0480020814.01.T01 AT1G78380 54.167 96 43 1 1 95 1 96 1.56e-29 105
MsG0480020814.01.T01 AT1G78370 53.125 96 44 1 1 95 1 96 1.85e-29 105
MsG0480020814.01.T01 AT2G29470 55.319 94 41 1 3 95 6 99 6.60e-29 103
MsG0480020814.01.T01 AT1G17190 48.936 94 47 1 3 95 4 97 1.29e-27 100
MsG0480020814.01.T01 AT1G78360 51.042 96 45 2 1 94 1 96 1.27e-26 97.8
MsG0480020814.01.T01 AT1G10370 51.042 96 45 1 2 95 3 98 6.07e-26 96.3
MsG0480020814.01.T01 AT1G59700 50.000 96 45 2 3 95 5 100 8.89e-26 95.9
MsG0480020814.01.T01 AT1G59670 48.958 96 46 2 3 95 5 100 2.26e-25 95.1
MsG0480020814.01.T01 AT1G53680 49.425 87 43 1 10 95 13 99 3.45e-24 91.7
MsG0480020814.01.T01 AT3G43800 49.485 97 45 2 3 95 4 100 4.00e-24 91.7
MsG0480020814.01.T01 AT1G69930 48.913 92 46 1 5 95 13 104 6.26e-24 91.3
MsG0480020814.01.T01 AT1G10360 49.474 95 46 1 3 95 4 98 1.19e-23 90.5
MsG0480020814.01.T01 AT1G27140 48.454 97 46 2 3 95 5 101 1.16e-22 88.2
MsG0480020814.01.T01 AT1G27130 45.833 96 49 2 3 95 5 100 1.36e-22 87.8
MsG0480020814.01.T01 AT1G69920 45.745 94 48 2 5 95 35 128 2.24e-21 85.1
MsG0480020814.01.T01 AT5G62480 50.725 69 34 0 1 69 5 73 3.66e-17 73.2
MsG0480020814.01.T01 AT5G62480 55.000 60 27 0 1 60 5 64 1.93e-16 71.2
MsG0480020814.01.T01 AT1G78320 36.842 95 34 1 1 95 1 69 2.98e-13 62.4

Find 19 sgRNAs with CRISPR-Local

Find 24 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AAGTGAAGCTACATGGATTT+TGG 0.302285 4:+48772925 MsG0480020814.01.T01:CDS
AATACTACCCTCAAAGTAAA+AGG 0.302524 4:-48772954 None:intergenic
TTGAATACATTAATGAGATA+TGG 0.341842 4:+48773126 MsG0480020814.01.T01:CDS
GTATTGACCCTTAAGCTAAA+AGG 0.363440 4:+48772972 MsG0480020814.01.T01:CDS
TCTTCTTCTATGTTCTCATA+TGG 0.416671 4:-48772999 None:intergenic
GCTCTCTCATAAGGATCAAC+AGG 0.420149 4:-48773167 None:intergenic
GAGAGAGCCAAAGCTCGGTC+TGG 0.425309 4:+48773182 MsG0480020814.01.T01:CDS
CGAGCTTTGGCTCTCTCATA+AGG 0.437201 4:-48773176 None:intergenic
GATATGGCCGCAATACCCTT+TGG 0.481732 4:+48773142 MsG0480020814.01.T01:CDS
AGAGAGCCAAAGCTCGGTCT+GGG 0.502162 4:+48773183 MsG0480020814.01.T01:CDS
ACTCCAGTGTTAGTTCATGA+TGG 0.542419 4:+48773074 MsG0480020814.01.T01:CDS
GCAGATCAAGTGAAGCTACA+TGG 0.559561 4:+48772918 MsG0480020814.01.T01:CDS
TTTCCATCATGAACTAACAC+TGG 0.567459 4:-48773077 None:intergenic
TAAGGATCAACAGGAACCAA+AGG 0.568905 4:-48773158 None:intergenic
AAGGATCAACAGGAACCAAA+GGG 0.579533 4:-48773157 None:intergenic
GGATTGTATTGAAGAAGTTG+AGG 0.589460 4:-48773038 None:intergenic
CTTATGAGAGAGCCAAAGCT+CGG 0.603000 4:+48773177 MsG0480020814.01.T01:CDS
ACAGGAACCAAAGGGTATTG+CGG 0.630050 4:-48773149 None:intergenic
ATGATCATAGACTCACATAG+AGG 0.640551 4:-48773101 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! TTGAATACATTAATGAGATA+TGG + Chr4:48773126-48773145 MsG0480020814.01.T01:CDS 20.0%
AATACTACCCTCAAAGTAAA+AGG - Chr4:48772957-48772976 None:intergenic 30.0%
TCTTCTTCTATGTTCTCATA+TGG - Chr4:48773002-48773021 None:intergenic 30.0%
!!! ATGGTATACCTTTTAGCTTA+AGG - Chr4:48772983-48773002 None:intergenic 30.0%
!!! TGGTATACCTTTTAGCTTAA+GGG - Chr4:48772982-48773001 None:intergenic 30.0%
ATGATCATAGACTCACATAG+AGG - Chr4:48773104-48773123 None:intergenic 35.0%
GGATTGTATTGAAGAAGTTG+AGG - Chr4:48773041-48773060 None:intergenic 35.0%
TTTCCATCATGAACTAACAC+TGG - Chr4:48773080-48773099 None:intergenic 35.0%
! AAGTGAAGCTACATGGATTT+TGG + Chr4:48772925-48772944 MsG0480020814.01.T01:CDS 35.0%
! GTACAGTCCTTTTACTTTGA+GGG + Chr4:48772947-48772966 MsG0480020814.01.T01:CDS 35.0%
! GTATTGACCCTTAAGCTAAA+AGG + Chr4:48772972-48772991 MsG0480020814.01.T01:CDS 35.0%
AAGGATCAACAGGAACCAAA+GGG - Chr4:48773160-48773179 None:intergenic 40.0%
ACTCCAGTGTTAGTTCATGA+TGG + Chr4:48773074-48773093 MsG0480020814.01.T01:CDS 40.0%
TAAGGATCAACAGGAACCAA+AGG - Chr4:48773161-48773180 None:intergenic 40.0%
! GGTACAGTCCTTTTACTTTG+AGG + Chr4:48772946-48772965 MsG0480020814.01.T01:CDS 40.0%
CTTATGAGAGAGCCAAAGCT+CGG + Chr4:48773177-48773196 MsG0480020814.01.T01:CDS 45.0%
GCAGATCAAGTGAAGCTACA+TGG + Chr4:48772918-48772937 MsG0480020814.01.T01:CDS 45.0%
GCTCTCTCATAAGGATCAAC+AGG - Chr4:48773170-48773189 None:intergenic 45.0%
! ACTGGAGTTTTCTTGTGCAC+TGG - Chr4:48773062-48773081 None:intergenic 45.0%
!! ACAGGAACCAAAGGGTATTG+CGG - Chr4:48773152-48773171 None:intergenic 45.0%
GATATGGCCGCAATACCCTT+TGG + Chr4:48773142-48773161 MsG0480020814.01.T01:CDS 50.0%
!! CGAGCTTTGGCTCTCTCATA+AGG - Chr4:48773179-48773198 None:intergenic 50.0%
AGAGAGCCAAAGCTCGGTCT+GGG + Chr4:48773183-48773202 MsG0480020814.01.T01:CDS 55.0%
GAGAGAGCCAAAGCTCGGTC+TGG + Chr4:48773182-48773201 MsG0480020814.01.T01:CDS 60.0%
Chromosome Type Strat End Strand Name
Chr4 gene 48772915 48773208 48772915 ID=MsG0480020814.01;Name=MsG0480020814.01
Chr4 mRNA 48772915 48773208 48772915 ID=MsG0480020814.01.T01;Parent=MsG0480020814.01;Name=MsG0480020814.01.T01;_AED=0.45;_eAED=0.45;_QI=0|-1|0|1|-1|1|1|0|97
Chr4 exon 48772915 48773208 48772915 ID=MsG0480020814.01.T01:exon:656;Parent=MsG0480020814.01.T01
Chr4 CDS 48772915 48773208 48772915 ID=MsG0480020814.01.T01:cds;Parent=MsG0480020814.01.T01
Gene Sequence

>MsG0480020814.01.T01

ATGGCAGATCAAGTGAAGCTACATGGATTTTGGTACAGTCCTTTTACTTTGAGGGTAGTATTGACCCTTAAGCTAAAAGGTATACCATATGAGAACATAGAAGAAGATCGTTTCAACAAGAGTCCTCAACTTCTTCAATACAATCCAGTGCACAAGAAAACTCCAGTGTTAGTTCATGATGGAAAACCTCTATGTGAGTCTATGATCATTGTTGAATACATTAATGAGATATGGCCGCAATACCCTTTGGTTCCTGTTGATCCTTATGAGAGAGCCAAAGCTCGGTCTGGGTAA

Protein sequence

>MsG0480020814.01.T01

MADQVKLHGFWYSPFTLRVVLTLKLKGIPYENIEEDRFNKSPQLLQYNPVHKKTPVLVHDGKPLCESMIIVEYINEIWPQYPLVPVDPYERAKARSG*