AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG035600


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG035600 MtrunA17_Chr7g0218911 94.382 89 5 0 1 89 1 89 7.26e-55 175
MsaG035600 MtrunA17_Chr6g0452001 42.308 156 75 4 2 150 67 214 2.09e-31 125
MsaG035600 MtrunA17_Chr8g0364231 45.161 124 63 1 2 120 46 169 1.77e-29 119
MsaG035600 MtrunA17_Chr5g0415031 43.077 130 69 1 2 126 47 176 8.77e-29 117
MsaG035600 MtrunA17_Chr6g0452021 41.176 153 79 4 2 150 47 192 1.77e-27 112
MsaG035600 MtrunA17_Chr1g0206771 38.889 126 68 2 2 120 20 143 2.27e-16 76.3
MsaG035600 MtrunA17_Chr1g0206781 53.846 65 30 0 2 66 15 79 3.23e-16 73.9
MsaG035600 MtrunA17_Chr7g0218901 88.571 35 4 0 87 121 1 35 4.12e-16 71.6
MsaG035600 MtrunA17_Chr1g0205861 43.077 65 37 0 2 66 20 84 2.27e-13 65.9
MsaG035600 MtrunA17_Chr1g0205811 46.269 67 36 0 2 68 18 84 3.73e-13 65.5
MsaG035600 MtrunA17_Chr4g0075861 39.326 89 47 1 2 83 176 264 6.49e-13 68.9
MsaG035600 MtrunA17_Chr4g0075861 36.697 109 65 2 2 110 16 120 3.39e-12 66.6
MsaG035600 MtrunA17_Chr4g0075971 39.326 89 47 1 2 83 176 264 1.64e-12 68.2
MsaG035600 MtrunA17_Chr4g0075971 33.884 121 76 2 2 122 16 132 6.65e-12 66.6
MsaG035600 MtrunA17_Chr3g0077861 44.286 70 38 1 2 70 94 163 2.09e-12 64.7
MsaG035600 MtrunA17_Chr1g0205821 30.894 123 77 2 3 117 18 140 3.29e-12 64.3
MsaG035600 MtrunA17_Chr8g0364021 40.909 66 39 0 2 67 48 113 5.01e-12 65.1
MsaG035600 MtrunA17_Chr3g0077881 35.593 118 65 3 3 109 13 130 9.24e-12 63.2
MsaG035600 MtrunA17_Chr3g0077891 34.746 118 66 3 3 109 13 130 1.12e-11 62.8
MsaG035600 MtrunA17_Chr3g0077891 46.970 66 34 1 2 66 103 168 1.43e-11 62.4
MsaG035600 MtrunA17_Chr3g0077941 35.514 107 60 2 12 109 23 129 1.64e-11 62.4
MsaG035600 MtrunA17_Chr1g0205801 41.791 67 39 0 2 68 16 82 3.78e-11 59.7
MsaG035600 MtrunA17_Chr3g0077911 48.333 60 30 1 2 60 94 153 4.09e-11 60.8
MsaG035600 MtrunA17_Chr1g0209201 34.783 115 62 3 2 112 20 125 4.72e-11 60.1
MsaG035600 MtrunA17_Chr2g0328701 36.082 97 58 2 2 98 33 125 4.83e-11 59.7
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG035600 AT1G24190.3 48.462 130 62 1 2 126 18 147 2.01e-34 134
MsaG035600 AT1G24190.2 48.462 130 62 1 2 126 18 147 2.21e-34 134
MsaG035600 AT1G24190.1 48.462 130 62 1 2 126 18 147 2.32e-34 134
MsaG035600 AT1G59890.2 36.283 226 131 8 2 217 49 271 1.98e-33 131
MsaG035600 AT1G70060.2 44.079 152 70 3 2 145 18 162 2.59e-32 128
MsaG035600 AT1G70060.1 44.079 152 70 3 2 145 18 162 2.59e-32 128
MsaG035600 AT1G59890.3 31.183 279 177 7 2 270 49 322 1.06e-31 126
MsaG035600 AT1G59890.1 31.183 279 177 7 2 270 49 322 1.09e-31 126
MsaG035600 AT1G59890.4 31.183 279 177 7 2 270 49 322 1.21e-31 126
MsaG035600 AT5G15020.1 47.541 122 59 2 2 119 56 176 1.40e-29 120
MsaG035600 AT5G15020.2 47.541 122 59 2 2 119 56 176 1.51e-29 120
MsaG035600 AT3G01320.1 45.082 122 63 1 2 119 61 182 3.54e-29 119
MsaG035600 AT3G01320.2 45.082 122 63 1 2 119 61 182 3.67e-29 119
MsaG035600 AT1G10450.2 42.623 122 67 2 2 120 37 158 2.18e-25 107
MsaG035600 AT1G10450.1 42.623 122 67 2 2 120 37 158 2.18e-25 107
MsaG035600 AT1G10450.3 42.623 122 67 2 2 120 88 209 2.45e-25 107
MsaG035600 AT1G24200.1 36.220 127 79 1 2 126 18 144 5.47e-23 95.1
MsaG035600 AT1G70030.1 40.310 129 72 2 2 126 15 142 1.68e-22 92.8
MsaG035600 AT1G27280.1 36.429 140 78 4 2 130 85 224 3.48e-19 85.5
MsaG035600 AT1G24230.1 37.190 121 74 2 2 120 90 210 1.00e-18 84.3
MsaG035600 AT1G24230.1 34.259 108 60 2 2 108 18 115 3.24e-11 63.2
MsaG035600 AT5G15025.1 53.030 66 31 0 2 67 51 116 2.29e-17 77.4
MsaG035600 AT1G24250.1 36.667 120 57 2 2 120 124 225 3.74e-15 74.7
MsaG035600 AT5G35610.1 35.556 135 67 2 2 120 14 144 5.57e-14 69.3
MsaG035600 AT1G23810.1 34.167 120 60 2 2 120 113 214 3.41e-13 68.9
MsaG035600 AT1G70030.3 39.560 91 51 1 2 88 26 116 8.30e-13 65.1
MsaG035600 AT5G15040.1 43.939 66 37 0 2 67 7 72 1.30e-12 63.2
MsaG035600 AT5G15040.3 43.939 66 37 0 2 67 7 72 1.30e-12 63.2
MsaG035600 AT5G15040.2 43.939 66 37 0 2 67 7 72 1.30e-12 63.2
MsaG035600 AT4G12020.11 44.928 69 37 1 2 70 312 379 1.31e-12 69.3
MsaG035600 AT4G12020.1 44.928 69 37 1 2 70 312 379 1.68e-12 69.3
MsaG035600 AT4G12020.9 44.928 69 37 1 2 70 312 379 1.68e-12 69.3
MsaG035600 AT4G12020.7 44.928 69 37 1 2 70 312 379 1.71e-12 68.9
MsaG035600 AT4G12020.5 44.928 69 37 1 2 70 245 312 1.72e-12 68.9
MsaG035600 AT4G12020.6 44.928 69 37 1 2 70 312 379 1.79e-12 68.9
MsaG035600 AT4G12020.8 44.928 69 37 1 2 70 312 379 1.79e-12 68.9
MsaG035600 AT4G12020.2 44.928 69 37 1 2 70 312 379 1.81e-12 68.9
MsaG035600 AT4G12020.3 44.928 69 37 1 2 70 312 379 1.87e-12 68.9
MsaG035600 AT4G12020.4 44.928 69 37 1 2 70 312 379 1.87e-12 68.9
MsaG035600 AT4G12020.10 44.928 69 37 1 2 70 312 379 1.89e-12 68.9
MsaG035600 AT1G70030.2 39.560 91 51 1 2 88 26 116 4.37e-12 63.5
MsaG035600 AT1G27260.1 34.167 120 60 2 2 120 97 198 5.20e-12 65.1
MsaG035600 AT1G24210.1 33.333 120 63 4 2 120 18 121 3.97e-11 61.2

Find 52 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AAAACCTTTGTCTCTGATTT+TGG 0.115164 7:-16952679 MsaT035600.1:CDS
CAACAACCACTTTGAGGTTA+TGG 0.257486 7:-16952617 MsaT035600.1:CDS
TTCAAATCCATCTGGCAAAA+AGG 0.287960 7:+16955744 None:intergenic
ACCTCAAAGTGGTTGTTGTT+TGG 0.313532 7:+16952622 None:intergenic
CCTCAAAGTGGTTGTTGTTT+GGG 0.314138 7:+16952623 None:intergenic
TTAGCAATTAGTACATGTTT+AGG 0.343025 7:+16950112 None:intergenic
TATTCTTTAGTGATCACTTT+TGG 0.343155 7:+16955700 None:intergenic
GGAGCTCCTTAACACTCTTA+TGG 0.402697 7:+16955143 None:intergenic
CCCAAACAACAACCACTTTG+AGG 0.426739 7:-16952623 MsaT035600.1:CDS
ATGTATTTGTAGAATTGATC+TGG 0.430976 7:-16955833 MsaT035600.1:intron
GATGTATCTCAATGAAATAA+AGG 0.440944 7:-16956010 MsaT035600.1:CDS
AAACGACCATAAGAGTGTTA+AGG 0.472625 7:-16955149 MsaT035600.1:CDS
TTAGATTAGCAATTAGTGTA+GGG 0.477035 7:+16949954 None:intergenic
ATTAGATTAGCAATTAGTGC+AGG 0.482399 7:+16949800 None:intergenic
TTGATCGTAATTGGATCCAA+TGG 0.499308 7:+16948468 None:intergenic
TAGAATTGATCTGGAGGGTG+TGG 0.501765 7:-16955824 MsaT035600.1:CDS
ATTAGATTAGCAATTAGTGT+AGG 0.505159 7:+16949953 None:intergenic
GCAATTAGTACATGTTTAGG+AGG 0.507142 7:+16950115 None:intergenic
TGTGAAAATAGAGTTTGAAC+GGG 0.512420 7:+16949773 None:intergenic
TGTGAAAATAGAGTTTGAAC+GGG 0.512420 7:+16949926 None:intergenic
AGTGAGATTTCAAATCCATC+TGG 0.524903 7:+16955736 None:intergenic
GTGTGAAAATAGAGTTTGAA+CGG 0.537404 7:+16949772 None:intergenic
GTGTGAAAATAGAGTTTGAA+CGG 0.537404 7:+16949925 None:intergenic
GTTGTTTGGGTCGACAAAAG+TGG 0.537715 7:+16952636 None:intergenic
ACTTTGAGGTTATGGTTGAA+AGG 0.539732 7:-16952609 MsaT035600.1:CDS
CAATTAGTACATGTTTAGGA+GGG 0.541893 7:+16950116 None:intergenic
TCGATTTCGACGTAACCCTC+AGG 0.544421 7:-16955209 MsaT035600.1:CDS
GGGTGTGGTGGCAAGAGTGA+AGG 0.566355 7:-16955809 MsaT035600.1:CDS
AGATTAGCAATTAGTGTAGG+GGG 0.566546 7:+16949956 None:intergenic
AAAACGATTCATAAACCTGA+GGG 0.569217 7:+16955194 None:intergenic
GCAAAACACATACCGTTTGG+TGG 0.573555 7:+16955122 None:intergenic
GAAATATGTATGCAAGGTGA+AGG 0.576664 7:-16955671 MsaT035600.1:intron
GATCAAAATTGTCCGTGTGA+AGG 0.577636 7:-16948451 MsaT035600.1:CDS
GTGTGAAAATAGAGTATGAA+CGG 0.579211 7:+16950078 None:intergenic
TGAAAGATTTCGAGAAACGA+AGG 0.586700 7:-16955939 MsaT035600.1:intron
TGTTAAGGAGCTCCACCAAA+CGG 0.586892 7:-16955134 MsaT035600.1:intron
AATTAGTACATGTTTAGGAG+GGG 0.587381 7:+16950117 None:intergenic
GTTATGGTTGAAAGGAATCG+TGG 0.587576 7:-16952601 MsaT035600.1:intron
TTAGATTAGCAATTAGTGCA+GGG 0.590325 7:+16949801 None:intergenic
AGATTAGCAATTAGTGCAGG+GGG 0.595212 7:+16949803 None:intergenic
TAGATTAGCAATTAGTGTAG+GGG 0.595656 7:+16949955 None:intergenic
TTTCAACCATAACCTCAAAG+TGG 0.597729 7:+16952611 None:intergenic
TGCTTTGAAATATGTATGCA+AGG 0.609709 7:-16955677 MsaT035600.1:CDS
AATTGATCTGGAGGGTGTGG+TGG 0.629593 7:-16955821 MsaT035600.1:CDS
TGCACCAAAATCAGAGACAA+AGG 0.636949 7:+16952675 None:intergenic
TAGATTAGCAATTAGTGCAG+GGG 0.640759 7:+16949802 None:intergenic
GTATTAAATGCTAATCAAGT+CGG 0.651568 7:-16949680 MsaT035600.1:intron
GTATTAAATGCTAATCAAGT+CGG 0.651568 7:-16949833 MsaT035600.1:CDS
GTATTAAATGCTAATCAAGT+CGG 0.651568 7:-16949986 MsaT035600.1:CDS
TGATGGACTCAACCTTCACA+CGG 0.655316 7:+16948439 None:intergenic
TATTTGTAGAATTGATCTGG+AGG 0.689246 7:-16955830 MsaT035600.1:intron
ATTTGTAGAATTGATCTGGA+GGG 0.693473 7:-16955829 MsaT035600.1:intron

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr7 gene 16948428 16956031 16948428 ID=MsaG035600
Chr7 mRNA 16948428 16956031 16948428 ID=MsaT035600.1;Parent=MsaG035600
Chr7 exon 16948428 16948492 16948428 ID=MsaT035600.1.exon6;Parent=MsaT035600.1
Chr7 CDS 16948428 16948492 16948428 ID=cds.MsaT035600.1;Parent=MsaT035600.1
Chr7 exon 16949681 16950145 16949681 ID=MsaT035600.1.exon5;Parent=MsaT035600.1
Chr7 CDS 16949681 16950145 16949681 ID=cds.MsaT035600.1;Parent=MsaT035600.1
Chr7 exon 16952602 16952719 16952602 ID=MsaT035600.1.exon4;Parent=MsaT035600.1
Chr7 CDS 16952602 16952719 16952602 ID=cds.MsaT035600.1;Parent=MsaT035600.1
Chr7 exon 16955135 16955233 16955135 ID=MsaT035600.1.exon3;Parent=MsaT035600.1
Chr7 CDS 16955135 16955233 16955135 ID=cds.MsaT035600.1;Parent=MsaT035600.1
Chr7 exon 16955672 16955843 16955672 ID=MsaT035600.1.exon2;Parent=MsaT035600.1
Chr7 CDS 16955672 16955843 16955672 ID=cds.MsaT035600.1;Parent=MsaT035600.1
Chr7 exon 16955940 16956031 16955940 ID=MsaT035600.1.exon1;Parent=MsaT035600.1
Chr7 CDS 16955940 16956031 16955940 ID=cds.MsaT035600.1;Parent=MsaT035600.1
Gene Sequence

>MsaT035600.1

ATGTATCTCAATGAAATAAAGGATGCTTTTAAAGATGAGAAGCATAAGTATTATGAATTTTTAAGAGTCTTGAAAGATTTCGAGAAACGAAGAATTGATCTGGAGGGTGTGGTGGCAAGAGTGAAGGAATTTTTTCAAGGGCATGATGAATTGTTATTGAAATTTCAAACCTTTTTGCCAGATGGATTTGAAATCTCACTTCCACCAAAGAAACCAAAAGTGATCACTAAAGAATATGCTTTGAAATATGTATGCAAGGTGAAGACTCGATTTCGACGTAACCCTCAGGTTTATGAATCGTTTTTAGACATAATGCAAATGTATAAAAACGACCATAAGAGTGTTAAGGAGCTCCACCAAACGGGTGCACTTATGTTGCCAAAAACCTTTGTCTCTGATTTTGGTGCATCACTAGGTGATTACGCCACTTTTGTCGACCCAAACAACAACCACTTTGAGGTTATGGTTGAAAGGAATCGTGCAATTTCCCCTCCTAAACATGTACTAATTGCTAATCTAATCTCATCCGTTCATACTCTATTTTCACACTTGATCACACCCGTTGATTCAAACTCTAAAAATGTTCTCTCATATAACTTAGTTAATGCAATTGAAGACGTATTAAATGCTAATCAAGTCGGTCAACAACCCCCTACACTAATTGCTAATCTAATTTCACCCGTTCAAACTCTATTTTCACACTTGATCACACTCGTTGATTCAAACTCTGAAAATGTTCTCTCATATAACTTAGTTAATGCAATTGAAGACGTATTAAATGCTAATCAAGTCGGTCAACAACCCCCTGCACTAATTGCTAATCTAATTTCACCCGTTCAAACTCTATTTTCACACTTGATCACACCTGTTGATTCAAACTCTGAAAATGTTCTCTCATATAACTTAGTTAATGCAATTGAAGACGTATTAAATGCTAATCAAGTCGATCCATTGGATCCAATTACGATCAAAATTGTCCGTGTGAAGGTTGAGTCCATCAAACAAAATTGA

Protein sequence

>MsaT035600.1

MYLNEIKDAFKDEKHKYYEFLRVLKDFEKRRIDLEGVVARVKEFFQGHDELLLKFQTFLPDGFEISLPPKKPKVITKEYALKYVCKVKTRFRRNPQVYESFLDIMQMYKNDHKSVKELHQTGALMLPKTFVSDFGASLGDYATFVDPNNNHFEVMVERNRAISPPKHVLIANLISSVHTLFSHLITPVDSNSKNVLSYNLVNAIEDVLNANQVGQQPPTLIANLISPVQTLFSHLITLVDSNSENVLSYNLVNAIEDVLNANQVGQQPPALIANLISPVQTLFSHLITPVDSNSENVLSYNLVNAIEDVLNANQVDPLDPITIKIVRVKVESIKQN*