AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG004729

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG004729 MtrunA17_Chr1g0200201 98.696 230 2 1 1 230 1 229 3.65e-166 457
MsaG004729 MtrunA17_Chr4g0030001 67.416 178 45 7 64 230 15 190 4.64e-77 230
MsaG004729 MtrunA17_Chr2g0311601 71.818 110 31 0 71 180 11 120 1.24e-54 172
MsaG004729 MtrunA17_Chr4g0043421 67.890 109 35 0 72 180 14 122 2.54e-51 164
MsaG004729 MtrunA17_Chr3g0114061 71.845 103 29 0 72 174 7 109 1.18e-50 162
MsaG004729 MtrunA17_Chr5g0437571 65.487 113 39 0 72 184 5 117 1.80e-50 162
MsaG004729 MtrunA17_Chr3g0106101 66.055 109 37 0 72 180 6 114 1.02e-49 160
MsaG004729 MtrunA17_Chr2g0326051 63.200 125 38 4 114 230 1 125 1.85e-44 145
MsaG004729 MtrunA17_Chr5g0438091 54.386 114 52 0 71 184 37 150 2.24e-41 139
MsaG004729 MtrunA17_Chr3g0117121 59.048 105 43 0 72 176 9 113 4.64e-41 139
MsaG004729 MtrunA17_Chr3g0115431 58.824 102 42 0 72 173 8 109 1.46e-40 138
MsaG004729 MtrunA17_Chr4g0058651 59.223 103 42 0 72 174 10 112 1.98e-40 137
MsaG004729 MtrunA17_Chr6g0449641 52.174 115 55 0 72 186 8 122 2.70e-40 135
MsaG004729 MtrunA17_Chr7g0227511 58.252 103 43 0 72 174 10 112 1.00e-39 134
MsaG004729 MtrunA17_Chr3g0129071 52.101 119 56 1 64 181 37 155 1.00e-39 136
MsaG004729 MtrunA17_Chr5g0402611 57.843 102 43 0 72 173 7 108 1.04e-38 136
MsaG004729 MtrunA17_Chr5g0432451 59.459 111 45 0 71 181 41 151 1.69e-38 133
MsaG004729 MtrunA17_Chr6g0449651 55.340 103 46 0 72 174 66 168 1.33e-37 130
MsaG004729 MtrunA17_Chr3g0097221 53.774 106 49 0 72 177 6 111 9.16e-37 130
MsaG004729 MtrunA17_Chr5g0437401 55.882 102 45 0 72 173 10 111 3.57e-36 125
MsaG004729 MtrunA17_Chr3g0113891 56.566 99 43 0 72 170 13 111 1.75e-35 124
MsaG004729 MtrunA17_Chr7g0225111 45.690 116 61 1 69 182 1 116 3.40e-33 116
MsaG004729 MtrunA17_Chr8g0353981 57.843 102 43 0 72 173 6 107 3.54e-32 117
MsaG004729 MtrunA17_Chr7g0260971 51.456 103 49 1 72 173 13 115 2.26e-31 114
MsaG004729 MtrunA17_Chr8g0351721 50.943 106 51 1 72 176 17 122 2.78e-31 114
MsaG004729 MtrunA17_Chr6g0460951 43.697 119 64 2 70 186 37 154 3.34e-31 114
MsaG004729 MtrunA17_Chr7g0245871 50.000 102 50 1 73 173 27 128 3.45e-31 114
MsaG004729 MtrunA17_Chr1g0184281 44.531 128 58 2 48 174 2 117 2.86e-30 111
MsaG004729 MtrunA17_Chr8g0374601 48.077 104 54 0 70 173 23 126 3.39e-30 113
MsaG004729 MtrunA17_Chr8g0351701 48.544 103 52 1 72 173 22 124 5.92e-30 111
MsaG004729 MtrunA17_Chr8g0374591 48.077 104 54 0 70 173 5 108 6.39e-30 108
MsaG004729 MtrunA17_Chr1g0184271 51.961 102 46 2 73 171 12 113 1.46e-29 110
MsaG004729 MtrunA17_Chr5g0444351 41.905 105 61 0 69 173 1 105 4.53e-29 106
MsaG004729 MtrunA17_Chr7g0261031 51.546 97 46 1 72 167 7 103 1.75e-28 107
MsaG004729 MtrunA17_Chr2g0326041 61.702 94 21 2 26 119 1 79 2.57e-28 102
MsaG004729 MtrunA17_Chr8g0374581 46.226 106 56 1 70 174 5 110 5.63e-27 103
MsaG004729 MtrunA17_Chr5g0435641 46.875 96 50 1 72 166 6 101 3.52e-26 100
MsaG004729 MtrunA17_Chr6g0452691 42.609 115 61 2 74 183 10 124 1.91e-25 98.2
MsaG004729 MtrunA17_Chr6g0452661 42.623 122 59 3 74 187 10 128 1.40e-24 97.8
MsaG004729 MtrunA17_Chr6g0460941 45.455 88 47 1 73 159 7 94 1.93e-24 93.2
MsaG004729 MtrunA17_Chr4g0059901 43.000 100 57 0 74 173 11 110 5.85e-24 96.3
MsaG004729 MtrunA17_Chr7g0245861 49.451 91 43 2 72 159 11 101 3.14e-23 91.3
MsaG004729 MtrunA17_Chr6g0452671 35.762 151 90 4 74 224 12 155 8.57e-22 89.4
MsaG004729 MtrunA17_Chr4g0040831 40.860 93 55 0 74 166 16 108 9.23e-22 89.0
MsaG004729 MtrunA17_Chr4g0055441 40.000 115 58 3 74 183 3 111 1.09e-20 85.1
MsaG004729 MtrunA17_Chr8g0342351 39.000 100 61 0 74 173 13 112 6.20e-20 85.5
MsaG004729 MtrunA17_Chr2g0330201 40.860 93 55 0 74 166 20 112 1.13e-18 82.8
MsaG004729 MtrunA17_Chr5g0439111 38.614 101 61 1 74 173 10 110 3.92e-16 74.7
MsaG004729 MtrunA17_Chr4g0046201 32.258 93 63 0 69 161 2 94 1.13e-14 71.2
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG004729 AT1G07900.1 68.072 166 44 5 69 230 29 189 2.90e-74 223
MsaG004729 AT2G28500.1 63.187 182 47 4 69 230 51 232 2.96e-71 217
MsaG004729 AT2G30130.1 68.519 108 34 0 72 179 7 114 3.60e-50 162
MsaG004729 AT1G16530.1 65.421 107 36 1 71 176 12 118 2.86e-47 154
MsaG004729 AT1G31320.1 67.273 110 36 0 72 181 12 121 2.26e-43 144
MsaG004729 AT5G63090.4 60.194 103 41 0 72 174 10 112 4.48e-41 139
MsaG004729 AT5G63090.3 60.194 103 41 0 72 174 10 112 4.48e-41 139
MsaG004729 AT5G63090.2 60.194 103 41 0 72 174 10 112 4.48e-41 139
MsaG004729 AT5G63090.1 60.194 103 41 0 72 174 10 112 4.48e-41 139
MsaG004729 AT2G23660.2 58.654 104 43 0 72 175 4 107 6.48e-41 142
MsaG004729 AT2G23660.3 58.654 104 43 0 72 175 4 107 6.48e-41 142
MsaG004729 AT2G23660.1 58.654 104 43 0 72 175 4 107 6.48e-41 142
MsaG004729 AT2G30340.1 52.632 114 54 0 71 184 50 163 9.56e-41 140
MsaG004729 AT2G30340.2 52.632 114 54 0 71 184 51 164 1.00e-40 140
MsaG004729 AT3G27650.1 58.654 104 43 0 72 175 38 141 2.93e-40 136
MsaG004729 AT5G66870.1 57.843 102 43 0 72 173 6 107 1.32e-38 136
MsaG004729 AT2G40470.2 49.296 142 68 2 61 200 6 145 5.09e-38 131
MsaG004729 AT2G40470.1 49.296 142 68 2 61 200 31 170 1.03e-37 131
MsaG004729 AT3G26660.1 56.000 100 44 0 74 173 6 105 1.76e-37 127
MsaG004729 AT3G26620.1 56.000 100 44 0 74 173 6 105 1.79e-37 127
MsaG004729 AT3G11090.1 54.369 103 47 0 72 174 10 112 7.66e-37 127
MsaG004729 AT1G65620.1 59.804 102 41 0 72 173 8 109 2.36e-33 119
MsaG004729 AT1G65620.4 59.804 102 41 0 72 173 8 109 2.36e-33 119
MsaG004729 AT1G65620.3 59.804 102 41 0 72 173 8 109 2.36e-33 119
MsaG004729 AT1G65620.5 59.804 102 41 0 72 173 8 109 2.36e-33 119
MsaG004729 AT1G65620.2 59.804 102 41 0 72 173 8 109 2.36e-33 119
MsaG004729 AT4G00210.1 52.336 107 50 1 72 177 10 116 3.02e-33 120
MsaG004729 AT3G03760.1 48.214 112 57 1 72 182 50 161 4.49e-33 120
MsaG004729 AT4G00220.1 50.980 102 49 1 76 176 20 121 1.33e-30 113
MsaG004729 AT2G31310.1 48.077 104 53 1 70 172 4 107 2.55e-29 108
MsaG004729 AT2G45410.1 54.545 99 44 1 76 173 19 117 3.44e-29 108
MsaG004729 AT2G42430.1 46.667 105 55 1 72 175 14 118 4.14e-29 109
MsaG004729 AT2G42440.1 54.167 96 43 1 72 166 6 101 5.45e-29 109
MsaG004729 AT2G45420.1 49.020 102 51 1 76 176 40 141 3.57e-28 107
MsaG004729 AT3G58190.1 49.474 95 47 1 73 166 11 105 2.02e-26 102
MsaG004729 AT3G50510.1 45.192 104 57 0 70 173 9 112 4.27e-26 100
MsaG004729 AT3G50510.2 45.192 104 57 0 70 173 9 112 4.27e-26 100
MsaG004729 AT5G06080.1 44.340 106 58 1 72 176 6 111 3.50e-25 97.8
MsaG004729 AT1G72980.1 45.263 95 52 0 72 166 12 106 5.23e-24 95.9
MsaG004729 AT5G35900.1 41.000 100 59 0 74 173 6 105 4.58e-23 93.2
MsaG004729 AT3G47870.1 41.176 102 60 0 72 173 35 136 3.66e-22 93.2
MsaG004729 AT3G13850.1 43.011 93 53 0 74 166 37 129 5.42e-22 91.7
MsaG004729 AT4G22700.1 37.624 101 61 2 74 173 6 105 1.16e-15 73.2
MsaG004729 AT1G06280.1 38.824 85 49 1 73 154 24 108 1.26e-15 73.2
MsaG004729 AT2G19820.1 38.202 89 54 1 72 159 11 99 1.09e-14 68.6
MsaG004729 AT5G15060.1 42.857 77 40 2 71 144 15 90 9.08e-12 61.2
MsaG004729 AT1G36000.1 33.333 87 58 0 73 159 9 95 5.01e-11 58.9

Find 64 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GGTCTGCTTGGGAGCCTCTT+TGG 0.215297 1:-73158526 MsaT004729.1:CDS
ACCATTGCTCATAGAGTCTT+TGG 0.230237 1:-73159750 MsaT004729.1:CDS
AGGATAAGGGACCCAGTTTA+TGG 0.257729 1:-73158773 MsaT004729.1:CDS
GCACCTGCACACCCATAAAC+TGG 0.308339 1:+73158761 None:intergenic
GCACAAGGGCTAACAATAAT+TGG 0.330791 1:+73159855 None:intergenic
CACTAGCTCAGCTTGTGCTT+TGG 0.331624 1:+73158691 None:intergenic
GCATCTGCTCTCTGAGGTTC+AGG 0.338371 1:+73158827 None:intergenic
CAACATCATTAAGTTCTTGC+AGG 0.371270 1:-73159721 MsaT004729.1:intron
GTGCCACTAAATTTGCTTGT+TGG 0.373985 1:+73158657 None:intergenic
GGTGGAGGAGATGGTGGTTG+AGG 0.390187 1:+73159879 None:intergenic
CCTGCGACGGAGAATCTTGC+AGG 0.417127 1:+73159830 None:intergenic
ATGAAGCAAATGCTAGGATA+AGG 0.419747 1:-73158787 MsaT004729.1:CDS
ACTCATATCAACATGAGGTT+GGG 0.426563 1:+73158574 None:intergenic
TGGTGGTTGAGGAGCGGCCG+AGG 0.441752 1:+73159890 None:intergenic
CCTGCAAGATTCTCCGTCGC+AGG 0.451176 1:-73159830 MsaT004729.1:CDS
GTGTGAATGGGAACATGAAT+TGG 0.456087 1:+73160008 None:intergenic
GGATAAGGGACCCAGTTTAT+GGG 0.457995 1:-73158772 MsaT004729.1:CDS
TTGCCAACAAGCAAATTTAG+TGG 0.460480 1:-73158660 MsaT004729.1:CDS
GACCCAGTTTATGGGTGTGC+AGG 0.487417 1:-73158764 MsaT004729.1:CDS
GTTTGATAGCATGGTGTGAA+TGG 0.487876 1:+73159995 None:intergenic
TTTAGTGGCACTAATTTGCA+TGG 0.489022 1:-73158645 MsaT004729.1:CDS
AGAATCTTGCAGGCAGCACA+AGG 0.497089 1:+73159840 None:intergenic
TTCTCAATATTCTCCTCCCT+CGG 0.503995 1:-73159907 MsaT004729.1:CDS
GGAGGAGAATATTGAGAAGC+TGG 0.504167 1:+73159912 None:intergenic
GGATCAGTTGGAGGAAAATA+CGG 0.507188 1:+73159783 None:intergenic
ATAATTGGTGGTGGAGGAGA+TGG 0.508722 1:+73159870 None:intergenic
GAATATTGAGAAGCTGGTGA+AGG 0.509511 1:+73159918 None:intergenic
TGAAGCAAATGCTAGGATAA+GGG 0.510590 1:-73158786 MsaT004729.1:CDS
AACTCATATCAACATGAGGT+TGG 0.513338 1:+73158573 None:intergenic
TAGATGAGGAGGAGAAGTAG+TGG 0.517097 1:+73160037 None:intergenic
GCTGGTGAAGGGAAAGGTGT+GGG 0.521269 1:+73159930 None:intergenic
CTCATATCAACATGAGGTTG+GGG 0.524829 1:+73158575 None:intergenic
AAAGGTGTGGGAGATTGTAA+AGG 0.533363 1:+73159942 None:intergenic
TGAGAAGCTGGTGAAGGGAA+AGG 0.534082 1:+73159924 None:intergenic
TGTGAATGGGAACATGAATT+GGG 0.535599 1:+73160009 None:intergenic
ATTGGGATTGGTAGATGAGG+AGG 0.537299 1:+73160026 None:intergenic
AGCTGGTGAAGGGAAAGGTG+TGG 0.541852 1:+73159929 None:intergenic
AATTAATTTCATGTCCAAAG+AGG 0.542951 1:+73158512 None:intergenic
ATGGGAACATGAATTGGGAT+TGG 0.544335 1:+73160014 None:intergenic
GGTGGTTGAGGAGCGGCCGA+GGG 0.551956 1:+73159891 None:intergenic
TTAATCATCATGTCATGGTC+TGG 0.552049 1:+73158602 None:intergenic
GGAGGTGAAGAAGATGAAGA+TGG 0.556111 1:+73159963 None:intergenic
GGTGTGGGAGATTGTAAAGG+AGG 0.557869 1:+73159945 None:intergenic
CACCTGCACACCCATAAACT+GGG 0.560148 1:+73158762 None:intergenic
ATTGGTGGTGGAGGAGATGG+TGG 0.560667 1:+73159873 None:intergenic
GGGCTAACAATAATTGGTGG+TGG 0.570890 1:+73159861 None:intergenic
GGTTGAGGAGCGGCCGAGGG+AGG 0.575874 1:+73159894 None:intergenic
TGTAGTAGAGTTTGATAGCA+TGG 0.578297 1:+73159986 None:intergenic
TGGTTTATGAAGCAAATGCT+AGG 0.582803 1:-73158793 MsaT004729.1:CDS
TGAATTGGGATTGGTAGATG+AGG 0.583122 1:+73160023 None:intergenic
TTTGATAGCATGGTGTGAAT+GGG 0.585620 1:+73159996 None:intergenic
TCCAAAGACTCTATGAGCAA+TGG 0.589978 1:+73159749 None:intergenic
CTAACAATAATTGGTGGTGG+AGG 0.590976 1:+73159864 None:intergenic
AACTTGAGTGGATCAGTTGG+AGG 0.595286 1:+73159774 None:intergenic
CTTACTGCATCTGCTCTCTG+AGG 0.598505 1:+73158821 None:intergenic
GTGAACTTGAGTGGATCAGT+TGG 0.601167 1:+73159771 None:intergenic
AATATTGAGAAGCTGGTGAA+GGG 0.602247 1:+73159919 None:intergenic
GCTGATTAATCATCATGTCA+TGG 0.608852 1:+73158597 None:intergenic
AGGAGATGGTGGTTGAGGAG+CGG 0.615539 1:+73159884 None:intergenic
AGCAGATGCAGTAAGCAGCA+TGG 0.619103 1:-73158813 MsaT004729.1:CDS
TGAGCAATGGTGAACTTGAG+TGG 0.624171 1:+73159762 None:intergenic
CAAGGGCTAACAATAATTGG+TGG 0.638801 1:+73159858 None:intergenic
AAGCAACTCATATCAACATG+AGG 0.663119 1:+73158569 None:intergenic
GAATCTTGCAGGCAGCACAA+GGG 0.696277 1:+73159841 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr1 gene 73158520 73160078 73158520 ID=MsaG004729
Chr1 mRNA 73158520 73160078 73158520 ID=MsaT004729.1;Parent=MsaG004729
Chr1 exon 73158520 73158855 73158520 ID=MsaT004729.1.exon2;Parent=MsaT004729.1
Chr1 CDS 73158520 73158855 73158520 ID=cds.MsaT004729.1;Parent=MsaT004729.1
Chr1 exon 73159722 73160078 73159722 ID=MsaT004729.1.exon1;Parent=MsaT004729.1
Chr1 CDS 73159722 73160078 73159722 ID=cds.MsaT004729.1;Parent=MsaT004729.1
Gene Sequence

>MsaT004729.1

ATGGAACACAAAATGAAAACCACTACTTCTCCTCCTCATCTACCAATCCCAATTCATGTTCCCATTCACACCATGCTATCAAACTCTACTACACCATCTTCATCTTCTTCACCTCCTTTACAATCTCCCACACCTTTCCCTTCACCAGCTTCTCAATATTCTCCTCCCTCGGCCGCTCCTCAACCACCATCTCCTCCACCACCAATTATTGTTAGCCCTTGTGCTGCCTGCAAGATTCTCCGTCGCAGGTGTGTTGAAAAGTGTGTGTTAGCTCCGTATTTTCCTCCAACTGATCCACTCAAGTTCACCATTGCTCATAGAGTCTTTGGAGCTAGCAACATCATTAAGTTCTTGCAGGAACTACCTGAACCTCAGAGAGCAGATGCAGTAAGCAGCATGGTTTATGAAGCAAATGCTAGGATAAGGGACCCAGTTTATGGGTGTGCAGGTGCAATATGTCAACTTCAAAAACAAGTTAGTGAGTTACAAACACAGCTAGCCAAAGCACAAGCTGAGCTAGTGAACATGCATTGCCAACAAGCAAATTTAGTGGCACTAATTTGCATGGAAATGAGTACTCAGTCATCACCAGACCATGACATGATGATTAATCAGCCCCAACCTCATGTTGATATGAGTTGCTTTTTAGAGGACAACAATTTTGGGTCTGCTTGGGAGCCTCTTTGGACATGA
Protein sequence

>MsaT004729.1

MEHKMKTTTSPPHLPIPIHVPIHTMLSNSTTPSSSSSPPLQSPTPFPSPASQYSPPSAAPQPPSPPPPIIVSPCAACKILRRRCVEKCVLAPYFPPTDPLKFTIAHRVFGASNIIKFLQELPEPQRADAVSSMVYEANARIRDPVYGCAGAICQLQKQVSELQTQLAKAQAELVNMHCQQANLVALICMEMSTQSSPDHDMMINQPQPHVDMSCFLEDNNFGSAWEPLWT*