AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG026322

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG026322 MtrunA17_Chr5g0412501 96.094 256 5 1 1 251 17 272 0.0 504
MsaG026322 MtrunA17_Chr5g0427051 47.232 271 92 9 5 251 25 268 1.17e-64 202
MsaG026322 MtrunA17_Chr3g0133181 54.854 206 71 6 53 247 76 270 8.20e-64 201
MsaG026322 MtrunA17_Chr2g0315941 44.681 235 117 4 27 250 35 267 1.51e-58 186
MsaG026322 MtrunA17_Chr8g0367691 43.333 240 124 3 18 250 33 267 2.04e-56 181
MsaG026322 MtrunA17_Chr1g0188441 45.685 197 89 5 55 250 7 186 4.17e-55 175
MsaG026322 MtrunA17_Chr7g0217231 46.083 217 72 6 57 250 88 282 2.30e-53 176
MsaG026322 MtrunA17_Chr4g0076821 41.597 238 93 4 56 250 112 346 1.27e-51 172
MsaG026322 MtrunA17_Chr5g0404271 42.254 213 94 4 54 250 96 295 2.54e-51 169
MsaG026322 MtrunA17_Chr6g0453231 48.000 200 92 4 57 250 91 284 5.70e-47 159
MsaG026322 MtrunA17_Chr6g0479901 36.979 192 69 4 57 246 19 160 8.15e-33 117
MsaG026322 MtrunA17_Chr8g0357741 61.333 75 26 2 178 250 23 96 1.72e-22 88.6
MsaG026322 MtrunA17_Chr8g0357721 32.911 158 72 3 68 225 16 139 2.69e-22 89.4
MsaG026322 MtrunA17_Chr8g0361671 67.188 64 20 1 188 250 271 334 1.34e-21 92.4
MsaG026322 MtrunA17_Chr8g0361671 71.154 52 13 1 57 106 64 115 3.59e-18 82.8
MsaG026322 MtrunA17_Chr3g0092371 60.345 58 23 0 56 113 19 76 4.44e-19 79.3
MsaG026322 MtrunA17_Chr6g0453221 58.824 51 17 1 55 105 19 65 3.99e-14 65.9
MsaG026322 MtrunA17_Chr4g0060731 47.143 70 26 2 37 106 13 71 1.30e-13 64.3
MsaG026322 MtrunA17_Chr7g0243651 70.000 40 12 0 56 95 2 41 3.42e-13 63.2
MsaG026322 MtrunA17_Chr8g0349871 52.000 50 24 0 189 238 14 63 3.37e-11 57.8
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG026322 AT4G24660.1 53.769 199 69 4 53 251 45 220 1.83e-67 208
MsaG026322 AT4G24660.2 52.821 195 69 4 53 247 45 216 1.95e-64 201
MsaG026322 AT5G65410.1 51.456 206 85 4 46 251 64 254 4.01e-60 191
MsaG026322 AT2G02540.2 44.811 212 87 5 56 250 86 284 2.27e-58 188
MsaG026322 AT2G02540.1 44.811 212 87 5 56 250 86 284 2.27e-58 188
MsaG026322 AT1G14440.1 44.118 204 93 4 56 250 89 280 9.16e-53 173
MsaG026322 AT1G14440.2 44.118 204 93 4 56 250 89 280 9.16e-53 173
MsaG026322 AT2G18350.1 42.373 236 97 6 22 250 57 260 2.94e-51 168
MsaG026322 AT1G69600.1 42.291 227 112 6 26 247 3 215 1.29e-47 158
MsaG026322 AT5G15210.1 41.880 234 115 4 17 244 17 235 5.59e-46 155
MsaG026322 AT5G60480.1 39.732 224 107 5 27 245 4 204 1.33e-43 147
MsaG026322 AT3G50890.1 42.647 204 89 5 55 249 58 242 1.62e-41 142
MsaG026322 AT3G28920.1 40.476 210 102 4 54 247 49 251 2.65e-40 141
MsaG026322 AT5G39760.1 40.092 217 97 5 57 250 56 262 3.91e-40 141
MsaG026322 AT5G42780.1 36.318 201 98 5 54 247 61 238 7.84e-28 107
MsaG026322 AT1G75240.1 75.000 52 13 0 55 106 74 125 1.10e-23 97.4
MsaG026322 AT1G74660.2 65.000 60 21 0 55 114 37 96 1.28e-23 92.0
MsaG026322 AT1G74660.1 64.407 59 21 0 55 113 37 95 1.09e-22 89.7
MsaG026322 AT3G28917.1 56.667 60 25 1 55 113 31 90 5.99e-18 77.0
MsaG026322 AT1G18835.1 55.932 59 23 1 55 113 24 79 4.99e-17 74.3

Find 76 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GCAGGGTATTTGCATGTTTC+TGG 0.126936 5:+20337817 MsaT026322.1:CDS
GTTGGAGTTAGCTGAGAAAT+TGG 0.240875 5:+20338008 MsaT026322.1:CDS
CATGTTGCTCTTTCCATTGT+TGG 0.297101 5:-20337515 None:intergenic
TTAACAACTCTTGATGAGTT+TGG 0.309890 5:-20337427 None:intergenic
CTTGCTTTACCGTCAACTTC+TGG 0.335479 5:+20337859 MsaT026322.1:CDS
AGCGTCATGTTCTTAAGGTT+TGG 0.351100 5:+20338094 MsaT026322.1:CDS
GAGGTGGTGGATGGTGATGA+TGG 0.385898 5:-20337762 None:intergenic
TCAGAAACATGACGAAGGTT+TGG 0.390875 5:+20338041 MsaT026322.1:CDS
TCAACTTCTGGTGGCGGTGG+AGG 0.395039 5:+20337871 MsaT026322.1:CDS
TGTTAAGCGTCATGTTCTTA+AGG 0.403141 5:+20338089 MsaT026322.1:CDS
ATTGGTGGTCATGCTCTTGA+TGG 0.429666 5:+20337601 MsaT026322.1:CDS
AGTGGATGAGTCACCATGAT+AGG 0.441890 5:-20337469 None:intergenic
TTGGAGTTAGCTGAGAAATT+GGG 0.451712 5:+20338009 MsaT026322.1:CDS
GTTTCTGGACAGCAGAGGAC+TGG 0.452007 5:+20337832 MsaT026322.1:CDS
GCATATTATCGAACTCCAGC+AGG 0.462540 5:+20337799 MsaT026322.1:CDS
AGCAACATGGTTGGTGGTGT+TGG 0.462584 5:+20337529 MsaT026322.1:CDS
AAGAATCATGCTGTAGGAAT+TGG 0.464505 5:+20337583 MsaT026322.1:CDS
ACCACCTCCACCTCAGTTCG+CGG 0.465894 5:+20337777 MsaT026322.1:CDS
ATGGTTGGTGGTGTTGGAAA+TGG 0.467173 5:+20337535 MsaT026322.1:CDS
CATTGTTGGTGTTGTTGTTG+AGG 0.467174 5:-20337501 None:intergenic
TGCGGTGAGTTTATGCCGGC+AGG 0.468779 5:+20337625 MsaT026322.1:CDS
CCGTCAACTTCTGGTGGCGG+TGG 0.471225 5:+20337868 MsaT026322.1:CDS
GGCAGGAAGTGAAGGAACTT+TGG 0.482158 5:+20337642 MsaT026322.1:CDS
CAACTTCTGGTGGCGGTGGA+GGG 0.486754 5:+20337872 MsaT026322.1:CDS
AATCCAAGTGGTGGTGGAAG+TGG 0.494106 5:+20337931 MsaT026322.1:CDS
GAACCACTTCCACCACCACT+TGG 0.498974 5:-20337934 None:intergenic
GCGAACTGAGGTGGAGGTGG+TGG 0.502965 5:-20337775 None:intergenic
TCAAGAGTTGTTAAGATGCC+TGG 0.513910 5:+20337436 MsaT026322.1:CDS
TAATATGCCGCGAACTGAGG+TGG 0.517873 5:-20337784 None:intergenic
GTTTCGAATCCAAGTGGTGG+TGG 0.518013 5:+20337925 MsaT026322.1:CDS
CCACCGCCACCAGAAGTTGA+CGG 0.524349 5:-20337868 None:intergenic
GTTCAAGCAAGAAGAGGCAT+AGG 0.530566 5:+20337953 MsaT026322.1:CDS
CTCAACAACAACACCAACAA+TGG 0.530747 5:+20337502 MsaT026322.1:CDS
CGATAATATGCCGCGAACTG+AGG 0.533730 5:-20337787 None:intergenic
GAAACATGCAAATACCCTGC+TGG 0.534458 5:-20337814 None:intergenic
AATCATGCTGTAGGAATTGG+TGG 0.538246 5:+20337586 MsaT026322.1:CDS
CATAACAACAAACACACTCT+AGG 0.546652 5:+20338120 MsaT026322.1:CDS
TGATGGTGTGTCAACAGAAA+AGG 0.546822 5:-20337745 None:intergenic
TGGTGGAACTGAACCTATCA+TGG 0.550765 5:+20337456 MsaT026322.1:CDS
GTGGAGGGACGCAGAGTACG+AGG 0.551910 5:+20337887 MsaT026322.1:CDS
AAAGTTCCTTCACTTCCTGC+CGG 0.552211 5:-20337640 None:intergenic
GCCGCGAACTGAGGTGGAGG+TGG 0.553806 5:-20337778 None:intergenic
TTACCGTCAACTTCTGGTGG+CGG 0.554834 5:+20337865 MsaT026322.1:CDS
AAAATTCACGCAGGAACAGA+AGG 0.559129 5:+20337978 MsaT026322.1:CDS
GATGGTGTGTCAACAGAAAA+GGG 0.562574 5:-20337744 None:intergenic
TTTCTGGACAGCAGAGGACT+GGG 0.567641 5:+20337833 MsaT026322.1:CDS
GGAACAGAAGGATAAGATGT+TGG 0.570619 5:+20337990 MsaT026322.1:CDS
GAGGAAGAATTATGTATGGG+TGG 0.575821 5:+20337385 None:intergenic
GGTCATGCTCTTGATGGTTG+CGG 0.581532 5:+20337607 MsaT026322.1:CDS
ACTGAGGTGGAGGTGGTGGA+TGG 0.582533 5:-20337771 None:intergenic
GCTTTACCGTCAACTTCTGG+TGG 0.583371 5:+20337862 MsaT026322.1:CDS
GAAGAATTATGTATGGGTGG+AGG 0.586004 5:+20337388 None:intergenic
AGTTAGCTGAGAAATTGGGT+TGG 0.589225 5:+20338013 MsaT026322.1:CDS
TTTATGCCGGCAGGAAGTGA+AGG 0.589438 5:+20337634 MsaT026322.1:CDS
TTGTTGAGGATGTTTCTGAG+TGG 0.592780 5:-20337487 None:intergenic
TCATCGGCAGATGTTACTGC+CGG 0.600307 5:+20337718 MsaT026322.1:CDS
TGTCAACAGAAAAGGGTCAC+CGG 0.601235 5:-20337737 None:intergenic
CTTCCACCGAAAAGAGTCAT+CGG 0.604115 5:+20337702 MsaT026322.1:CDS
TATGCCGCGAACTGAGGTGG+AGG 0.610782 5:-20337781 None:intergenic
TGGTTGCGGTGAGTTTATGC+CGG 0.613273 5:+20337621 MsaT026322.1:CDS
AATGGAAAGAGCAACATGGT+TGG 0.614563 5:+20337520 MsaT026322.1:CDS
CAAGAATTCTGTAATGAAAG+CGG 0.619098 5:+20338066 MsaT026322.1:CDS
TGTCTGAAGAATCATGCTGT+AGG 0.621102 5:+20337577 MsaT026322.1:CDS
GGAAAGAGCAACATGGTTGG+TGG 0.626767 5:+20337523 MsaT026322.1:CDS
TGCATGTTTCTGGACAGCAG+AGG 0.639645 5:+20337827 MsaT026322.1:CDS
ATGATAGGTTCAGTTCCACC+AGG 0.642551 5:-20337454 None:intergenic
GAAGTGGTTCAAGCAAGAAG+AGG 0.644871 5:+20337947 MsaT026322.1:CDS
CAACAATGGAAAGAGCAACA+TGG 0.650336 5:+20337516 MsaT026322.1:CDS
CATATTATCGAACTCCAGCA+GGG 0.663930 5:+20337800 MsaT026322.1:CDS
AGAATTCAGAAACATGACGA+AGG 0.667162 5:+20338036 MsaT026322.1:CDS
TGGAGGGACGCAGAGTACGA+GGG 0.669430 5:+20337888 MsaT026322.1:CDS
AGAGTTGTTAAGATGCCTGG+TGG 0.674556 5:+20337439 MsaT026322.1:CDS
GAAGATGTTTCGAATCCAAG+TGG 0.685294 5:+20337919 MsaT026322.1:CDS
GTGTTGGAAATGGAAAAGCA+AGG 0.695951 5:+20337545 MsaT026322.1:CDS
GCATAGGACAAAATTCACGC+AGG 0.713722 5:+20337969 MsaT026322.1:CDS
GATGTTTCGAATCCAAGTGG+TGG 0.738004 5:+20337922 MsaT026322.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr5 gene 20337400 20338155 20337400 ID=MsaG026322
Chr5 mRNA 20337400 20338155 20337400 ID=MsaT026322.1;Parent=MsaG026322
Chr5 exon 20337400 20338155 20337400 ID=MsaT026322.1.exon1;Parent=MsaT026322.1
Chr5 CDS 20337400 20338155 20337400 ID=cds.MsaT026322.1;Parent=MsaT026322.1
Gene Sequence

>MsaT026322.1

ATGGGTGGAGGAAATTACGACTCTTTACCAAACTCATCAAGAGTTGTTAAGATGCCTGGTGGAACTGAACCTATCATGGTGACTCATCCACTCAGAAACATCCTCAACAACAACACCAACAATGGAAAGAGCAACATGGTTGGTGGTGTTGGAAATGGAAAAGCAAGGTATAGAGAGTGTCTGAAGAATCATGCTGTAGGAATTGGTGGTCATGCTCTTGATGGTTGCGGTGAGTTTATGCCGGCAGGAAGTGAAGGAACTTTGGAGTCACTAAAATGTGCTGCTTGTAACTGCCACCGTAACTTCCACCGAAAAGAGTCATCGGCAGATGTTACTGCCGGTGACCCTTTTCTGTTGACACACCATCATCACCATCCACCACCTCCACCTCAGTTCGCGGCATATTATCGAACTCCAGCAGGGTATTTGCATGTTTCTGGACAGCAGAGGACTGGGACACTTGCTTTACCGTCAACTTCTGGTGGCGGTGGAGGGACGCAGAGTACGAGGGAAGAGCTTGAAGATGTTTCGAATCCAAGTGGTGGTGGAAGTGGTTCAAGCAAGAAGAGGCATAGGACAAAATTCACGCAGGAACAGAAGGATAAGATGTTGGAGTTAGCTGAGAAATTGGGTTGGAGAATTCAGAAACATGACGAAGGTTTGGTTCAAGAATTCTGTAATGAAAGCGGTGTTAAGCGTCATGTTCTTAAGGTTTGGATGCATAACAACAAACACACTCTAGGTAAGAAGCCCTAG
Protein sequence

>MsaT026322.1

MGGGNYDSLPNSSRVVKMPGGTEPIMVTHPLRNILNNNTNNGKSNMVGGVGNGKARYRECLKNHAVGIGGHALDGCGEFMPAGSEGTLESLKCAACNCHRNFHRKESSADVTAGDPFLLTHHHHHPPPPPQFAAYYRTPAGYLHVSGQQRTGTLALPSTSGGGGGTQSTREELEDVSNPSGGGSGSSKKRHRTKFTQEQKDKMLELAEKLGWRIQKHDEGLVQEFCNESGVKRHVLKVWMHNNKHTLGKKP*