AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG010067

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG010067 MtrunA17_Chr2g0320231 92.432 370 22 1 1 370 1 364 0.0 681
MsaG010067 MtrunA17_Chr8g0379121 63.768 138 44 2 32 167 48 181 1.47e-43 156
MsaG010067 MtrunA17_Chr7g0243081 56.618 136 57 2 52 186 27 161 4.07e-40 145
MsaG010067 MtrunA17_Chr2g0283951 53.704 162 56 6 35 189 37 186 1.68e-39 144
MsaG010067 MtrunA17_Chr1g0162931 68.421 76 24 0 84 159 5 80 3.95e-30 117
MsaG010067 MtrunA17_Chr1g0210911 58.889 90 34 2 83 169 8 97 2.06e-29 116
MsaG010067 MtrunA17_Chr2g0288601 63.514 74 27 0 75 148 49 122 1.36e-28 108
MsaG010067 MtrunA17_Chr3g0095611 54.430 79 30 1 75 153 3 75 8.53e-22 92.4
MsaG010067 MtrunA17_Chr1g0154261 64.789 71 22 2 89 158 120 188 1.05e-21 94.0
MsaG010067 MtrunA17_Chr6g0479431 70.690 58 17 0 96 153 201 258 5.28e-21 93.2
MsaG010067 MtrunA17_Chr3g0109981 70.690 58 17 0 96 153 273 330 1.14e-20 93.2
MsaG010067 MtrunA17_Chr5g0410741 68.966 58 18 0 96 153 218 275 1.58e-20 92.4
MsaG010067 MtrunA17_Chr8g0366281 63.934 61 22 0 96 156 172 232 3.54e-20 90.9
MsaG010067 MtrunA17_Chr7g0261911 66.071 56 19 0 98 153 263 318 3.49e-18 85.9
MsaG010067 MtrunA17_Chr7g0258551 47.059 102 40 3 93 193 208 296 7.82e-18 84.3
MsaG010067 MtrunA17_Chr7g0274471 64.286 56 20 0 98 153 219 274 7.90e-18 84.7
MsaG010067 MtrunA17_Chr1g0190301 59.701 67 26 1 87 153 166 231 8.65e-18 84.3
MsaG010067 MtrunA17_Chr7g0254981 66.667 60 19 1 99 157 52 111 2.88e-17 81.3
MsaG010067 MtrunA17_Chr1g0175091 50.000 96 39 3 70 164 239 326 2.97e-17 82.8
MsaG010067 MtrunA17_Chr5g0409731 60.345 58 23 0 93 150 21 78 3.57e-17 81.3
MsaG010067 MtrunA17_Chr1g0197171 60.714 56 22 0 98 153 45 100 1.88e-16 79.0
MsaG010067 MtrunA17_Chr2g0290991 60.714 56 22 0 98 153 40 95 4.12e-16 78.6
MsaG010067 MtrunA17_Chr2g0291021 65.455 55 19 0 99 153 51 105 7.87e-16 77.8
MsaG010067 MtrunA17_Chr6g0461641 60.377 53 21 0 98 150 43 95 1.37e-15 77.8
MsaG010067 MtrunA17_Chr2g0321461 57.143 56 24 0 98 153 46 101 1.41e-15 77.4
MsaG010067 MtrunA17_Chr8g0356501 55.357 56 25 0 98 153 38 93 7.17e-15 75.1
MsaG010067 MtrunA17_Chr1g0175081 53.226 62 28 1 99 159 24 85 7.26e-15 70.1
MsaG010067 MtrunA17_Chr2g0310011 55.357 56 25 0 98 153 36 91 1.46e-14 74.3
MsaG010067 MtrunA17_Chr5g0417521 50.943 53 26 0 98 150 16 68 6.14e-14 72.4
MsaG010067 MtrunA17_Chr4g0042451 51.786 56 27 0 98 153 18 73 9.47e-14 71.6
MsaG010067 MtrunA17_Chr7g0242521 61.017 59 20 1 99 154 15 73 1.42e-13 69.7
MsaG010067 MtrunA17_Chr1g0175071 58.491 53 22 0 99 151 179 231 1.43e-13 70.9
MsaG010067 MtrunA17_Chr7g0258531 58.491 53 22 0 99 151 215 267 7.04e-12 66.2
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG010067 AT2G38300.1 72.093 86 24 0 77 162 34 119 3.23e-36 135
MsaG010067 AT2G42660.1 65.957 94 21 2 89 177 42 129 9.59e-34 126
MsaG010067 AT4G04605.1 57.009 107 38 2 89 187 6 112 5.98e-32 120
MsaG010067 AT2G40260.1 65.625 96 24 1 70 156 46 141 8.68e-32 124
MsaG010067 AT2G02060.2 65.882 85 22 2 66 150 5 82 2.49e-27 108
MsaG010067 AT2G02060.1 65.882 85 22 2 66 150 5 82 2.49e-27 108
MsaG010067 AT1G14600.1 66.197 71 24 0 89 159 15 85 3.23e-26 106
MsaG010067 AT4G04555.1 61.644 73 28 0 85 157 2 74 4.51e-25 98.6
MsaG010067 AT4G04580.1 60.870 69 27 0 89 157 6 74 1.29e-23 96.7
MsaG010067 AT5G42630.2 66.667 63 21 0 96 158 104 166 1.91e-22 95.1
MsaG010067 AT5G42630.1 66.667 63 21 0 96 158 104 166 3.69e-22 95.5
MsaG010067 AT5G16560.1 70.690 58 17 0 96 153 218 275 1.55e-20 92.8
MsaG010067 AT1G32240.2 68.966 58 18 0 96 153 212 269 1.78e-20 92.0
MsaG010067 AT4G17695.1 62.319 69 24 1 88 156 157 223 1.88e-20 91.3
MsaG010067 AT1G32240.1 68.966 58 18 0 96 153 212 269 2.33e-20 92.0
MsaG010067 AT5G29000.4 36.420 162 86 6 5 153 130 287 8.26e-19 86.7
MsaG010067 AT5G29000.2 36.250 160 89 5 5 153 130 287 2.24e-18 86.7
MsaG010067 AT5G29000.1 36.250 160 89 5 5 153 87 244 2.71e-18 85.9
MsaG010067 AT5G29000.3 36.250 160 89 5 5 153 87 244 2.71e-18 85.9
MsaG010067 AT5G45580.1 43.000 100 52 1 93 192 3 97 6.51e-18 83.2
MsaG010067 AT5G45580.2 43.000 100 52 1 93 192 19 113 1.03e-17 82.8
MsaG010067 AT2G06020.1 48.780 82 39 1 80 158 66 147 7.20e-17 80.9
MsaG010067 AT4G28610.1 45.977 87 45 1 99 183 227 313 7.21e-17 82.0
MsaG010067 AT3G04450.3 60.000 55 22 0 99 153 240 294 2.06e-16 79.7
MsaG010067 AT3G04450.4 60.000 55 22 0 99 153 200 254 3.20e-16 80.1
MsaG010067 AT3G04450.2 60.000 55 22 0 99 153 200 254 3.20e-16 80.1
MsaG010067 AT3G04450.1 60.000 55 22 0 99 153 240 294 3.50e-16 80.1
MsaG010067 AT3G12730.1 36.885 122 66 2 98 219 24 134 3.69e-16 77.8
MsaG010067 AT2G01060.1 55.844 77 21 2 99 162 17 93 5.49e-16 78.2
MsaG010067 AT3G13040.3 65.455 55 19 0 99 153 243 297 1.81e-15 78.2
MsaG010067 AT3G13040.1 65.455 55 19 0 99 153 243 297 1.81e-15 78.2
MsaG010067 AT3G13040.2 65.455 55 19 0 99 153 243 297 1.81e-15 78.2
MsaG010067 AT5G06800.3 58.333 60 24 1 99 157 194 253 2.03e-15 76.3
MsaG010067 AT5G18240.2 42.308 104 57 2 65 167 13 114 2.26e-15 77.4
MsaG010067 AT5G18240.3 42.308 104 57 2 65 167 13 114 2.26e-15 77.4
MsaG010067 AT5G18240.5 42.308 104 57 2 65 167 13 114 2.55e-15 77.4
MsaG010067 AT4G13640.2 58.491 53 22 0 98 150 38 90 2.77e-15 76.3
MsaG010067 AT5G18240.1 42.308 104 57 2 65 167 13 114 2.77e-15 77.0
MsaG010067 AT5G18240.4 42.308 104 57 2 65 167 13 114 2.77e-15 77.0
MsaG010067 AT4G13640.1 58.491 53 22 0 98 150 38 90 2.89e-15 75.9
MsaG010067 AT3G24120.2 56.604 53 23 0 98 150 42 94 5.40e-15 75.5
MsaG010067 AT3G24120.1 56.604 53 23 0 98 150 42 94 5.48e-15 75.1
MsaG010067 AT3G04030.1 54.237 59 26 1 98 155 46 104 8.09e-15 75.9
MsaG010067 AT5G06800.1 52.174 69 33 0 99 167 194 262 8.41e-15 75.5
MsaG010067 AT3G04030.3 54.237 59 26 1 98 155 46 104 9.23e-15 75.5
MsaG010067 AT5G06800.2 58.333 60 24 1 99 157 194 253 9.84e-15 75.5
MsaG010067 AT1G79430.2 55.357 56 25 0 98 153 35 90 1.66e-14 74.7
MsaG010067 AT2G20400.1 61.818 55 21 0 99 153 233 287 3.67e-14 73.9
MsaG010067 AT2G20400.2 61.818 55 21 0 99 153 233 287 3.72e-14 73.9
MsaG010067 AT1G69580.1 53.571 56 26 0 98 153 35 90 6.09e-14 72.8
MsaG010067 AT1G69580.2 53.571 56 26 0 98 153 35 90 6.20e-14 72.8
MsaG010067 AT3G04030.2 52.542 59 26 2 98 155 46 103 2.10e-12 68.6
MsaG010067 AT4G37180.1 50.847 59 29 0 92 150 205 263 8.56e-11 63.2
MsaG010067 AT3G16857.3 43.158 95 49 3 60 150 126 219 9.73e-11 63.9

Find 57 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CTTACTTGGCTAGACCTAAT+AGG 0.308735 2:-68444908 None:intergenic
TTCACTGAATACACAATGTT+TGG 0.328197 2:+68445049 MsaT010067.1:CDS
ACATGTGAAGAGTCATTTAC+AGG 0.347064 2:+68443794 MsaT010067.1:CDS
GCAAGGGAGGCATCACATTA+TGG 0.352066 2:+68444244 MsaT010067.1:CDS
CGGGTAGTAATTGACTTACT+TGG 0.374141 2:-68444922 None:intergenic
CATCAACTGGAGAACTAACT+TGG 0.377692 2:-68443748 None:intergenic
TTCACATCTATTTGATGTAA+AGG 0.385780 2:+68444859 MsaT010067.1:CDS
TTAAAGCTCATGACACTTCA+AGG 0.388453 2:+68444366 MsaT010067.1:CDS
TATGATGGTTGTTTCAATAG+AGG 0.404012 2:-68444335 None:intergenic
GTCCTCTCACATTCATCAAC+TGG 0.411306 2:-68443761 None:intergenic
GAAATAATATTGCACCTATT+AGG 0.414171 2:+68444894 MsaT010067.1:CDS
CTTCGAATCGGCAAGGAGGC+AGG 0.428221 2:-68442527 None:intergenic
TGAAAGAGAAAGTATCGTAT+TGG 0.437322 2:-68446282 None:intergenic
AATAATAATTCTAGTGAAGA+AGG 0.443311 2:+68442683 MsaT010067.1:CDS
TTATCTCAAGGGGATGATAA+TGG 0.444178 2:+68444956 MsaT010067.1:CDS
GTGCATGCTGTTGAGAGGCT+TGG 0.454830 2:+68442791 MsaT010067.1:CDS
CATCACATTATGGATATGTA+TGG 0.462878 2:+68444254 MsaT010067.1:CDS
TTTCAACACCAAAGTGTCCT+TGG 0.465491 2:-68444289 None:intergenic
AACGAAGAAGCCGTGGATGA+TGG 0.466556 2:+68442572 MsaT010067.1:CDS
AGTGAAAGTAGTAGCGGTAT+CGG 0.469081 2:+68442497 MsaT010067.1:CDS
GCTTTAATTTCATTATATGA+TGG 0.474362 2:-68444350 None:intergenic
AATTCTAGTGAAGAAGGAAA+AGG 0.475804 2:+68442689 MsaT010067.1:CDS
CTCGACTTAGCTTTAGCTCT+AGG 0.486541 2:-68446238 None:intergenic
TTCAATGTCCAAGGACACTT+TGG 0.487141 2:+68444281 MsaT010067.1:CDS
TTTGTAGATTTCACGAGAGT+GGG 0.487235 2:+68444780 MsaT010067.1:intron
CATGCTGTTGAGAGGCTTGG+AGG 0.487742 2:+68442794 MsaT010067.1:CDS
TGATACTTGAGTTTGATGTA+TGG 0.492822 2:-68446153 None:intergenic
ATAATTGATAGAACTAGAAA+AGG 0.502223 2:-68445002 None:intergenic
TTCAGTGAAGATAGGACTGC+AGG 0.512868 2:-68445035 None:intergenic
ATTCTAGTGAAGAAGGAAAA+GGG 0.515576 2:+68442690 MsaT010067.1:CDS
ATTGTGTATTCAGTGAAGAT+AGG 0.520662 2:-68445043 None:intergenic
AGGAAAAGGGCGTGGAAGTA+CGG 0.529396 2:+68442703 MsaT010067.1:CDS
ATACACAATGTTTGGTTCTG+AGG 0.536912 2:+68445057 MsaT010067.1:CDS
GAACTAGAAAAGGTGCTCCA+TGG 0.547694 2:-68444992 None:intergenic
TCACTCTTGACATCTTTGCT+AGG 0.551418 2:-68442479 None:intergenic
TCAGAAGTCCAACGAAGCCT+AGG 0.559435 2:-68442752 None:intergenic
AATGAGATATCATCACAAGA+AGG 0.560760 2:+68442647 MsaT010067.1:CDS
TATGGAAGATTCAATGTCCA+AGG 0.583731 2:+68444272 MsaT010067.1:CDS
ATGAGATATCATCACAAGAA+GGG 0.586610 2:+68442648 MsaT010067.1:CDS
AGTGAAGAAGGAAAAGGGCG+TGG 0.587852 2:+68442695 MsaT010067.1:CDS
ATCAACTGGAGAACTAACTT+GGG 0.593327 2:-68443747 None:intergenic
AAAATAGAGCAATGCAAGGG+AGG 0.596790 2:+68444231 MsaT010067.1:CDS
CTTCAGATCAAGTTCAGTGT+GGG 0.604465 2:+68444826 MsaT010067.1:CDS
TTGTTGCTTATTTCACCACA+AGG 0.610333 2:-68442626 None:intergenic
ATGCTGTTGAGAGGCTTGGA+GGG 0.612873 2:+68442795 MsaT010067.1:CDS
CGATTTAAACGAAGAAGCCG+TGG 0.613136 2:+68442565 MsaT010067.1:CDS
GTCAAGAGTGAAAGTAGTAG+CGG 0.626941 2:+68442491 MsaT010067.1:CDS
CTCCAGTTGATGAATGTGAG+AGG 0.629384 2:+68443759 MsaT010067.1:CDS
ATGATCATCTCCATCATCCA+CGG 0.632945 2:-68442582 None:intergenic
TGTTTCAATAGAGGAGACGA+TGG 0.646679 2:-68444326 None:intergenic
GTTTCAATAGAGGAGACGAT+GGG 0.648257 2:-68444325 None:intergenic
AAGCTTGATGAGTCAGGCCA+AGG 0.656023 2:+68444081 MsaT010067.1:CDS
TGTTGCTTATTTCACCACAA+GGG 0.657001 2:-68442625 None:intergenic
GTGATAAGTGAAGGCCCTTG+TGG 0.681709 2:+68442611 MsaT010067.1:CDS
TCTTCAGATCAAGTTCAGTG+TGG 0.702689 2:+68444825 MsaT010067.1:CDS
CATGTGATAGTGATAAGTGA+AGG 0.715293 2:+68442602 MsaT010067.1:CDS
GTACGGTTAGACAATATGTG+AGG 0.722782 2:+68442720 MsaT010067.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr2 gene 68442461 68446322 68442461 ID=MsaG010067
Chr2 mRNA 68442461 68446322 68442461 ID=MsaT010067.1;Parent=MsaG010067
Chr2 exon 68442461 68442824 68442461 ID=MsaT010067.1.exon1;Parent=MsaT010067.1
Chr2 CDS 68442461 68442824 68442461 ID=cds.MsaT010067.1;Parent=MsaT010067.1
Chr2 exon 68443739 68443815 68443739 ID=MsaT010067.1.exon2;Parent=MsaT010067.1
Chr2 CDS 68443739 68443815 68443739 ID=cds.MsaT010067.1;Parent=MsaT010067.1
Chr2 exon 68444066 68444102 68444066 ID=MsaT010067.1.exon3;Parent=MsaT010067.1
Chr2 CDS 68444066 68444102 68444066 ID=cds.MsaT010067.1;Parent=MsaT010067.1
Chr2 exon 68444219 68444387 68444219 ID=MsaT010067.1.exon4;Parent=MsaT010067.1
Chr2 CDS 68444219 68444387 68444219 ID=cds.MsaT010067.1;Parent=MsaT010067.1
Chr2 exon 68444787 68445078 68444787 ID=MsaT010067.1.exon5;Parent=MsaT010067.1
Chr2 CDS 68444787 68445078 68444787 ID=cds.MsaT010067.1;Parent=MsaT010067.1
Chr2 exon 68446122 68446322 68446122 ID=MsaT010067.1.exon6;Parent=MsaT010067.1
Chr2 CDS 68446122 68446322 68446122 ID=cds.MsaT010067.1;Parent=MsaT010067.1
Gene Sequence

>MsaT010067.1

ATGGCGGAGATTCACATACCTAGCAAAGATGTCAAGAGTGAAAGTAGTAGCGGTATCGGAGTGAAACCTGCCTCCTTGCCGATTCGAAGAAAACGTTCGTTCTTCGATTTAAACGAAGAAGCCGTGGATGATGGAGATGATCATGTGATAGTGATAAGTGAAGGCCCTTGTGGTGAAATAAGCAACAATGAGATATCATCACAAGAAGGGAATTTGAGTAGCAATAATAATTCTAGTGAAGAAGGAAAAGGGCGTGGAAGTACGGTTAGACAATATGTGAGGTCAAAAATGCCTAGGCTTCGTTGGACTTCTGATCTTCATTTATCTTTTGTGCATGCTGTTGAGAGGCTTGGAGGGCAAGAAAGAGCAACACCCAAGTTAGTTCTCCAGTTGATGAATGTGAGAGGACTTAGCATTGCACATGTGAAGAGTCATTTACAGATGTACCGGAGTAAAAAGCTTGATGAGTCAGGCCAAGTTTTGTCCCACAAAAATAGAGCAATGCAAGGGAGGCATCACATTATGGATATGTATGGAAGATTCAATGTCCAAGGACACTTTGGTGTTGAAAACAACTATTTGCACCCATCGTCTCCTCTATTGAAACAACCATCATATAATGAAATTAAAGCTCATGACACTTCAAGATTTCACGAGAGTGGGCTTTTCAATAATAATCACGTGATCTTCAGATCAAGTTCAGTGTGGGACAAAGATTTTTCACATCTATTTGATGTAAAGGATGCAATTACAAGAAATAATATTGCACCTATTAGGTCTAGCCAAGTAAGTCAATTACTACCCGAATCAAAAAGCTTATCTCAAGGGGATGATAATGGTGCAAAACATTTTCCATGGAGCACCTTTTCTAGTTCTATCAATTATCAACACAGCTCCTGCAGTCCTATCTTCACTGAATACACAATGTTTGGTTCTGAGGTACACGATAAAAAAGATCAAATGCAAGAATCCATACATCAAACTCAAGTATCAAAGCAAAGTTATGTCACAACCCAGTTAAAAAAGTTGAATGAGAAGAAAGAGTCATCAAATTTCCTAGAGCTAAAGCTAAGTCGAGATTCAGAAAGTGATCAAGAAACCAATACGATACTTTCTCTTTCATTGTTATCTTCAAAGTGA
Protein sequence

>MsaT010067.1

MAEIHIPSKDVKSESSSGIGVKPASLPIRRKRSFFDLNEEAVDDGDDHVIVISEGPCGEISNNEISSQEGNLSSNNNSSEEGKGRGSTVRQYVRSKMPRLRWTSDLHLSFVHAVERLGGQERATPKLVLQLMNVRGLSIAHVKSHLQMYRSKKLDESGQVLSHKNRAMQGRHHIMDMYGRFNVQGHFGVENNYLHPSSPLLKQPSYNEIKAHDTSRFHESGLFNNNHVIFRSSSVWDKDFSHLFDVKDAITRNNIAPIRSSQVSQLLPESKSLSQGDDNGAKHFPWSTFSSSINYQHSSCSPIFTEYTMFGSEVHDKKDQMQESIHQTQVSKQSYVTTQLKKLNEKKESSNFLELKLSRDSESDQETNTILSLSLLSSK*