AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0280009989.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0280009989.01.T02 MTR_2g075680 76.119 134 27 3 1 132 160 290 7.52e-65 199
MsG0280009989.01.T02 MTR_2g075690 78.788 132 28 0 1 132 153 284 4.85e-62 192
MsG0280009989.01.T02 MTR_2g075700 64.885 131 42 2 2 132 157 283 3.76e-52 167
MsG0280009989.01.T02 MTR_2g075610 40.602 133 68 4 2 131 42 166 1.13e-24 93.6
MsG0280009989.01.T02 MTR_2g075750 42.308 130 65 3 2 131 41 160 1.60e-24 92.8
MsG0280009989.01.T02 MTR_8g032510 50.000 86 38 2 2 85 132 214 6.30e-21 85.9
MsG0280009989.01.T02 MTR_0002s1250 44.643 112 43 4 2 108 124 221 1.34e-20 84.3
MsG0280009989.01.T02 MTR_7g073430 40.000 120 55 3 2 115 135 243 5.53e-20 83.2
MsG0280009989.01.T02 MTR_7g073380 45.349 86 43 2 2 85 136 219 1.47e-18 79.3
MsG0280009989.01.T02 MTR_8g005750 46.667 90 34 3 2 85 116 197 1.08e-17 77.0
MsG0280009989.01.T02 MTR_3g093830 36.937 111 50 4 2 92 140 250 5.07e-14 67.4
MsG0280009989.01.T02 MTR_5g067700 38.462 91 51 3 2 91 119 205 8.28e-13 63.2
MsG0280009989.01.T01 MTR_2g075680 76.829 164 33 3 4 165 130 290 2.71e-85 253
MsG0280009989.01.T01 MTR_2g075690 79.630 162 33 0 4 165 123 284 4.56e-84 249
MsG0280009989.01.T01 MTR_2g075700 64.815 162 53 2 4 165 126 283 2.60e-70 215
MsG0280009989.01.T01 MTR_2g075610 46.012 163 75 4 6 164 13 166 7.90e-41 135
MsG0280009989.01.T01 MTR_2g075750 46.835 158 74 3 7 164 13 160 8.53e-41 135
MsG0280009989.01.T01 MTR_0002s1250 45.833 144 59 4 3 141 92 221 8.58e-35 122
MsG0280009989.01.T01 MTR_8g032510 50.420 119 53 3 3 118 99 214 3.57e-33 119
MsG0280009989.01.T01 MTR_7g073430 42.105 152 71 3 3 148 103 243 5.07e-33 118
MsG0280009989.01.T01 MTR_7g073380 46.610 118 59 2 3 118 104 219 3.29e-32 116
MsG0280009989.01.T01 MTR_8g005750 47.107 121 50 3 4 118 85 197 2.77e-29 108
MsG0280009989.01.T01 MTR_5g067700 39.837 123 69 3 3 124 87 205 7.39e-23 91.3
MsG0280009989.01.T01 MTR_3g093830 39.535 129 58 4 17 125 122 250 1.03e-21 89.4
MsG0280009989.01.T01 MTR_7g117200 42.268 97 47 1 5 92 92 188 2.96e-19 83.2
MsG0280009989.01.T01 MTR_8g027860 39.773 88 45 1 5 84 111 198 7.16e-18 79.3
MsG0280009989.01.T01 MTR_3g090860 52.459 61 29 0 21 81 132 192 1.14e-16 75.9
MsG0280009989.01.T01 MTR_5g067680 53.968 63 29 0 22 84 202 264 8.23e-16 73.9
MsG0280009989.01.T01 MTR_8g099350 42.169 83 40 1 7 81 109 191 1.85e-15 72.8
MsG0280009989.01.T01 MTR_7g079010 46.154 78 31 2 2 79 129 195 5.26e-14 67.4
MsG0280009989.01.T01 MTR_8g092140 41.772 79 36 2 2 80 147 215 5.63e-14 67.4
MsG0280009989.01.T01 MTR_7g028415 42.105 95 43 3 2 96 81 163 6.53e-14 66.2
MsG0280009989.01.T01 MTR_7g028710 42.105 95 43 3 2 96 81 163 6.53e-14 66.2
MsG0280009989.01.T01 MTR_8g007270 43.590 78 33 2 2 79 142 208 1.71e-13 66.2
MsG0280009989.01.T01 MTR_3g104750 45.070 71 36 1 15 85 97 164 4.45e-13 63.9
MsG0280009989.01.T01 MTR_3g095080 41.026 78 35 2 2 79 156 222 5.62e-13 64.7
MsG0280009989.01.T01 MTR_3g095080 41.026 78 35 2 2 79 132 198 7.03e-13 64.3
MsG0280009989.01.T01 MTR_7g100510 48.387 62 29 1 18 79 357 415 7.12e-13 65.5
MsG0280009989.01.T01 MTR_7g109800 47.458 59 28 1 21 79 144 199 7.95e-13 65.1
MsG0280009989.01.T01 MTR_8g096730 44.262 61 31 1 20 80 68 125 1.34e-12 62.0
MsG0280009989.01.T01 MTR_4g122530 46.667 60 29 1 21 80 207 263 1.43e-12 64.7
MsG0280009989.01.T01 MTR_5g042920 37.255 102 48 3 20 116 318 408 2.70e-12 63.9
MsG0280009989.01.T01 MTR_2g033820 45.070 71 36 1 21 91 202 269 2.80e-12 63.9
MsG0280009989.01.T01 MTR_5g091390 49.153 59 27 1 21 79 156 211 7.07e-12 62.4
MsG0280009989.01.T01 MTR_7g011820 46.667 60 29 1 20 79 408 464 7.30e-12 62.8
MsG0280009989.01.T01 MTR_4g094588 49.153 59 27 1 21 79 177 232 7.50e-12 62.4
MsG0280009989.01.T01 MTR_5g043880 45.763 59 29 1 21 79 123 178 8.26e-12 62.0
MsG0280009989.01.T01 MTR_5g073620 41.892 74 39 1 22 95 672 741 1.11e-11 62.4
MsG0280009989.01.T01 MTR_1g086790 45.763 59 29 1 21 79 157 212 1.90e-11 61.2
MsG0280009989.01.T01 MTR_4g082580 33.600 125 66 4 2 119 256 370 2.66e-11 61.2
MsG0280009989.01.T01 MTR_1g015140 44.776 67 32 2 15 79 93 156 2.99e-11 58.9
MsG0280009989.01.T01 MTR_1g009613 46.154 65 32 2 15 79 256 317 3.06e-11 60.8
MsG0280009989.01.T01 MTR_7g062220 47.541 61 29 1 20 80 122 179 5.67e-11 60.1
MsG0280009989.01.T01 MTR_3g056100 45.000 60 30 1 20 79 400 456 6.91e-11 60.1
MsG0280009989.01.T01 MTR_3g056100 45.000 60 30 1 20 79 413 469 7.86e-11 59.7
MsG0280009989.01.T01 MTR_5g094430 45.000 60 30 1 20 79 362 418 8.25e-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
MsG0280009989.01.T02 AT5G22570 50.820 61 26 1 2 62 123 179 7.80e-16 72.0
MsG0280009989.01.T02 AT1G66560 56.364 55 23 1 2 55 116 170 1.63e-14 68.2
MsG0280009989.01.T02 AT5G01900 32.090 134 64 3 2 122 123 242 3.64e-14 67.4
MsG0280009989.01.T02 AT1G66550 52.727 55 25 1 2 55 116 170 7.08e-14 66.2
MsG0280009989.01.T02 AT1G66550 52.727 55 25 1 2 55 121 175 8.79e-14 66.2
MsG0280009989.01.T02 AT1G80590 51.020 49 24 0 2 50 98 146 1.52e-12 62.8
MsG0280009989.01.T02 AT1G66600 55.102 49 22 0 2 50 116 164 1.59e-12 62.8
MsG0280009989.01.T02 AT3G56400 48.936 47 24 0 2 48 133 179 6.17e-11 58.5
MsG0280009989.01.T01 AT1G66560 61.765 68 25 1 22 88 103 170 1.24e-23 93.6
MsG0280009989.01.T01 AT5G22570 54.795 73 29 1 23 95 111 179 4.18e-23 92.8
MsG0280009989.01.T01 AT1G66550 57.353 68 28 1 22 88 103 170 4.46e-22 89.4
MsG0280009989.01.T01 AT1G66600 61.905 63 24 0 21 83 102 164 4.80e-22 89.0
MsG0280009989.01.T01 AT1G66550 57.353 68 28 1 22 88 108 175 5.82e-22 89.4
MsG0280009989.01.T01 AT5G01900 33.766 154 75 3 15 155 103 242 3.78e-21 87.0
MsG0280009989.01.T01 AT1G80590 55.738 61 27 0 23 83 86 146 1.13e-19 82.8
MsG0280009989.01.T01 AT3G56400 48.052 77 37 1 5 81 106 179 5.20e-19 82.0
MsG0280009989.01.T01 AT2G46400 52.459 61 29 0 21 81 103 163 2.50e-18 80.1
MsG0280009989.01.T01 AT5G24110 45.238 84 38 1 6 81 89 172 2.76e-17 77.4
MsG0280009989.01.T01 AT2G40740 55.000 60 27 0 22 81 173 232 8.10e-17 75.9
MsG0280009989.01.T01 AT2G40740 53.968 63 29 0 22 84 182 244 8.86e-17 75.9
MsG0280009989.01.T01 AT4G23810 40.909 88 44 1 2 81 130 217 1.53e-15 72.8
MsG0280009989.01.T01 AT4G11070 51.667 60 29 0 22 81 109 168 6.63e-15 70.5
MsG0280009989.01.T01 AT4G11070 51.667 60 29 0 22 81 141 200 8.12e-15 70.9
MsG0280009989.01.T01 AT5G49520 50.847 59 26 1 21 79 220 275 9.15e-14 68.2
MsG0280009989.01.T01 AT4G39410 46.377 69 34 1 20 88 221 286 9.71e-14 67.8
MsG0280009989.01.T01 AT2G40750 33.333 114 61 2 2 115 135 233 1.20e-13 67.8
MsG0280009989.01.T01 AT2G37260 50.847 59 26 1 21 79 348 403 1.90e-13 67.4
MsG0280009989.01.T01 AT2G37260 50.847 59 26 1 21 79 268 323 2.60e-13 66.6
MsG0280009989.01.T01 AT2G37260 50.847 59 26 1 21 79 266 321 2.63e-13 66.6
MsG0280009989.01.T01 AT2G44745 42.308 78 34 2 2 79 133 199 3.76e-13 65.1
MsG0280009989.01.T01 AT5G26170 46.667 60 29 1 20 79 111 167 7.76e-13 63.5
MsG0280009989.01.T01 AT1G69310 47.458 59 28 1 21 79 146 201 9.25e-13 64.7
MsG0280009989.01.T01 AT1G69310 47.458 59 28 1 21 79 146 201 9.25e-13 64.7
MsG0280009989.01.T01 AT1G69310 47.458 59 28 1 21 79 146 201 9.25e-13 64.7
MsG0280009989.01.T01 AT2G46130 48.485 66 29 2 15 79 23 84 1.07e-12 61.6
MsG0280009989.01.T01 AT1G13960 48.333 60 28 1 20 79 407 463 3.79e-12 63.5
MsG0280009989.01.T01 AT4G18170 49.153 59 27 1 21 79 171 226 5.13e-12 62.8
MsG0280009989.01.T01 AT2G03340 48.333 60 28 1 20 79 413 469 6.99e-12 62.8
MsG0280009989.01.T01 AT1G29860 49.153 59 27 1 21 79 135 190 8.54e-12 62.0
MsG0280009989.01.T01 AT1G64000 48.333 60 28 1 20 79 112 168 1.03e-11 60.8
MsG0280009989.01.T01 AT1G13960 48.333 60 28 1 20 79 254 310 1.22e-11 62.0
MsG0280009989.01.T01 AT5G13080 48.333 60 28 1 20 79 65 121 1.60e-11 59.3
MsG0280009989.01.T01 AT5G46350 46.154 65 32 1 15 79 176 237 1.71e-11 61.6
MsG0280009989.01.T01 AT3G62340 39.744 78 41 2 5 79 98 172 2.32e-11 60.8
MsG0280009989.01.T01 AT4G26440 45.763 59 28 2 22 80 178 232 6.06e-11 60.1
MsG0280009989.01.T01 AT4G26640 36.735 98 55 3 20 113 339 433 7.69e-11 60.1
MsG0280009989.01.T01 AT4G26640 36.735 98 55 3 20 113 379 473 8.12e-11 59.7
MsG0280009989.01.T01 AT5G45260 40.580 69 38 2 14 79 1197 1265 9.76e-11 59.7
MsG0280009989.01.T01 AT5G41570 46.667 60 29 1 20 79 96 152 9.94e-11 57.8

Find 9 sgRNAs with CRISPR-Local

Find 45 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AATTAAGTACCTGAAATATT+TGG 0.227860 2:-62496944 None:intergenic
TAACAAATGCCAAATATTTC+AGG 0.288144 2:+62496935 MsG0280009989.01.T01:CDS
CAAGGTCAAGTGCACCAACT+TGG 0.438948 2:+62496848 MsG0280009989.01.T01:CDS
AAGGTCAAGTGCACCAACTT+GGG 0.531448 2:+62496849 MsG0280009989.01.T01:CDS
TGCTTGACGATGGTCATACA+TGG 0.563054 2:+62496890 MsG0280009989.01.T01:CDS
GGTCATACATGGAGAAAGTA+CGG 0.573821 2:+62496901 MsG0280009989.01.T01:CDS
TGCACCAACTTGGGAAAAGA+CGG 0.575025 2:+62496858 MsG0280009989.01.T01:CDS
ACCATCGTCAAGCAATATTG+AGG 0.593203 2:-62496881 None:intergenic
GCCTCAATATTGCTTGACGA+TGG 0.655101 2:+62496880 MsG0280009989.01.T01:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! TTTATAATTCAAAACTTAAT+TGG + Chr2:62497203-62497222 MsG0280009989.01.T01:intron 10.0%
!! AATTAAGTACCTGAAATATT+TGG - Chr2:62496947-62496966 None:intergenic 20.0%
!! ATTACAATTATATCTAAGAG+TGG - Chr2:62497125-62497144 None:intergenic 20.0%
!! TAATATAGAATTGTTATCAG+AGG - Chr2:62497404-62497423 None:intergenic 20.0%
! ATAAACAAAAATCGCATAAC+TGG - Chr2:62497588-62497607 None:intergenic 25.0%
! ATTCCAAATTTAAGTCTGAA+TGG - Chr2:62497372-62497391 None:intergenic 25.0%
! TAACAAATGCCAAATATTTC+AGG + Chr2:62496935-62496954 MsG0280009989.01.T01:CDS 25.0%
! TTACCATTCAGACTTAAATT+TGG + Chr2:62497366-62497385 MsG0280009989.01.T01:CDS 25.0%
! TTGGAACAATAGTCAAAATT+AGG + Chr2:62497024-62497043 MsG0280009989.01.T01:intron 25.0%
!! ATCCAGAATGATAATTTTTC+TGG + Chr2:62497535-62497554 MsG0280009989.01.T01:CDS 25.0%
!! TTAATTGGTAATATGTATGC+AGG + Chr2:62497218-62497237 MsG0280009989.01.T01:intron 25.0%
AGTTCTTTGAACATGTTTGA+TGG - Chr2:62497287-62497306 None:intergenic 30.0%
ATCTACAAAAGAGGAATACA+AGG + Chr2:62497507-62497526 MsG0280009989.01.T01:CDS 30.0%
ATGTATGCAGGAATTACTAT+AGG + Chr2:62497230-62497249 MsG0280009989.01.T01:intron 30.0%
ATTGTTATCAGAGGAGAAAA+TGG - Chr2:62497395-62497414 None:intergenic 30.0%
CTCCAGAAAAATTATCATTC+TGG - Chr2:62497540-62497559 None:intergenic 30.0%
CTTGAAATGTTGTTATCGAA+AGG - Chr2:62497430-62497449 None:intergenic 30.0%
TAATATGTAGTCCTGTACAA+AGG - Chr2:62497322-62497341 None:intergenic 30.0%
TTGTACAGGACTACATATTA+TGG + Chr2:62497322-62497341 MsG0280009989.01.T01:CDS 30.0%
ACTTCTTGCATCTACAAAAG+AGG + Chr2:62497498-62497517 MsG0280009989.01.T01:CDS 35.0%
AGTCAACATCATGTACTTGT+TGG + Chr2:62497005-62497024 MsG0280009989.01.T01:intron 35.0%
GACTAATCTTGATTCTCAAG+TGG - Chr2:62496989-62497008 None:intergenic 35.0%
! AAGAGCTTTTGCAAATGTGA+TGG - Chr2:62497348-62497367 None:intergenic 35.0%
ACCATCGTCAAGCAATATTG+AGG - Chr2:62496884-62496903 None:intergenic 40.0%
ATGTAGTCCTGTACAAAGGA+GGG - Chr2:62497318-62497337 None:intergenic 40.0%
GATTCTCAAGTGGATGTAGA+TGG - Chr2:62496979-62496998 None:intergenic 40.0%
GGTCATACATGGAGAAAGTA+CGG + Chr2:62496901-62496920 MsG0280009989.01.T01:CDS 40.0%
TATGTAGTCCTGTACAAAGG+AGG - Chr2:62497319-62497338 None:intergenic 40.0%
TCATCGAAGAGTCGTAGATT+AGG + Chr2:62497063-62497082 MsG0280009989.01.T01:intron 40.0%
AAGACAACCCTCCTTTGTAC+AGG + Chr2:62497308-62497327 MsG0280009989.01.T01:CDS 45.0%
AAGGTCAAGTGCACCAACTT+GGG + Chr2:62496849-62496868 MsG0280009989.01.T01:CDS 45.0%
GATTCTCCGATGCGAACAAT+TGG - Chr2:62497564-62497583 None:intergenic 45.0%
GCCTCAATATTGCTTGACGA+TGG + Chr2:62496880-62496899 MsG0280009989.01.T01:CDS 45.0%
TGCACCAACTTGGGAAAAGA+CGG + Chr2:62496858-62496877 MsG0280009989.01.T01:CDS 45.0%
TGCTTGACGATGGTCATACA+TGG + Chr2:62496890-62496909 MsG0280009989.01.T01:CDS 45.0%
TGGAGACCAATTGTTCGCAT+CGG + Chr2:62497555-62497574 MsG0280009989.01.T01:CDS 45.0%
CAAGGTCAAGTGCACCAACT+TGG + Chr2:62496848-62496867 MsG0280009989.01.T01:CDS 50.0%
!! GTAGATGCAAGAAGTGCCAG+TGG - Chr2:62497493-62497512 None:intergenic 50.0%
! GAGGCCGTCTTTTCCCAAGT+TGG - Chr2:62496865-62496884 None:intergenic 55.0%
!! GATGCAAGAAGTGCCAGTGG+TGG - Chr2:62497490-62497509 None:intergenic 55.0%
! GATGGTGGTCGCGGTCGAAA+TGG - Chr2:62497466-62497485 None:intergenic 60.0%
!! AGAAGTGCCAGTGGTGGCGA+TGG - Chr2:62497484-62497503 None:intergenic 60.0%
! AGTGCCAGTGGTGGCGATGG+TGG - Chr2:62497481-62497500 None:intergenic 65.0%
! AGTGGTGGCGATGGTGGTCG+CGG - Chr2:62497475-62497494 None:intergenic 65.0%
GCGACCACCATCGCCACCAC+TGG + Chr2:62497474-62497493 MsG0280009989.01.T01:CDS 70.0%
Chromosome Type Strat End Strand Name
Chr2 gene 62496832 62497612 62496832 ID=MsG0280009989.01;Name=MsG0280009989.01
Chr2 mRNA 62496832 62497612 62496832 ID=MsG0280009989.01.T01;Parent=MsG0280009989.01;Name=MsG0280009989.01.T01;_AED=0.13;_eAED=0.13;_QI=0|0|0|1|0|0|2|0|165
Chr2 exon 62496832 62496956 62496832 ID=MsG0280009989.01.T01:exon:14135;Parent=MsG0280009989.01.T01
Chr2 CDS 62496832 62496956 62496832 ID=MsG0280009989.01.T01:cds;Parent=MsG0280009989.01.T01
Chr2 CDS 62497240 62497612 62497240 ID=MsG0280009989.01.T01:cds;Parent=MsG0280009989.01.T01
Chr2 mRNA 62496931 62497612 62496931 ID=MsG0280009989.01.T02;Parent=MsG0280009989.01;Name=MsG0280009989.01.T02;_AED=0.19;_eAED=0.20;_QI=0|0|0|1|0|0|2|0|132
Chr2 exon 62496931 62496956 62496931 ID=MsG0280009989.01.T02:exon:14137;Parent=MsG0280009989.01.T02
Chr2 CDS 62496931 62496956 62496931 ID=MsG0280009989.01.T02:cds;Parent=MsG0280009989.01.T02
Chr2 CDS 62497240 62497612 62497240 ID=MsG0280009989.01.T02:cds;Parent=MsG0280009989.01.T02
Gene Sequence

>MsG0280009989.01.T02

ATGATAACAAATGCCAAATATTTCAGGAATTACTATAGGTGCACTCACATGTACGATCAACATTGTGAAGCCATCAAACATGTTCAAAGAACTCAAGACAACCCTCCTTTGTACAGGACTACATATTATGGCCATCACATTTGCAAAAGCTCTTACCATTCAGACTTAAATTTGGAATCCATTTTCTCCTCTGATAACAATTCTATATTACTTCCTTTCGATAACAACATTTCAAGTGAACAAGAATATCCATTTCGACCGCGACCACCATCGCCACCACTGGCACTTCTTGCATCTACAAAAGAGGAATACAAGGAAGTGATCCAGAATGATAATTTTTCTGGAGACCAATTGTTCGCATCGGAGAATCTCCAGTTATGCGATTTTTGTTTATTTTGA

>MsG0280009989.01.T01

TATTTTTGTCATCAAACAAGGTCAAGTGCACCAACTTGGGAAAAGACGGCCTCAATATTGCTTGACGATGGTCATACATGGAGAAAGTACGGACAAAAGATGATAACAAATGCCAAATATTTCAGGAATTACTATAGGTGCACTCACATGTACGATCAACATTGTGAAGCCATCAAACATGTTCAAAGAACTCAAGACAACCCTCCTTTGTACAGGACTACATATTATGGCCATCACATTTGCAAAAGCTCTTACCATTCAGACTTAAATTTGGAATCCATTTTCTCCTCTGATAACAATTCTATATTACTTCCTTTCGATAACAACATTTCAAGTGAACAAGAATATCCATTTCGACCGCGACCACCATCGCCACCACTGGCACTTCTTGCATCTACAAAAGAGGAATACAAGGAAGTGATCCAGAATGATAATTTTTCTGGAGACCAATTGTTCGCATCGGAGAATCTCCAGTTATGCGATTTTTGTTTATTTTGA

Protein sequence

>MsG0280009989.01.T02

MITNAKYFRNYYRCTHMYDQHCEAIKHVQRTQDNPPLYRTTYYGHHICKSSYHSDLNLESIFSSDNNSILLPFDNNISSEQEYPFRPRPPSPPLALLASTKEEYKEVIQNDNFSGDQLFASENLQLCDFCLF*

>MsG0280009989.01.T01

YFCHQTRSSAPTWEKTASILLDDGHTWRKYGQKMITNAKYFRNYYRCTHMYDQHCEAIKHVQRTQDNPPLYRTTYYGHHICKSSYHSDLNLESIFSSDNNSILLPFDNNISSEQEYPFRPRPPSPPLALLASTKEEYKEVIQNDNFSGDQLFASENLQLCDFCLF*