AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0380013595.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0380013595.01.T01 MTR_3g047140 83.274 281 46 1 1 280 1 281 1.29e-169 470
MsG0380013595.01.T01 MTR_0684s0020 63.768 276 99 1 1 276 1 275 3.33e-111 322
MsG0380013595.01.T01 MTR_0163s0020 63.768 276 99 1 1 276 2 276 3.56e-111 322
MsG0380013595.01.T01 MTR_1g090973 51.724 261 124 2 1 260 1 260 2.66e-84 254
MsG0380013595.01.T01 MTR_3g054170 52.000 250 118 1 11 260 7 254 6.65e-81 244
MsG0380013595.01.T01 MTR_3g054200 51.004 249 120 1 12 260 8 254 3.76e-77 235
MsG0380013595.01.T01 MTR_3g054180 51.984 252 115 3 12 260 12 260 1.78e-75 231
MsG0380013595.01.T01 MTR_1g090960 47.842 278 98 7 1 268 1 241 8.08e-71 218
MsG0380013595.01.T01 MTR_1g090943 49.618 262 120 7 14 268 15 271 4.25e-66 207
MsG0380013595.01.T01 MTR_3g027280 49.286 280 121 12 1 266 1 273 2.65e-62 198
MsG0380013595.01.T01 MTR_1g090937 43.273 275 138 10 1 266 1 266 2.20e-52 172
MsG0380013595.01.T01 MTR_1g090930 44.170 283 128 9 1 266 1 270 3.32e-51 170
MsG0380013595.01.T01 MTR_1g090957 44.840 281 124 12 1 268 1 263 2.67e-50 167
MsG0380013595.01.T01 MTR_8g068050 40.000 270 144 7 11 268 18 281 3.01e-46 165
MsG0380013595.01.T01 MTR_8g068030 38.722 266 136 9 14 261 10 266 2.79e-45 154
MsG0380013595.01.T01 MTR_8g068040 38.697 261 139 8 14 261 10 262 4.32e-44 150
MsG0380013595.01.T01 MTR_4g023810 42.975 242 125 9 30 266 27 260 4.12e-43 148
MsG0380013595.01.T01 MTR_8g023510 40.562 249 135 9 19 260 17 259 1.48e-41 144
MsG0380013595.01.T01 MTR_5g031160 37.143 280 149 7 7 260 9 287 5.70e-41 143
MsG0380013595.01.T01 MTR_5g031140 38.078 281 144 9 7 260 9 286 2.39e-39 139
MsG0380013595.01.T01 MTR_5g031120 38.525 244 128 7 36 260 39 279 1.09e-36 132
MsG0380013595.01.T01 MTR_5g031100 38.525 244 127 8 36 260 39 278 1.36e-36 131
MsG0380013595.01.T01 MTR_8g067980 38.235 238 127 12 36 258 25 257 4.84e-36 129
MsG0380013595.01.T01 MTR_8g067990 38.288 222 119 9 50 258 41 257 2.13e-33 123
MsG0380013595.01.T01 MTR_4g093080 33.333 264 157 7 17 267 9 266 2.04e-32 126
MsG0380013595.01.T01 MTR_8g067960 37.946 224 120 8 50 260 24 241 3.78e-32 119
MsG0380013595.01.T01 MTR_4g056320 36.742 264 123 9 8 266 11 235 1.13e-31 118
MsG0380013595.01.T01 MTR_5g031090 34.553 246 140 8 34 260 32 275 4.24e-31 117
MsG0380013595.01.T01 MTR_7g115740 34.361 227 131 8 50 261 38 261 1.45e-30 120
MsG0380013595.01.T01 MTR_8g067940 35.926 270 143 13 12 258 17 279 1.17e-29 113
MsG0380013595.01.T01 MTR_5g031030 34.711 242 141 8 34 260 35 274 3.33e-29 112
MsG0380013595.01.T01 MTR_4g093140 32.593 270 158 10 4 260 6 264 4.42e-29 116
MsG0380013595.01.T01 MTR_7g116130 33.333 267 152 12 15 263 6 264 1.33e-28 115
MsG0380013595.01.T01 MTR_1g014240 35.849 212 121 5 76 273 78 288 1.69e-27 112
MsG0380013595.01.T01 MTR_8g067735 30.627 271 168 9 13 270 25 288 1.79e-27 112
MsG0380013595.01.T01 MTR_4g093110 31.852 270 160 10 4 260 6 264 2.87e-27 111
MsG0380013595.01.T01 MTR_4g093040 33.202 253 143 11 6 241 9 252 1.22e-25 106
MsG0380013595.01.T01 MTR_4g093070 31.599 269 159 8 5 260 10 266 2.94e-25 105
MsG0380013595.01.T01 MTR_3g463370 33.456 272 126 8 11 271 6 233 1.35e-24 99.4
MsG0380013595.01.T01 MTR_8g067630 31.982 222 138 6 36 247 31 249 1.88e-24 102
MsG0380013595.01.T01 MTR_8g067930 30.597 268 166 9 13 267 6 266 3.92e-24 102
MsG0380013595.01.T01 MTR_4g093040 39.645 169 87 6 87 241 3 170 7.67e-24 101
MsG0380013595.01.T01 MTR_8g067720 29.496 278 175 10 10 277 5 271 1.82e-23 100
MsG0380013595.01.T01 MTR_4g093050 30.769 247 138 10 36 258 27 264 2.08e-22 97.1
MsG0380013595.01.T01 MTR_8g067690 31.356 236 149 6 36 260 61 294 9.09e-21 92.4
MsG0380013595.01.T01 MTR_5g025020 30.516 213 120 7 77 271 88 290 1.33e-18 85.9
MsG0380013595.01.T01 MTR_1g048360 29.528 254 157 8 19 259 17 261 1.10e-16 80.1
MsG0380013595.01.T01 MTR_8g068050 30.435 184 119 4 11 192 18 194 2.24e-16 79.3
MsG0380013595.01.T01 MTR_7g115740 34.109 129 75 5 50 170 38 164 3.63e-15 75.5
MsG0380013595.01.T01 MTR_2g013720 29.851 268 151 11 13 256 8 262 1.19e-14 74.3
MsG0380013595.01.T01 MTR_7g063010 30.435 230 138 9 46 257 32 257 3.08e-14 73.2
MsG0380013595.01.T01 MTR_7g062940 29.699 266 155 13 13 257 2 256 4.58e-14 72.4
MsG0380013595.01.T01 MTR_2g090250 27.193 228 145 7 48 256 34 259 5.13e-14 72.4
MsG0380013595.01.T01 MTR_2g090410 35.294 136 78 5 50 179 34 165 6.93e-14 72.0
MsG0380013595.01.T01 MTR_3g068025 27.715 267 165 8 15 257 6 268 1.22e-13 71.2
MsG0380013595.01.T01 MTR_5g068770 29.741 232 136 9 46 258 54 277 1.28e-13 71.2
MsG0380013595.01.T01 MTR_5g077100 31.193 218 133 7 54 262 45 254 1.40e-13 70.9
MsG0380013595.01.T01 MTR_7g062890 29.323 266 155 13 16 257 1 257 9.72e-11 62.4
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0380013595.01.T01 AT5G10530 35.055 271 135 13 10 261 7 255 2.78e-26 108
MsG0380013595.01.T01 AT5G65600 35.556 180 102 5 76 241 76 255 4.90e-22 96.3
MsG0380013595.01.T01 AT5G55830 30.000 290 168 13 14 277 7 287 1.02e-16 80.5
MsG0380013595.01.T01 AT5G03140 28.400 250 164 7 17 254 11 257 3.57e-16 79.0
MsG0380013595.01.T01 AT4G29050 29.703 202 119 7 77 257 60 259 7.49e-14 72.0
MsG0380013595.01.T01 AT4G29050 29.703 202 119 7 77 257 74 273 7.69e-14 72.0
MsG0380013595.01.T01 AT4G04960 29.082 196 120 6 77 254 59 253 4.95e-12 66.2
MsG0380013595.01.T01 AT4G04960 29.082 196 120 6 77 254 59 253 8.11e-12 65.9
MsG0380013595.01.T01 AT4G02420 29.259 270 154 14 13 256 2 260 6.42e-11 63.2
MsG0380013595.01.T01 AT2G29250 28.440 218 125 10 62 256 52 261 7.31e-11 62.8

Find 47 sgRNAs with CRISPR-Local

Find 59 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TTCTTAGGAATCACACTATT+TGG 0.202064 3:-41381499 None:intergenic
ATACCAACGCTAACTGTTTC+TGG 0.220985 3:-41381814 None:intergenic
GATCCTAACAATGCACATAT+TGG 0.297717 3:+41381613 MsG0380013595.01.T01:CDS
GGGACATGGAAAACAGAAAT+TGG 0.305299 3:+41381670 MsG0380013595.01.T01:CDS
GCACGGCCTACAATCGTATA+AGG 0.309184 3:-41381340 None:intergenic
ACACAAAGGAAAATAGTTTC+TGG 0.315222 3:-41381147 None:intergenic
TCTCCACCATGTGTGTTCTT+AGG 0.322895 3:-41381514 None:intergenic
GGGAACGGGTGTTGGATATA+AGG 0.323393 3:-41381362 None:intergenic
ATCCAACACCCGTTCCCATT+TGG 0.326894 3:+41381368 MsG0380013595.01.T01:CDS
TCTTTAATTTCATCCAAGAT+AGG 0.332334 3:+41381649 MsG0380013595.01.T01:CDS
TTGATAATTATCACAATGAA+TGG 0.357039 3:+41381590 MsG0380013595.01.T01:CDS
GAACACACATGGTGGAGATC+TGG 0.367028 3:+41381519 MsG0380013595.01.T01:CDS
TCCAACACCCGTTCCCATTT+GGG 0.369296 3:+41381369 MsG0380013595.01.T01:CDS
ACCGCTTTCAATCAATTTGT+TGG 0.409746 3:+41381559 MsG0380013595.01.T01:CDS
ATCCTAACAATGCACATATT+GGG 0.411998 3:+41381614 MsG0380013595.01.T01:CDS
GATGACCCTTATACGATTGT+AGG 0.417516 3:+41381334 MsG0380013595.01.T01:CDS
TCCCAAATGGGAACGGGTGT+TGG 0.421568 3:-41381370 None:intergenic
CCCATTTGGGATAAAACAAC+TGG 0.423041 3:+41381382 MsG0380013595.01.T01:CDS
TAATGAGTGCATTCCCTTGA+AGG 0.425484 3:-41381279 None:intergenic
GAAAATAGTTTCTGGTTATG+TGG 0.433314 3:-41381139 None:intergenic
GTTTCTCTCATTGATGAGCT+TGG 0.446561 3:+41381745 MsG0380013595.01.T01:CDS
ATCCCAATATGTGCATTGTT+AGG 0.450564 3:-41381616 None:intergenic
CTCAGTTGCAAGCAAGAGAA+AGG 0.475267 3:-41381188 None:intergenic
GGTGGTCTTCAACCAGCTGA+TGG 0.478343 3:+41381454 MsG0380013595.01.T01:CDS
TGATAATTATCACAATGAAT+GGG 0.484393 3:+41381591 MsG0380013595.01.T01:CDS
AACACACATGGTGGAGATCT+GGG 0.502642 3:+41381520 MsG0380013595.01.T01:CDS
CTTTAATTTCATCCAAGATA+GGG 0.502694 3:+41381650 MsG0380013595.01.T01:CDS
AATGAGTGCATTCCCTTGAA+GGG 0.508832 3:-41381278 None:intergenic
TTAGGAATCACACTATTTGG+TGG 0.526107 3:-41381496 None:intergenic
GCTGGTTGAAGACCACCAAC+CGG 0.528758 3:-41381448 None:intergenic
ATAAGGGTCATCTTGAATGC+TGG 0.538954 3:-41381323 None:intergenic
CACGGCCTACAATCGTATAA+GGG 0.543736 3:-41381339 None:intergenic
GACTTAGCTGAGTACACCTC+TGG 0.546275 3:+41381241 MsG0380013595.01.T01:CDS
GTGGTGCAAGAAAGAAGATA+AGG 0.570237 3:-41381477 None:intergenic
GTGGACCATATCAACTCATA+CGG 0.574991 3:-41381957 None:intergenic
ACCAACAAATTGATTGAAAG+CGG 0.579038 3:-41381560 None:intergenic
CTTCCAGAAACAGTTAGCGT+TGG 0.583927 3:+41381811 MsG0380013595.01.T01:CDS
AAGAAGATAAGGCCATCAGC+TGG 0.583975 3:-41381466 None:intergenic
TTGACGTTGTTCAAATGATG+TGG 0.619970 3:-41381845 None:intergenic
TTTCATCCAAGATAGGGACA+TGG 0.631840 3:+41381656 MsG0380013595.01.T01:CDS
AAATACATGTCATTGAAACA+TGG 0.641886 3:+41381866 MsG0380013595.01.T01:CDS
CGGGTGTTGGATATAAGGCA+CGG 0.656236 3:-41381357 None:intergenic
GGTGTACTCAGCTAAGTCGA+AGG 0.656926 3:-41381236 None:intergenic
ACTCATTAAAGAAAATCACT+TGG 0.669916 3:+41381294 MsG0380013595.01.T01:CDS
TGTAAAGATGACCAACACAA+AGG 0.670119 3:-41381161 None:intergenic
ATTCCTAAGAACACACATGG+TGG 0.680802 3:+41381511 MsG0380013595.01.T01:CDS
GTGATTCCTAAGAACACACA+TGG 0.690560 3:+41381508 MsG0380013595.01.T01:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! TGATAATTATCACAATGAAT+GGG + Chr3:41381591-41381610 MsG0380013595.01.T01:CDS 20.0%
!!! TTGATAATTATCACAATGAA+TGG + Chr3:41381590-41381609 MsG0380013595.01.T01:CDS 20.0%
! AAAAAAAAACTAACCCTTCA+AGG + Chr3:41381265-41381284 MsG0380013595.01.T01:CDS 25.0%
! AAAAAAAACTAACCCTTCAA+GGG + Chr3:41381266-41381285 MsG0380013595.01.T01:CDS 25.0%
! AAATACATGTCATTGAAACA+TGG + Chr3:41381866-41381885 MsG0380013595.01.T01:CDS 25.0%
! ACTCATTAAAGAAAATCACT+TGG + Chr3:41381294-41381313 MsG0380013595.01.T01:CDS 25.0%
!! CTTTAATTTCATCCAAGATA+GGG + Chr3:41381650-41381669 MsG0380013595.01.T01:CDS 25.0%
!! TCTTTAATTTCATCCAAGAT+AGG + Chr3:41381649-41381668 MsG0380013595.01.T01:CDS 25.0%
ACACAAAGGAAAATAGTTTC+TGG - Chr3:41381150-41381169 None:intergenic 30.0%
ACCAACAAATTGATTGAAAG+CGG - Chr3:41381563-41381582 None:intergenic 30.0%
ATCCTAACAATGCACATATT+GGG + Chr3:41381614-41381633 MsG0380013595.01.T01:CDS 30.0%
TTCTTAGGAATCACACTATT+TGG - Chr3:41381502-41381521 None:intergenic 30.0%
! GAAACTATTTTCCTTTGTGT+TGG + Chr3:41381150-41381169 MsG0380013595.01.T01:CDS 30.0%
!! GAAAATAGTTTCTGGTTATG+TGG - Chr3:41381142-41381161 None:intergenic 30.0%
!!! GGTTAGTTTTTTTTTACCAG+AGG - Chr3:41381260-41381279 None:intergenic 30.0%
ACCGCTTTCAATCAATTTGT+TGG + Chr3:41381559-41381578 MsG0380013595.01.T01:CDS 35.0%
ATCCCAATATGTGCATTGTT+AGG - Chr3:41381619-41381638 None:intergenic 35.0%
GATCCTAACAATGCACATAT+TGG + Chr3:41381613-41381632 MsG0380013595.01.T01:CDS 35.0%
TGTAAAGATGACCAACACAA+AGG - Chr3:41381164-41381183 None:intergenic 35.0%
TTAGGAATCACACTATTTGG+TGG - Chr3:41381499-41381518 None:intergenic 35.0%
TTGACGTTGTTCAAATGATG+TGG - Chr3:41381848-41381867 None:intergenic 35.0%
! TGTTTTATCCCAAATGGGAA+CGG - Chr3:41381380-41381399 None:intergenic 35.0%
!! CCAGTTGTTTTATCCCAAAT+GGG - Chr3:41381385-41381404 None:intergenic 35.0%
AATGAGTGCATTCCCTTGAA+GGG - Chr3:41381281-41381300 None:intergenic 40.0%
ATAAGGGTCATCTTGAATGC+TGG - Chr3:41381326-41381345 None:intergenic 40.0%
ATACCAACGCTAACTGTTTC+TGG - Chr3:41381817-41381836 None:intergenic 40.0%
ATTCCTAAGAACACACATGG+TGG + Chr3:41381511-41381530 MsG0380013595.01.T01:CDS 40.0%
GATGACCCTTATACGATTGT+AGG + Chr3:41381334-41381353 MsG0380013595.01.T01:CDS 40.0%
GGGACATGGAAAACAGAAAT+TGG + Chr3:41381670-41381689 MsG0380013595.01.T01:CDS 40.0%
GTGATTCCTAAGAACACACA+TGG + Chr3:41381508-41381527 MsG0380013595.01.T01:CDS 40.0%
GTGGTGCAAGAAAGAAGATA+AGG - Chr3:41381480-41381499 None:intergenic 40.0%
GTTTCTCTCATTGATGAGCT+TGG + Chr3:41381745-41381764 MsG0380013595.01.T01:CDS 40.0%
TAATGAGTGCATTCCCTTGA+AGG - Chr3:41381282-41381301 None:intergenic 40.0%
TTTCATCCAAGATAGGGACA+TGG + Chr3:41381656-41381675 MsG0380013595.01.T01:CDS 40.0%
! CCCATTTGGGATAAAACAAC+TGG + Chr3:41381382-41381401 MsG0380013595.01.T01:CDS 40.0%
! CTTCTCTTTTTCTCTTGTGC+CGG + Chr3:41381429-41381448 MsG0380013595.01.T01:CDS 40.0%
! GTTTTATCCCAAATGGGAAC+GGG - Chr3:41381379-41381398 None:intergenic 40.0%
! TGTTTTCCATGTCCCTATCT+TGG - Chr3:41381665-41381684 None:intergenic 40.0%
!! GCCAGTTGTTTTATCCCAAA+TGG - Chr3:41381386-41381405 None:intergenic 40.0%
AAGAAGATAAGGCCATCAGC+TGG - Chr3:41381469-41381488 None:intergenic 45.0%
CACGGCCTACAATCGTATAA+GGG - Chr3:41381342-41381361 None:intergenic 45.0%
CGGCACAAGAGAAAAAGAGA+AGG - Chr3:41381431-41381450 None:intergenic 45.0%
CTCAGTTGCAAGCAAGAGAA+AGG - Chr3:41381191-41381210 None:intergenic 45.0%
CTTCCAGAAACAGTTAGCGT+TGG + Chr3:41381811-41381830 MsG0380013595.01.T01:CDS 45.0%
TCTCCACCATGTGTGTTCTT+AGG - Chr3:41381517-41381536 None:intergenic 45.0%
! AACACACATGGTGGAGATCT+GGG + Chr3:41381520-41381539 MsG0380013595.01.T01:CDS 45.0%
!! TCTTTTTCTCTTGTGCCGGT+TGG + Chr3:41381433-41381452 MsG0380013595.01.T01:CDS 45.0%
ATCCAACACCCGTTCCCATT+TGG + Chr3:41381368-41381387 MsG0380013595.01.T01:CDS 50.0%
GACTTAGCTGAGTACACCTC+TGG + Chr3:41381241-41381260 MsG0380013595.01.T01:CDS 50.0%
GCACGGCCTACAATCGTATA+AGG - Chr3:41381343-41381362 None:intergenic 50.0%
GGTGTACTCAGCTAAGTCGA+AGG - Chr3:41381239-41381258 None:intergenic 50.0%
TCCAACACCCGTTCCCATTT+GGG + Chr3:41381369-41381388 MsG0380013595.01.T01:CDS 50.0%
! GAACACACATGGTGGAGATC+TGG + Chr3:41381519-41381538 MsG0380013595.01.T01:CDS 50.0%
!! CGGGTGTTGGATATAAGGCA+CGG - Chr3:41381360-41381379 None:intergenic 50.0%
!! GGGAACGGGTGTTGGATATA+AGG - Chr3:41381365-41381384 None:intergenic 50.0%
!!! TTTTCTCTTGTGCCGGTTGG+TGG + Chr3:41381436-41381455 MsG0380013595.01.T01:CDS 50.0%
GCTGGTTGAAGACCACCAAC+CGG - Chr3:41381451-41381470 None:intergenic 55.0%
GGTGGTCTTCAACCAGCTGA+TGG + Chr3:41381454-41381473 MsG0380013595.01.T01:CDS 55.0%
TCCCAAATGGGAACGGGTGT+TGG - Chr3:41381373-41381392 None:intergenic 55.0%
Chromosome Type Strat End Strand Name
Chr3 gene 41381127 41381969 41381127 ID=MsG0380013595.01;Name=MsG0380013595.01
Chr3 mRNA 41381127 41381969 41381127 ID=MsG0380013595.01.T01;Parent=MsG0380013595.01;Name=MsG0380013595.01.T01;_AED=0.50;_eAED=0.50;_QI=0|-1|0|1|-1|1|1|0|280
Chr3 exon 41381127 41381969 41381127 ID=MsG0380013595.01.T01:exon:22510;Parent=MsG0380013595.01.T01
Chr3 CDS 41381127 41381969 41381127 ID=MsG0380013595.01.T01:cds;Parent=MsG0380013595.01.T01
Gene Sequence

>MsG0380013595.01.T01

ATGGCTTTCTTTCCACATAACCAGAAACTATTTTCCTTTGTGTTGGTCATCTTTACAATTTCCTTTCTCTTGCTTGCAACTGAGTTAGTGAACTCAGATGAAAGAGTTTCCTTCGACTTAGCTGAGTACACCTCTGGTAAAAAAAAACTAACCCTTCAAGGGAATGCACTCATTAAAGAAAATCACTTGGAACTTACCAGCATTCAAGATGACCCTTATACGATTGTAGGCCGTGCCTTATATCCAACACCCGTTCCCATTTGGGATAAAACAACTGGCAATGTCGCTAGTTTTGTGACTTCCTTCTCTTTTTCTCTTGTGCCGGTTGGTGGTCTTCAACCAGCTGATGGCCTTATCTTCTTTCTTGCACCACCAAATAGTGTGATTCCTAAGAACACACATGGTGGAGATCTGGGAGTAGTCGATGAGACTACCGCTTTCAATCAATTTGTTGGTGTAGAATTTGATAATTATCACAATGAATGGGATCCTAACAATGCACATATTGGGATCGATGTCAACTCTTTAATTTCATCCAAGATAGGGACATGGAAAACAGAAATTGGAGTGTTGTTCAATGTTAATATCATCTATGATTCTCTCTCTAAGACTTTGAGTGTTTCTCTCATTGATGAGCTTGGTCAAGTTTCTACTGTTGCTCAAGTCGTTGATTTGAAAGATGTGCTTCCAGAAACAGTTAGCGTTGGTATATCTGCTGCCACATCATTTGAACAACGTCAAATACATGTCATTGAAACATGGTCTTTCAAGTCAATTTTGAAGACAACTATAAGCAGCAACATCTTAGAGAACACAAATCATACTGCTATCCGTATGAGTTGA

Protein sequence

>MsG0380013595.01.T01

MAFFPHNQKLFSFVLVIFTISFLLLATELVNSDERVSFDLAEYTSGKKKLTLQGNALIKENHLELTSIQDDPYTIVGRALYPTPVPIWDKTTGNVASFVTSFSFSLVPVGGLQPADGLIFFLAPPNSVIPKNTHGGDLGVVDETTAFNQFVGVEFDNYHNEWDPNNAHIGIDVNSLISSKIGTWKTEIGVLFNVNIIYDSLSKTLSVSLIDELGQVSTVAQVVDLKDVLPETVSVGISAATSFEQRQIHVIETWSFKSILKTTISSNILENTNHTAIRMS*