AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene88153

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene88153.t1 MTR_4g031910 72.650 234 47 2 1 222 1 229 8.53e-114 325
MS.gene88153.t1 MTR_4g032290 68.852 244 41 2 1 222 1 231 5.88e-109 312
MS.gene88153.t1 MTR_4g032620 58.009 231 88 1 1 222 1 231 2.88e-94 275
MS.gene88153.t1 MTR_8g036130 56.680 247 82 4 1 222 1 247 5.43e-88 260
MS.gene88153.t1 MTR_4g032260 79.618 157 32 0 1 157 1 157 3.35e-80 237
MS.gene88153.t1 MTR_3g065100 49.378 241 97 4 1 219 1 238 7.22e-65 201
MS.gene88153.t1 MTR_3g466980 45.690 232 101 5 1 218 1 221 4.01e-63 196
MS.gene88153.t1 MTR_2g035610 72.951 122 33 0 1 122 1 122 1.05e-51 163
MS.gene88153.t1 MTR_4g032270 56.204 137 45 2 94 222 2 131 1.65e-46 150
MS.gene88153.t1 MTR_5g075380 47.742 155 80 1 1 155 1 154 1.52e-45 149
MS.gene88153.t1 MTR_4g063790 45.455 154 84 0 1 154 1 154 2.04e-45 149
MS.gene88153.t1 MTR_3g466830 47.682 151 78 1 3 153 2 151 4.76e-44 145
MS.gene88153.t1 MTR_3g467080 43.590 156 88 0 1 156 1 156 2.70e-43 143
MS.gene88153.t1 MTR_3g031100 35.268 224 133 4 1 219 1 217 5.23e-43 145
MS.gene88153.t1 MTR_5g047580 46.154 156 82 2 1 156 1 154 4.72e-41 137
MS.gene88153.t1 MTR_2g016210 39.560 182 108 2 1 180 1 182 6.98e-41 140
MS.gene88153.t1 MTR_3g466890 44.737 152 83 1 3 154 2 152 5.57e-39 132
MS.gene88153.t1 MTR_1g077390 42.308 156 88 2 1 156 1 154 4.36e-37 127
MS.gene88153.t1 MTR_1g090783 41.558 154 88 2 3 156 2 153 1.92e-35 123
MS.gene88153.t1 MTR_3g465410 44.444 126 70 0 29 154 1 126 6.43e-35 121
MS.gene88153.t1 MTR_1g077320 44.231 156 85 2 1 156 1 154 1.99e-34 120
MS.gene88153.t1 MTR_7g011950 43.590 156 86 2 1 156 1 154 5.26e-34 119
MS.gene88153.t1 MTR_4g028720 44.231 156 85 2 1 156 1 154 7.51e-34 119
MS.gene88153.t1 MTR_1g084950 44.872 156 84 2 1 156 1 154 3.15e-33 117
MS.gene88153.t1 MTR_1g077300 43.590 156 84 2 1 156 1 152 6.13e-32 114
MS.gene88153.t1 MTR_1g090710 38.312 154 94 1 1 154 1 153 1.11e-31 113
MS.gene88153.t1 MTR_1g090697 40.000 150 88 2 1 150 1 148 2.26e-31 112
MS.gene88153.t1 MTR_4g028800 74.286 70 16 1 1 70 1 68 2.08e-29 105
MS.gene88153.t1 MTR_3g031240 33.333 156 104 0 1 156 1 156 5.44e-29 107
MS.gene88153.t1 MTR_7g055800 48.718 117 32 2 1 117 1 89 3.24e-27 100
MS.gene88153.t1 MTR_3g466900 39.837 123 73 1 32 154 2 123 7.32e-27 100
MS.gene88153.t1 MTR_7g055790 53.153 111 34 1 1 111 59 151 1.54e-26 100
MS.gene88153.t1 MTR_2g035580 37.580 157 97 1 1 157 1 156 7.14e-26 98.6
MS.gene88153.t1 MTR_3g466930 37.398 123 76 1 32 154 2 123 1.89e-24 94.4
MS.gene88153.t1 MTR_7g106510 38.583 127 78 0 3 129 6 132 3.00e-23 97.4
MS.gene88153.t1 MTR_5g047560 36.538 156 81 3 1 156 1 138 3.68e-23 91.3
MS.gene88153.t1 MTR_4g019670 39.370 127 77 0 3 129 6 132 4.75e-23 97.1
MS.gene88153.t1 MTR_7g055940 47.170 106 28 2 1 106 1 78 5.38e-22 86.3
MS.gene88153.t1 MTR_3g093900 30.986 142 98 0 3 144 6 147 2.64e-20 89.0
MS.gene88153.t1 MTR_2g035590 59.259 81 33 0 74 154 1 81 5.55e-20 81.6
MS.gene88153.t1 MTR_1g114730 34.513 113 67 3 1 107 1 112 1.75e-13 68.9
MS.gene88153.t1 MTR_6g018920 31.858 113 70 4 1 107 1 112 9.84e-13 66.6
MS.gene88153.t1 MTR_6g005450 32.743 113 69 3 1 107 1 112 1.51e-12 66.2
MS.gene88153.t1 MTR_4g084780 38.739 111 52 2 74 168 1 111 1.58e-11 60.5
MS.gene88153.t1 MTR_6g005440 35.398 113 66 3 1 107 1 112 1.68e-11 62.8
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene88153.t1 AT5G48670 55.844 154 67 1 1 154 1 153 1.82e-46 156
MS.gene88153.t1 AT1G65330 42.246 187 94 3 3 176 2 187 4.32e-41 141
MS.gene88153.t1 AT1G65300 41.436 181 97 2 3 175 2 181 8.37e-41 140
MS.gene88153.t1 AT5G26630 43.979 191 96 2 1 181 1 190 3.36e-39 135
MS.gene88153.t1 AT5G26650 37.143 210 113 4 5 204 3 203 2.02e-36 131
MS.gene88153.t1 AT5G27960 41.071 168 88 3 5 162 3 169 8.76e-36 129
MS.gene88153.t1 AT1G31630 36.905 168 95 3 3 161 2 167 1.51e-34 125
MS.gene88153.t1 AT1G31640 39.735 151 89 2 3 153 2 150 7.29e-33 123
MS.gene88153.t1 AT3G05860 37.975 158 97 1 1 158 1 157 3.32e-31 114
MS.gene88153.t1 AT3G05860 37.975 158 97 1 1 158 1 157 4.84e-31 114
MS.gene88153.t1 AT3G05860 37.975 158 97 1 1 158 1 157 4.86e-31 115
MS.gene88153.t1 AT5G27810 55.914 93 41 0 29 121 1 93 1.90e-30 109
MS.gene88153.t1 AT2G28700 37.423 163 97 2 1 161 1 160 1.35e-29 112
MS.gene88153.t1 AT1G22590 32.716 162 105 1 1 162 1 158 4.28e-27 102
MS.gene88153.t1 AT5G26580 35.065 154 85 2 1 154 1 139 3.74e-24 98.6
MS.gene88153.t1 AT5G06500 34.395 157 101 2 1 157 1 155 4.28e-21 88.6
MS.gene88153.t1 AT2G40210 37.209 129 80 1 1 129 1 128 1.09e-16 78.2
MS.gene88153.t1 AT5G58890 37.795 127 68 5 6 123 6 130 1.66e-15 73.9
MS.gene88153.t1 AT5G55690 42.308 78 38 2 1 71 1 78 9.83e-13 66.2
MS.gene88153.t1 AT5G55690 42.308 78 38 2 1 71 1 78 9.83e-13 66.2
MS.gene88153.t1 AT5G27090 34.444 90 58 1 7 95 23 112 5.21e-11 60.1
MS.gene88153.t1 AT5G27944 39.726 73 43 1 24 95 41 113 6.59e-11 60.5

Find 58 sgRNAs with CRISPR-Local

Find 57 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AGAAACAAAGAAAAGAAAAT+AGG 0.231520 4.3:-68871271 MS.gene88153:CDS
CCCTTTGGTGAGATCAATTA+TGG 0.234667 4.3:-68870954 MS.gene88153:CDS
TACCAATGTCCTTCAGATTA+TGG 0.267347 4.3:+68871144 None:intergenic
ATAATTTCATCATCATTAAT+AGG 0.285530 4.3:+68871032 None:intergenic
GTGAGATCAATTATGGAGTT+TGG 0.309548 4.3:-68870947 MS.gene88153:CDS
AACAAAGGGTCTATTGAAAA+AGG 0.314581 4.3:-68871504 MS.gene88153:CDS
ATCAGCCTCAACCTGAGATT+TGG 0.336848 4.3:-68871424 MS.gene88153:CDS
AGCATCTAGGAGTGAGGAAA+TGG 0.344298 4.3:-68871084 MS.gene88153:CDS
ATCCTTCAAGGTAGTAAATC+AGG 0.372648 4.3:+68870924 None:intergenic
TATGCAAAGTCAATTATTGA+TGG 0.385590 4.3:-68871012 MS.gene88153:CDS
CTAGATGCTGTTGGAGGTGG+TGG 0.417295 4.3:+68871098 None:intergenic
GAAACAAAGAAAAGAAAATA+GGG 0.419680 4.3:-68871270 MS.gene88153:CDS
GGCCTGATTTACTACCTTGA+AGG 0.422090 4.3:-68870926 None:intergenic
GAAGGACATTGGTAGACGTT+TGG 0.439260 4.3:-68871135 MS.gene88153:CDS
AGTGAGGAAATGGGAATTGT+GGG 0.443118 4.3:-68871074 MS.gene88153:CDS
TTGTGGGTCATGGCCATGTT+GGG 0.452922 4.3:-68871058 MS.gene88153:CDS
CACAACCATGGCTAGAAGTA+AGG 0.457305 4.3:-68871582 None:intergenic
ATTGTGGGTCATGGCCATGT+TGG 0.468248 4.3:-68871059 MS.gene88153:CDS
TCTGATGAAGGCCAAATCTC+AGG 0.474702 4.3:+68871413 None:intergenic
CTCCTAGATGCTGTTGGAGG+TGG 0.476689 4.3:+68871095 None:intergenic
TCAATTATTGATGGACTCAA+TGG 0.482426 4.3:-68871003 MS.gene88153:CDS
TTGATTTGAGTTATCTTACT+TGG 0.482489 4.3:-68871175 MS.gene88153:CDS
TCCTCACTCCTAGATGCTGT+TGG 0.486555 4.3:+68871089 None:intergenic
CTTGACACAAAGGATTCTGA+AGG 0.491635 4.3:-68871309 MS.gene88153:CDS
TGCAGCATCATTGACAATGA+AGG 0.502295 4.3:+68871550 None:intergenic
CTGATAAGAGCCATACACTA+TGG 0.508097 4.3:+68871442 None:intergenic
TTTGTGTCAAGAAAGTCTCT+TGG 0.512375 4.3:+68871321 None:intergenic
GATGCTGTTGGAGGTGGTGG+TGG 0.513228 4.3:+68871101 None:intergenic
GAGTGAGGAAATGGGAATTG+TGG 0.516317 4.3:-68871075 MS.gene88153:CDS
GGACATTGGTAGACGTTTGG+CGG 0.524285 4.3:-68871132 MS.gene88153:CDS
GAGATTTGGCCTTCATCAGA+GGG 0.524738 4.3:-68871410 MS.gene88153:CDS
TCACTCCTAGATGCTGTTGG+AGG 0.527908 4.3:+68871092 None:intergenic
CACCACCTCCAACAGCATCT+AGG 0.540352 4.3:-68871097 MS.gene88153:CDS
ATGTCTCATTGTCTCAATGA+AGG 0.542205 4.3:-68871227 MS.gene88153:CDS
GCATCTAGGAGTGAGGAAAT+GGG 0.544227 4.3:-68871083 MS.gene88153:CDS
CCATAATTGATCTCACCAAA+GGG 0.558369 4.3:+68870954 None:intergenic
GAAGCCTGTGCCATAGTGTA+TGG 0.560968 4.3:-68871452 MS.gene88153:CDS
GAAGGCCAAATCTCAGGTTG+AGG 0.568672 4.3:+68871419 None:intergenic
GTTGATTGACCATAATCTGA+AGG 0.571124 4.3:-68871153 MS.gene88153:CDS
TTTAACCTTACTTCTAGCCA+TGG 0.572129 4.3:+68871577 None:intergenic
TCCATAATTGATCTCACCAA+AGG 0.580970 4.3:+68870953 None:intergenic
GTGCACGAGACAGTGCCCTT+TGG 0.582311 4.3:-68870969 MS.gene88153:CDS
GATTTGGCCTTCATCAGAGG+GGG 0.586170 4.3:-68871408 MS.gene88153:CDS
AAGAGACTTTCTTGACACAA+AGG 0.587821 4.3:-68871319 MS.gene88153:CDS
CATTAATAGGTATCCCAACA+TGG 0.589301 4.3:+68871045 None:intergenic
TGAGATTTGGCCTTCATCAG+AGG 0.593649 4.3:-68871411 MS.gene88153:CDS
GACCATAATCTGAAGGACAT+TGG 0.595565 4.3:-68871146 MS.gene88153:CDS
ACAGGCTTCAATGCCACAGA+GGG 0.601811 4.3:+68871466 None:intergenic
TTGATGGACTCAATGGTGGC+TGG 0.607204 4.3:-68870996 MS.gene88153:CDS
GAAATGGGAATTGTGGGTCA+TGG 0.616732 4.3:-68871068 MS.gene88153:CDS
AGAGCCATACACTATGGCAC+AGG 0.638872 4.3:+68871448 None:intergenic
TCCAACAGCATCTAGGAGTG+AGG 0.643310 4.3:-68871090 MS.gene88153:CDS
TCATTGTCAATGATGCTGCA+AGG 0.652548 4.3:-68871547 MS.gene88153:CDS
AGATTTGGCCTTCATCAGAG+GGG 0.658935 4.3:-68871409 MS.gene88153:CDS
ATTATTGATGGACTCAATGG+TGG 0.666274 4.3:-68871000 MS.gene88153:CDS
GCTGAACTTAGCACCCTCTG+TGG 0.677042 4.3:-68871479 MS.gene88153:CDS
TGTGCACGACAATATGTCAA+CGG 0.688304 4.3:-68871198 MS.gene88153:CDS
CACAGGCTTCAATGCCACAG+AGG 0.696692 4.3:+68871465 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! ATAATTTCATCATCATTAAT+AGG + chr4.3:68871475-68871494 None:intergenic 15.0%
!! AACATACAAAAAAAGAACAA+AGG - chr4.3:68870985-68871004 MS.gene88153:CDS 20.0%
!! ACATACAAAAAAAGAACAAA+GGG - chr4.3:68870986-68871005 MS.gene88153:CDS 20.0%
!! AGAAACAAAGAAAAGAAAAT+AGG - chr4.3:68871233-68871252 MS.gene88153:CDS 20.0%
!! GAAACAAAGAAAAGAAAATA+GGG - chr4.3:68871234-68871253 MS.gene88153:CDS 20.0%
! TATGCAAAGTCAATTATTGA+TGG - chr4.3:68871492-68871511 MS.gene88153:CDS 25.0%
!! TTGATTTGAGTTATCTTACT+TGG - chr4.3:68871329-68871348 MS.gene88153:CDS 25.0%
AACAAAGGGTCTATTGAAAA+AGG - chr4.3:68871000-68871019 MS.gene88153:CDS 30.0%
!! TCAATTATTGATGGACTCAA+TGG - chr4.3:68871501-68871520 MS.gene88153:CDS 30.0%
AAGAGACTTTCTTGACACAA+AGG - chr4.3:68871185-68871204 MS.gene88153:CDS 35.0%
ATGTCTCATTGTCTCAATGA+AGG - chr4.3:68871277-68871296 MS.gene88153:CDS 35.0%
CATTAATAGGTATCCCAACA+TGG + chr4.3:68871462-68871481 None:intergenic 35.0%
CCATAATTGATCTCACCAAA+GGG + chr4.3:68871553-68871572 None:intergenic 35.0%
GTGAGATCAATTATGGAGTT+TGG - chr4.3:68871557-68871576 MS.gene88153:CDS 35.0%
GTTGATTGACCATAATCTGA+AGG - chr4.3:68871351-68871370 MS.gene88153:CDS 35.0%
TACCAATGTCCTTCAGATTA+TGG + chr4.3:68871363-68871382 None:intergenic 35.0%
TCCATAATTGATCTCACCAA+AGG + chr4.3:68871554-68871573 None:intergenic 35.0%
TTTGTGTCAAGAAAGTCTCT+TGG + chr4.3:68871186-68871205 None:intergenic 35.0%
!! ATTATTGATGGACTCAATGG+TGG - chr4.3:68871504-68871523 MS.gene88153:CDS 35.0%
AGTGAGGAAATGGGAATTGT+GGG - chr4.3:68871430-68871449 MS.gene88153:CDS 40.0%
CCCTTTGGTGAGATCAATTA+TGG - chr4.3:68871550-68871569 MS.gene88153:CDS 40.0%
CTGATAAGAGCCATACACTA+TGG + chr4.3:68871065-68871084 None:intergenic 40.0%
CTTGACACAAAGGATTCTGA+AGG - chr4.3:68871195-68871214 MS.gene88153:CDS 40.0%
GACCATAATCTGAAGGACAT+TGG - chr4.3:68871358-68871377 MS.gene88153:CDS 40.0%
TCATTGTCAATGATGCTGCA+AGG - chr4.3:68870957-68870976 MS.gene88153:CDS 40.0%
TGCAGCATCATTGACAATGA+AGG + chr4.3:68870957-68870976 None:intergenic 40.0%
TGTGCACGACAATATGTCAA+CGG - chr4.3:68871306-68871325 MS.gene88153:CDS 40.0%
AGCATCTAGGAGTGAGGAAA+TGG - chr4.3:68871420-68871439 MS.gene88153:CDS 45.0%
ATCAGCCTCAACCTGAGATT+TGG - chr4.3:68871080-68871099 MS.gene88153:CDS 45.0%
GAAATGGGAATTGTGGGTCA+TGG - chr4.3:68871436-68871455 MS.gene88153:CDS 45.0%
GAAGGACATTGGTAGACGTT+TGG - chr4.3:68871369-68871388 MS.gene88153:CDS 45.0%
GAGTGAGGAAATGGGAATTG+TGG - chr4.3:68871429-68871448 MS.gene88153:CDS 45.0%
GCATCTAGGAGTGAGGAAAT+GGG - chr4.3:68871421-68871440 MS.gene88153:CDS 45.0%
TCTGATGAAGGCCAAATCTC+AGG + chr4.3:68871094-68871113 None:intergenic 45.0%
! AGATTTGGCCTTCATCAGAG+GGG - chr4.3:68871095-68871114 MS.gene88153:CDS 45.0%
! GAGATTTGGCCTTCATCAGA+GGG - chr4.3:68871094-68871113 MS.gene88153:CDS 45.0%
! TGAGATTTGGCCTTCATCAG+AGG - chr4.3:68871093-68871112 MS.gene88153:CDS 45.0%
ACAGGCTTCAATGCCACAGA+GGG + chr4.3:68871041-68871060 None:intergenic 50.0%
AGAGCCATACACTATGGCAC+AGG + chr4.3:68871059-68871078 None:intergenic 50.0%
ATTGTGGGTCATGGCCATGT+TGG - chr4.3:68871445-68871464 MS.gene88153:CDS 50.0%
GAAGCCTGTGCCATAGTGTA+TGG - chr4.3:68871052-68871071 MS.gene88153:CDS 50.0%
GATTGAACCCCCTCTGATGA+AGG + chr4.3:68871106-68871125 None:intergenic 50.0%
GGACATTGGTAGACGTTTGG+CGG - chr4.3:68871372-68871391 MS.gene88153:CDS 50.0%
TCACTCCTAGATGCTGTTGG+AGG + chr4.3:68871415-68871434 None:intergenic 50.0%
TCCAACAGCATCTAGGAGTG+AGG - chr4.3:68871414-68871433 MS.gene88153:CDS 50.0%
TCCTCACTCCTAGATGCTGT+TGG + chr4.3:68871418-68871437 None:intergenic 50.0%
TTGTGGGTCATGGCCATGTT+GGG - chr4.3:68871446-68871465 MS.gene88153:CDS 50.0%
! GAAGGCCAAATCTCAGGTTG+AGG + chr4.3:68871088-68871107 None:intergenic 50.0%
! GATTTGGCCTTCATCAGAGG+GGG - chr4.3:68871096-68871115 MS.gene88153:CDS 50.0%
!! TTGATGGACTCAATGGTGGC+TGG - chr4.3:68871508-68871527 MS.gene88153:CDS 50.0%
CACAGGCTTCAATGCCACAG+AGG + chr4.3:68871042-68871061 None:intergenic 55.0%
CACCACCTCCAACAGCATCT+AGG - chr4.3:68871407-68871426 MS.gene88153:CDS 55.0%
CTAGATGCTGTTGGAGGTGG+TGG + chr4.3:68871409-68871428 None:intergenic 55.0%
CTCCTAGATGCTGTTGGAGG+TGG + chr4.3:68871412-68871431 None:intergenic 55.0%
GCTGAACTTAGCACCCTCTG+TGG - chr4.3:68871025-68871044 MS.gene88153:CDS 55.0%
GTGCACGAGACAGTGCCCTT+TGG - chr4.3:68871535-68871554 MS.gene88153:CDS 60.0%
! GATGCTGTTGGAGGTGGTGG+TGG + chr4.3:68871406-68871425 None:intergenic 60.0%


Chromosome Type Strat End Strand Name
chr4.3 gene 68870929 68871597 68870929 ID=MS.gene88153
chr4.3 mRNA 68870929 68871597 68870929 ID=MS.gene88153.t1;Parent=MS.gene88153
chr4.3 exon 68870929 68871597 68870929 ID=MS.gene88153.t1.exon1;Parent=MS.gene88153.t1
chr4.3 CDS 68870929 68871597 68870929 ID=cds.MS.gene88153.t1;Parent=MS.gene88153.t1
Gene Sequence

>MS.gene88153

ATGGCTAGAAGTAAGGTTAAACTCGCCTTCATTGTCAATGATGCTGCAAGGAAAGCAACATACAAAAAAAGAACAAAGGGTCTATTGAAAAAGGTTGCTGAACTTAGCACCCTCTGTGGCATTGAAGCCTGTGCCATAGTGTATGGCTCTTATCAGCCTCAACCTGAGATTTGGCCTTCATCAGAGGGGGTTCAATCTGTGCTCTCAAAATTCATGACGATGCACGAGTTTCAAAAGTGCAAGAAAATGATGAACCAAGAGACTTTCTTGACACAAAGGATTCTGAAGGCTGAAGAGAAATTGAAGAAACAAAGAAAAGAAAATAGGGAGCAAGAGATGACAATACTCATGTCTCATTGTCTCAATGAAGGTAGAGTTGTGCACGACAATATGTCAACGGTTGATTTGAGTTATCTTACTTGGTTGATTGACCATAATCTGAAGGACATTGGTAGACGTTTGGCGGCAACAGTGCCACCACCACCTCCAACAGCATCTAGGAGTGAGGAAATGGGAATTGTGGGTCATGGCCATGTTGGGATACCTATTAATGATGATGAAATTATGCAAAGTCAATTATTGATGGACTCAATGGTGGCTGGTAATGTGCACGAGACAGTGCCCTTTGGTGAGATCAATTATGGAGTTTGGCCTGATTTACTACCTTGA
Protein sequence

>MS.gene88153.t1

MARSKVKLAFIVNDAARKATYKKRTKGLLKKVAELSTLCGIEACAIVYGSYQPQPEIWPSSEGVQSVLSKFMTMHEFQKCKKMMNQETFLTQRILKAEEKLKKQRKENREQEMTILMSHCLNEGRVVHDNMSTVDLSYLTWLIDHNLKDIGRRLAATVPPPPPTASRSEEMGIVGHGHVGIPINDDEIMQSQLLMDSMVAGNVHETVPFGEINYGVWPDLLP