AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene48718

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene48718.t1 MTR_4g031910 71.795 234 49 2 1 222 1 229 9.29e-113 322
MS.gene48718.t1 MTR_4g032290 69.262 244 40 2 1 222 1 231 3.95e-108 311
MS.gene48718.t1 MTR_4g032620 57.576 231 89 1 1 222 1 231 1.07e-95 279
MS.gene48718.t1 MTR_8g036130 57.490 247 80 4 1 222 1 247 8.84e-91 267
MS.gene48718.t1 MTR_4g032260 80.255 157 31 0 1 157 1 157 4.02e-82 242
MS.gene48718.t1 MTR_3g065100 47.718 241 101 4 1 219 1 238 6.20e-65 201
MS.gene48718.t1 MTR_3g466980 45.413 218 105 3 1 214 1 208 6.15e-62 193
MS.gene48718.t1 MTR_2g035610 72.131 122 34 0 1 122 1 122 6.68e-52 164
MS.gene48718.t1 MTR_4g032270 77.083 96 14 1 135 222 36 131 4.73e-46 149
MS.gene48718.t1 MTR_5g075380 45.806 155 83 1 1 155 1 154 8.37e-45 147
MS.gene48718.t1 MTR_3g466830 47.020 151 79 1 3 153 2 151 3.25e-44 146
MS.gene48718.t1 MTR_4g063790 43.506 154 87 0 1 154 1 154 2.33e-43 144
MS.gene48718.t1 MTR_3g467080 41.026 156 92 0 1 156 1 156 1.41e-41 139
MS.gene48718.t1 MTR_3g031100 34.821 224 134 4 1 219 1 217 6.01e-41 140
MS.gene48718.t1 MTR_2g016210 38.983 177 107 1 1 176 1 177 1.98e-39 136
MS.gene48718.t1 MTR_3g466890 43.421 152 85 1 3 154 2 152 2.35e-39 133
MS.gene48718.t1 MTR_5g047580 42.949 156 87 2 1 156 1 154 2.65e-39 133
MS.gene48718.t1 MTR_1g077390 39.744 156 92 2 1 156 1 154 1.95e-36 126
MS.gene48718.t1 MTR_7g011950 41.667 156 89 2 1 156 1 154 1.05e-34 121
MS.gene48718.t1 MTR_1g077320 41.667 156 89 2 1 156 1 154 1.45e-33 119
MS.gene48718.t1 MTR_1g090783 38.312 154 93 2 3 156 2 153 1.47e-33 118
MS.gene48718.t1 MTR_1g090710 41.176 153 78 3 1 153 1 141 1.98e-33 118
MS.gene48718.t1 MTR_3g465410 42.857 126 72 0 29 154 1 126 2.10e-33 117
MS.gene48718.t1 MTR_4g028720 41.026 156 90 2 1 156 1 154 5.57e-33 117
MS.gene48718.t1 MTR_1g090697 39.333 150 89 2 1 150 1 148 1.25e-32 116
MS.gene48718.t1 MTR_1g077300 41.667 156 87 2 1 156 1 152 6.52e-32 114
MS.gene48718.t1 MTR_4g028800 75.714 70 15 1 1 70 1 68 8.08e-32 111
MS.gene48718.t1 MTR_1g084950 41.667 156 89 2 1 156 1 154 9.44e-32 114
MS.gene48718.t1 MTR_7g055800 51.724 116 28 2 1 116 1 88 6.90e-30 107
MS.gene48718.t1 MTR_3g031240 34.810 158 99 2 1 156 1 156 7.23e-30 110
MS.gene48718.t1 MTR_3g466900 39.837 123 73 1 32 154 2 123 9.05e-29 105
MS.gene48718.t1 MTR_3g466930 37.398 123 76 1 32 154 2 123 2.68e-26 99.4
MS.gene48718.t1 MTR_7g055790 52.252 111 35 1 1 111 59 151 5.88e-26 99.0
MS.gene48718.t1 MTR_2g035580 36.306 157 99 1 1 157 1 156 3.02e-25 97.4
MS.gene48718.t1 MTR_7g055940 50.000 106 25 2 1 106 1 78 1.58e-24 92.8
MS.gene48718.t1 MTR_4g019670 38.400 125 77 0 3 127 6 130 3.05e-23 97.8
MS.gene48718.t1 MTR_7g106510 37.008 127 80 0 3 129 6 132 3.31e-23 97.4
MS.gene48718.t1 MTR_3g093900 29.500 200 134 4 3 196 6 204 5.19e-22 94.4
MS.gene48718.t1 MTR_5g047560 33.333 156 86 3 1 156 1 138 8.71e-21 85.1
MS.gene48718.t1 MTR_2g035590 59.259 81 33 0 74 154 1 81 2.08e-20 82.8
MS.gene48718.t1 MTR_1g114730 29.457 129 79 4 1 123 1 123 1.46e-13 69.3
MS.gene48718.t1 MTR_6g018920 27.500 160 101 6 1 154 1 151 1.51e-13 68.9
MS.gene48718.t1 MTR_4g084780 38.739 111 52 2 74 168 1 111 2.12e-13 65.9
MS.gene48718.t1 MTR_6g005450 35.398 113 66 4 1 107 1 112 3.70e-13 68.2
MS.gene48718.t1 MTR_6g005440 33.628 113 68 4 1 107 1 112 2.26e-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.gene48718.t1 AT5G48670 54.194 155 68 2 1 154 1 153 2.39e-46 156
MS.gene48718.t1 AT5G26630 42.439 205 107 2 1 195 1 204 2.63e-42 143
MS.gene48718.t1 AT1G65300 44.079 152 84 1 3 154 2 152 1.77e-40 140
MS.gene48718.t1 AT1G65330 44.737 152 83 1 3 154 2 152 2.74e-39 137
MS.gene48718.t1 AT5G26650 42.763 152 86 1 5 156 3 153 1.72e-37 134
MS.gene48718.t1 AT5G27960 42.105 152 87 1 5 156 3 153 1.74e-36 130
MS.gene48718.t1 AT1G31630 39.865 148 87 2 3 150 2 147 2.33e-35 128
MS.gene48718.t1 AT2G28700 38.636 176 101 3 1 174 1 171 2.96e-33 122
MS.gene48718.t1 AT1G31640 39.073 151 90 2 3 153 2 150 1.31e-32 123
MS.gene48718.t1 AT5G27810 54.839 93 42 0 29 121 1 93 9.41e-32 112
MS.gene48718.t1 AT3G05860 36.025 161 102 1 1 161 1 160 6.02e-31 113
MS.gene48718.t1 AT3G05860 36.025 161 102 1 1 161 1 160 2.43e-30 113
MS.gene48718.t1 AT3G05860 36.025 161 102 1 1 161 1 160 3.01e-30 113
MS.gene48718.t1 AT5G26580 35.065 154 85 2 1 154 1 139 1.24e-25 102
MS.gene48718.t1 AT1G22590 30.247 162 109 1 1 162 1 158 8.08e-25 96.3
MS.gene48718.t1 AT5G06500 34.395 157 101 2 1 157 1 155 5.15e-22 90.9
MS.gene48718.t1 AT2G40210 40.157 127 75 1 1 127 1 126 2.22e-19 85.9
MS.gene48718.t1 AT5G58890 41.593 113 55 5 6 109 6 116 4.71e-16 75.9
MS.gene48718.t1 AT5G55690 42.308 78 38 2 1 71 1 78 2.18e-13 68.2
MS.gene48718.t1 AT5G55690 42.308 78 38 2 1 71 1 78 2.18e-13 68.2
MS.gene48718.t1 AT2G15660 30.088 113 74 2 38 150 31 138 3.01e-11 61.6

Find 57 sgRNAs with CRISPR-Local

Find 59 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CCCTTTGGTGAGATCAATTC+TGG 0.238779 4.4:-72082992 MS.gene48718:CDS
GAGCGAAGAAATGGCAATTA+TGG 0.251384 4.4:-72083113 MS.gene48718:CDS
TACCAATGTCCTTCAAATTA+TGG 0.254451 4.4:+72083182 None:intergenic
AAGAGAGGGTCTATTGAAAA+AGG 0.296491 4.4:-72083542 MS.gene48718:CDS
TCCTTCAAAGGTAGTAAATC+AGG 0.298213 4.4:+72082962 None:intergenic
CCCTGATTTACTACCTTTGA+AGG 0.324619 4.4:-72082963 MS.gene48718:CDS
ATGAGCCTCAACCAGAGATT+TGG 0.345216 4.4:-72083462 MS.gene48718:CDS
ATCTCTGGTTGAGGCTCATA+AGG 0.350685 4.4:+72083466 None:intergenic
AAAATGTCATCACCATTAAT+AGG 0.355958 4.4:+72083070 None:intergenic
TTTGCAAAGTCAATTATTGA+TGG 0.379269 4.4:-72083050 MS.gene48718:CDS
GAAGGACATTGGTAGACGTT+TGG 0.410243 4.4:-72083173 MS.gene48718:CDS
AGCGAAGAAATGGCAATTAT+GGG 0.425600 4.4:-72083112 MS.gene48718:CDS
AGCATCTAGGAGCGAAGAAA+TGG 0.428793 4.4:-72083122 MS.gene48718:CDS
TCTGGTGAAGGCCAAATCTC+TGG 0.429918 4.4:+72083451 None:intergenic
GTTGATTGACCATAATTTGA+AGG 0.445081 4.4:-72083191 MS.gene48718:CDS
CACAACCATGGCTAGAAGTA+AGG 0.461347 4.4:-72083620 None:intergenic
CTCATAAGGGCCATACACTA+TGG 0.468858 4.4:+72083480 None:intergenic
CTTGACACAAAGGGTTCTGA+AGG 0.478789 4.4:-72083347 MS.gene48718:CDS
TCAATTATTGATGGACTCAA+TGG 0.482426 4.4:-72083041 MS.gene48718:CDS
TTGATTTGAGTTATCTTACT+TGG 0.482489 4.4:-72083213 MS.gene48718:CDS
CATGTTGGGATACCTATTAA+TGG 0.485702 4.4:-72083082 MS.gene48718:CDS
TCTTCGCTCCTAGATGCTGC+TGG 0.487238 4.4:+72083127 None:intergenic
GATGCTGCTGGAGGTGATAG+TGG 0.492236 4.4:+72083139 None:intergenic
TATCACCTCCAGCAGCATCT+AGG 0.496968 4.4:-72083135 MS.gene48718:CDS
AGAGACTTTCTTGACACAAA+GGG 0.499629 4.4:-72083356 MS.gene48718:CDS
TTATGGGTCATGGACATGTT+GGG 0.500968 4.4:-72083096 MS.gene48718:CDS
TGCAGCATCATTGACAATGA+AGG 0.502295 4.4:+72083588 None:intergenic
ATTATGGGTCATGGACATGT+TGG 0.516074 4.4:-72083097 MS.gene48718:CDS
GACCATAATTTGAAGGACAT+TGG 0.517963 4.4:-72083184 MS.gene48718:CDS
GAAATGGCAATTATGGGTCA+TGG 0.521926 4.4:-72083106 MS.gene48718:CDS
GGACATTGGTAGACGTTTGG+CGG 0.524285 4.4:-72083170 MS.gene48718:CDS
TTTAACCTTACTTCTAGCCA+TGG 0.533701 4.4:+72083615 None:intergenic
ATGTATCATTGTCTCAATGA+AGG 0.546520 4.4:-72083265 MS.gene48718:CDS
TCTCTGGTTGAGGCTCATAA+GGG 0.546756 4.4:+72083467 None:intergenic
CCAGAATTGATCTCACCAAA+GGG 0.554343 4.4:+72082992 None:intergenic
GTGCAAGAGACAGTGCCCTT+TGG 0.557727 4.4:-72083007 MS.gene48718:CDS
GAAGCCTGTGCCATAGTGTA+TGG 0.559714 4.4:-72083490 MS.gene48718:CDS
TCATACAAGAAAAGAAGAGA+GGG 0.567245 4.4:-72083556 MS.gene48718:CDS
CCTTCAAAGGTAGTAAATCA+GGG 0.575295 4.4:+72082963 None:intergenic
GAGATTTGGCCTTCACCAGA+GGG 0.575380 4.4:-72083448 MS.gene48718:CDS
GAAGGCCAAATCTCTGGTTG+AGG 0.576852 4.4:+72083457 None:intergenic
AAGAGACTTTCTTGACACAA+AGG 0.583591 4.4:-72083357 MS.gene48718:CDS
ATCATACAAGAAAAGAAGAG+AGG 0.583885 4.4:-72083557 MS.gene48718:CDS
TGTGCACAACAATATTTCAA+CGG 0.585275 4.4:-72083236 MS.gene48718:CDS
TCCAGAATTGATCTCACCAA+AGG 0.590517 4.4:+72082991 None:intergenic
ATTGAGAAAAGATCCTTCAA+AGG 0.601093 4.4:+72082950 None:intergenic
ACAGGCTTCAATGCCACAGA+GGG 0.601811 4.4:+72083504 None:intergenic
GATTTGGCCTTCACCAGAGG+GGG 0.601928 4.4:-72083446 MS.gene48718:CDS
TTGATGGACTCAATGGTGGC+TGG 0.607204 4.4:-72083034 MS.gene48718:CDS
AGAGATTTGGCCTTCACCAG+AGG 0.616752 4.4:-72083449 MS.gene48718:CDS
AGGGCCATACACTATGGCAC+AGG 0.641363 4.4:+72083486 None:intergenic
TCATTGTCAATGATGCTGCA+AGG 0.652548 4.4:-72083585 MS.gene48718:CDS
ATTATTGATGGACTCAATGG+TGG 0.666274 4.4:-72083038 MS.gene48718:CDS
TCGCTCCTAGATGCTGCTGG+AGG 0.676090 4.4:+72083130 None:intergenic
GCTGAACTTAGCACCCTCTG+TGG 0.677042 4.4:-72083517 MS.gene48718:CDS
CACAGGCTTCAATGCCACAG+AGG 0.696692 4.4:+72083503 None:intergenic
AGATTTGGCCTTCACCAGAG+GGG 0.703414 4.4:-72083447 MS.gene48718:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
! AAAATGTCATCACCATTAAT+AGG + chr4.4:72083492-72083511 None:intergenic 25.0%
! TTTGCAAAGTCAATTATTGA+TGG - chr4.4:72083509-72083528 MS.gene48718:CDS 25.0%
!! TTGATTTGAGTTATCTTACT+TGG - chr4.4:72083346-72083365 MS.gene48718:CDS 25.0%
ATCATACAAGAAAAGAAGAG+AGG - chr4.4:72083002-72083021 MS.gene48718:CDS 30.0%
ATGTATCATTGTCTCAATGA+AGG - chr4.4:72083294-72083313 MS.gene48718:CDS 30.0%
ATTGAGAAAAGATCCTTCAA+AGG + chr4.4:72083612-72083631 None:intergenic 30.0%
GTTGATTGACCATAATTTGA+AGG - chr4.4:72083368-72083387 MS.gene48718:CDS 30.0%
TACCAATGTCCTTCAAATTA+TGG + chr4.4:72083380-72083399 None:intergenic 30.0%
TCATACAAGAAAAGAAGAGA+GGG - chr4.4:72083003-72083022 MS.gene48718:CDS 30.0%
TGTGCACAACAATATTTCAA+CGG - chr4.4:72083323-72083342 MS.gene48718:CDS 30.0%
!! TCAATTATTGATGGACTCAA+TGG - chr4.4:72083518-72083537 MS.gene48718:CDS 30.0%
AAGAGACTTTCTTGACACAA+AGG - chr4.4:72083202-72083221 MS.gene48718:CDS 35.0%
AAGAGAGGGTCTATTGAAAA+AGG - chr4.4:72083017-72083036 MS.gene48718:CDS 35.0%
AGAGACTTTCTTGACACAAA+GGG - chr4.4:72083203-72083222 MS.gene48718:CDS 35.0%
AGCGAAGAAATGGCAATTAT+GGG - chr4.4:72083447-72083466 MS.gene48718:CDS 35.0%
CATGTTGGGATACCTATTAA+TGG - chr4.4:72083477-72083496 MS.gene48718:CDS 35.0%
CCTTCAAAGGTAGTAAATCA+GGG + chr4.4:72083599-72083618 None:intergenic 35.0%
GACCATAATTTGAAGGACAT+TGG - chr4.4:72083375-72083394 MS.gene48718:CDS 35.0%
TCCTTCAAAGGTAGTAAATC+AGG + chr4.4:72083600-72083619 None:intergenic 35.0%
!! ATTATTGATGGACTCAATGG+TGG - chr4.4:72083521-72083540 MS.gene48718:CDS 35.0%
ATTATGGGTCATGGACATGT+TGG - chr4.4:72083462-72083481 MS.gene48718:CDS 40.0%
CCAGAATTGATCTCACCAAA+GGG + chr4.4:72083570-72083589 None:intergenic 40.0%
CCCTGATTTACTACCTTTGA+AGG - chr4.4:72083596-72083615 MS.gene48718:CDS 40.0%
GAAATGGCAATTATGGGTCA+TGG - chr4.4:72083453-72083472 MS.gene48718:CDS 40.0%
GAGCGAAGAAATGGCAATTA+TGG - chr4.4:72083446-72083465 MS.gene48718:CDS 40.0%
TCATTGTCAATGATGCTGCA+AGG - chr4.4:72082974-72082993 MS.gene48718:CDS 40.0%
TCCAGAATTGATCTCACCAA+AGG + chr4.4:72083571-72083590 None:intergenic 40.0%
TGCAGCATCATTGACAATGA+AGG + chr4.4:72082974-72082993 None:intergenic 40.0%
TTATGGGTCATGGACATGTT+GGG - chr4.4:72083463-72083482 MS.gene48718:CDS 40.0%
!! CGTCATGAATTTTGAGAGCA+CGG + chr4.4:72083145-72083164 None:intergenic 40.0%
!! TGAATTTTGAGAGCACGGAT+TGG + chr4.4:72083140-72083159 None:intergenic 40.0%
AGCATCTAGGAGCGAAGAAA+TGG - chr4.4:72083437-72083456 MS.gene48718:CDS 45.0%
ATCTCTGGTTGAGGCTCATA+AGG + chr4.4:72083096-72083115 None:intergenic 45.0%
ATGAGCCTCAACCAGAGATT+TGG - chr4.4:72083097-72083116 MS.gene48718:CDS 45.0%
CCCTTTGGTGAGATCAATTC+TGG - chr4.4:72083567-72083586 MS.gene48718:CDS 45.0%
CTCATAAGGGCCATACACTA+TGG + chr4.4:72083082-72083101 None:intergenic 45.0%
GAAGGACATTGGTAGACGTT+TGG - chr4.4:72083386-72083405 MS.gene48718:CDS 45.0%
TCTCTGGTTGAGGCTCATAA+GGG + chr4.4:72083095-72083114 None:intergenic 45.0%
! CTTGACACAAAGGGTTCTGA+AGG - chr4.4:72083212-72083231 MS.gene48718:CDS 45.0%
ACAGGCTTCAATGCCACAGA+GGG + chr4.4:72083058-72083077 None:intergenic 50.0%
GAAGCCTGTGCCATAGTGTA+TGG - chr4.4:72083069-72083088 MS.gene48718:CDS 50.0%
GAAGGCCAAATCTCTGGTTG+AGG + chr4.4:72083105-72083124 None:intergenic 50.0%
GGACATTGGTAGACGTTTGG+CGG - chr4.4:72083389-72083408 MS.gene48718:CDS 50.0%
TATCACCTCCAGCAGCATCT+AGG - chr4.4:72083424-72083443 MS.gene48718:CDS 50.0%
TCTGGTGAAGGCCAAATCTC+TGG + chr4.4:72083111-72083130 None:intergenic 50.0%
! AGAGATTTGGCCTTCACCAG+AGG - chr4.4:72083110-72083129 MS.gene48718:CDS 50.0%
! AGATTTGGCCTTCACCAGAG+GGG - chr4.4:72083112-72083131 MS.gene48718:CDS 50.0%
! GAGATTTGGCCTTCACCAGA+GGG - chr4.4:72083111-72083130 MS.gene48718:CDS 50.0%
!! TTGATGGACTCAATGGTGGC+TGG - chr4.4:72083525-72083544 MS.gene48718:CDS 50.0%
AGGGCCATACACTATGGCAC+AGG + chr4.4:72083076-72083095 None:intergenic 55.0%
CACAGGCTTCAATGCCACAG+AGG + chr4.4:72083059-72083078 None:intergenic 55.0%
GATGCTGCTGGAGGTGATAG+TGG + chr4.4:72083423-72083442 None:intergenic 55.0%
GCTGAACTTAGCACCCTCTG+TGG - chr4.4:72083042-72083061 MS.gene48718:CDS 55.0%
GTGCAAGAGACAGTGCCCTT+TGG - chr4.4:72083552-72083571 MS.gene48718:CDS 55.0%
TCTTCGCTCCTAGATGCTGC+TGG + chr4.4:72083435-72083454 None:intergenic 55.0%
! GATTTGGCCTTCACCAGAGG+GGG - chr4.4:72083113-72083132 MS.gene48718:CDS 55.0%
GATTGGACCCCCTCTGGTGA+AGG + chr4.4:72083123-72083142 None:intergenic 60.0%
TCGCTCCTAGATGCTGCTGG+AGG + chr4.4:72083432-72083451 None:intergenic 60.0%
!! AGCACGGATTGGACCCCCTC+TGG + chr4.4:72083129-72083148 None:intergenic 65.0%


Chromosome Type Strat End Strand Name
chr4.4 gene 72082946 72083635 72082946 ID=MS.gene48718
chr4.4 mRNA 72082946 72083635 72082946 ID=MS.gene48718.t1;Parent=MS.gene48718
chr4.4 exon 72082946 72083635 72082946 ID=MS.gene48718.t1.exon1;Parent=MS.gene48718.t1
chr4.4 CDS 72082946 72083635 72082946 ID=cds.MS.gene48718.t1;Parent=MS.gene48718.t1
Gene Sequence

>MS.gene48718

ATGGCTAGAAGTAAGGTTAAACTTGCCTTCATTGTCAATGATGCTGCAAGGAAAGAATCATACAAGAAAAGAAGAGAGGGTCTATTGAAAAAGGTTGCTGAACTTAGCACCCTCTGTGGCATTGAAGCCTGTGCCATAGTGTATGGCCCTTATGAGCCTCAACCAGAGATTTGGCCTTCACCAGAGGGGGTCCAATCCGTGCTCTCAAAATTCATGACGATGCACGAGTTTCAAAAGTGCAAGAAAATGATGAACAAAGAGACTTTCTTGACACAAAGGGTTCTGAAGGCTGAAGAGAAATTGAAGAAACAAAGAAAAGAAAATAGAGAGCAAGAGATGACAATACTCATGTATCATTGTCTCAATGAAGGTAGAGTTGTGCACAACAATATTTCAACGGTTGATTTGAGTTATCTTACTTGGTTGATTGACCATAATTTGAAGGACATTGGTAGACGTTTGGCGGCAACAGTGCCACTATCACCTCCAGCAGCATCTAGGAGCGAAGAAATGGCAATTATGGGTCATGGACATGTTGGGATACCTATTAATGGTGATGACATTTTGCAAAGTCAATTATTGATGGACTCAATGGTGGCTGGTAATGTGCAAGAGACAGTGCCCTTTGGTGAGATCAATTCTGGAGTTTGCCCTGATTTACTACCTTTGAAGGATCTTTTCTCAATTTAG
Protein sequence

>MS.gene48718.t1

MARSKVKLAFIVNDAARKESYKKRREGLLKKVAELSTLCGIEACAIVYGPYEPQPEIWPSPEGVQSVLSKFMTMHEFQKCKKMMNKETFLTQRVLKAEEKLKKQRKENREQEMTILMYHCLNEGRVVHNNISTVDLSYLTWLIDHNLKDIGRRLAATVPLSPPAASRSEEMAIMGHGHVGIPINGDDILQSQLLMDSMVAGNVQETVPFGEINSGVCPDLLPLKDLFSI