AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene88152

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene88152.t1 MTR_4g031910 73.077 234 46 2 1 222 1 229 2.29e-114 326
MS.gene88152.t1 MTR_4g032290 69.262 244 40 2 1 222 1 231 1.90e-109 314
MS.gene88152.t1 MTR_4g032620 58.442 231 87 1 1 222 1 231 9.56e-95 276
MS.gene88152.t1 MTR_8g036130 57.085 247 81 4 1 222 1 247 1.53e-88 261
MS.gene88152.t1 MTR_4g032260 80.255 157 31 0 1 157 1 157 1.49e-80 238
MS.gene88152.t1 MTR_3g065100 49.378 241 97 4 1 219 1 238 2.74e-65 202
MS.gene88152.t1 MTR_3g466980 45.690 232 101 5 1 218 1 221 1.57e-63 197
MS.gene88152.t1 MTR_2g035610 73.770 122 32 0 1 122 1 122 3.30e-52 164
MS.gene88152.t1 MTR_4g032270 56.204 137 45 2 94 222 2 131 1.63e-46 150
MS.gene88152.t1 MTR_5g075380 47.742 155 80 1 1 155 1 154 7.94e-46 150
MS.gene88152.t1 MTR_4g063790 45.455 154 84 0 1 154 1 154 1.90e-45 149
MS.gene88152.t1 MTR_3g466830 47.682 151 78 1 3 153 2 151 7.51e-44 145
MS.gene88152.t1 MTR_3g467080 43.590 156 88 0 1 156 1 156 3.11e-43 143
MS.gene88152.t1 MTR_3g031100 35.268 224 133 4 1 219 1 217 6.29e-43 145
MS.gene88152.t1 MTR_5g047580 46.154 156 82 2 1 156 1 154 5.31e-41 137
MS.gene88152.t1 MTR_2g016210 39.560 182 108 2 1 180 1 182 8.56e-41 139
MS.gene88152.t1 MTR_3g466890 44.737 152 83 1 3 154 2 152 8.77e-39 132
MS.gene88152.t1 MTR_1g077390 42.308 156 88 2 1 156 1 154 2.16e-37 128
MS.gene88152.t1 MTR_1g090783 41.558 154 88 2 3 156 2 153 2.77e-35 122
MS.gene88152.t1 MTR_3g465410 44.444 126 70 0 29 154 1 126 7.98e-35 121
MS.gene88152.t1 MTR_1g077320 44.231 156 85 2 1 156 1 154 1.00e-34 121
MS.gene88152.t1 MTR_7g011950 43.590 156 86 2 1 156 1 154 2.88e-34 120
MS.gene88152.t1 MTR_4g028720 44.231 156 85 2 1 156 1 154 3.85e-34 120
MS.gene88152.t1 MTR_1g084950 44.872 156 84 2 1 156 1 154 1.86e-33 118
MS.gene88152.t1 MTR_1g077300 43.590 156 84 2 1 156 1 152 2.86e-32 115
MS.gene88152.t1 MTR_1g090710 38.312 154 94 1 1 154 1 153 6.61e-32 114
MS.gene88152.t1 MTR_1g090697 40.000 150 88 2 1 150 1 148 2.99e-31 112
MS.gene88152.t1 MTR_4g028800 75.714 70 15 1 1 70 1 68 4.94e-30 106
MS.gene88152.t1 MTR_3g031240 33.333 156 104 0 1 156 1 156 7.26e-29 107
MS.gene88152.t1 MTR_7g055800 49.573 117 31 2 1 117 1 89 9.72e-28 101
MS.gene88152.t1 MTR_3g466900 39.837 123 73 1 32 154 2 123 1.07e-26 100
MS.gene88152.t1 MTR_7g055790 53.153 111 34 1 1 111 59 151 1.59e-26 100
MS.gene88152.t1 MTR_2g035580 37.580 157 97 1 1 157 1 156 9.83e-26 98.2
MS.gene88152.t1 MTR_3g466930 37.398 123 76 1 32 154 2 123 2.50e-24 94.0
MS.gene88152.t1 MTR_7g106510 38.583 127 78 0 3 129 6 132 1.77e-23 98.2
MS.gene88152.t1 MTR_4g019670 39.370 127 77 0 3 129 6 132 2.95e-23 97.4
MS.gene88152.t1 MTR_5g047560 36.538 156 81 3 1 156 1 138 4.01e-23 90.9
MS.gene88152.t1 MTR_7g055940 48.113 106 27 2 1 106 1 78 1.61e-22 87.4
MS.gene88152.t1 MTR_3g093900 30.986 142 98 0 3 144 6 147 1.50e-20 89.7
MS.gene88152.t1 MTR_2g035590 59.259 81 33 0 74 154 1 81 5.61e-20 81.6
MS.gene88152.t1 MTR_1g114730 34.513 113 67 3 1 107 1 112 1.82e-13 68.6
MS.gene88152.t1 MTR_6g018920 35.398 113 66 4 1 107 1 112 3.38e-13 67.8
MS.gene88152.t1 MTR_6g005450 33.628 113 68 4 1 107 1 112 1.34e-12 66.2
MS.gene88152.t1 MTR_4g084780 38.739 111 52 2 74 168 1 111 1.54e-11 60.8
MS.gene88152.t1 MTR_6g005440 35.398 113 66 3 1 107 1 112 2.12e-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
MS.gene88152.t1 AT5G48670 55.844 154 67 1 1 154 1 153 9.25e-47 157
MS.gene88152.t1 AT1G65330 42.246 187 94 3 3 176 2 187 5.13e-41 141
MS.gene88152.t1 AT1G65300 41.436 181 97 2 3 175 2 181 9.83e-41 140
MS.gene88152.t1 AT5G26630 44.503 191 95 2 1 181 1 190 1.11e-39 136
MS.gene88152.t1 AT5G26650 37.143 210 113 4 5 204 3 203 2.60e-36 131
MS.gene88152.t1 AT5G27960 41.071 168 88 3 5 162 3 169 9.95e-36 128
MS.gene88152.t1 AT1G31630 37.500 168 94 3 3 161 2 167 4.46e-35 127
MS.gene88152.t1 AT1G31640 40.397 151 88 2 3 153 2 150 2.23e-33 125
MS.gene88152.t1 AT3G05860 37.975 158 97 1 1 158 1 157 4.38e-31 113
MS.gene88152.t1 AT3G05860 37.975 158 97 1 1 158 1 157 6.24e-31 114
MS.gene88152.t1 AT3G05860 37.975 158 97 1 1 158 1 157 6.34e-31 114
MS.gene88152.t1 AT5G27810 55.914 93 41 0 29 121 1 93 1.09e-30 110
MS.gene88152.t1 AT2G28700 37.423 163 97 2 1 161 1 160 1.77e-29 112
MS.gene88152.t1 AT1G22590 32.716 162 105 1 1 162 1 158 6.03e-27 101
MS.gene88152.t1 AT5G26580 35.065 154 85 2 1 154 1 139 3.90e-24 98.6
MS.gene88152.t1 AT5G06500 35.032 157 100 2 1 157 1 155 1.73e-21 89.4
MS.gene88152.t1 AT2G40210 37.209 129 80 1 1 129 1 128 1.30e-16 77.8
MS.gene88152.t1 AT5G58890 37.795 127 68 5 6 123 6 130 2.08e-15 73.9
MS.gene88152.t1 AT5G55690 42.308 78 38 2 1 71 1 78 1.46e-12 65.5
MS.gene88152.t1 AT5G55690 42.308 78 38 2 1 71 1 78 1.46e-12 65.5
MS.gene88152.t1 AT5G27090 34.444 90 58 1 7 95 23 112 5.76e-11 60.1
MS.gene88152.t1 AT2G15660 27.703 148 93 4 38 176 31 173 7.72e-11 60.5
MS.gene88152.t1 AT5G27944 39.726 73 43 1 24 95 41 113 7.96e-11 60.1

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:-68898365 MS.gene88152:CDS
CCCTTTGGTGAGATCAATTA+TGG 0.234667 4.3:-68898048 MS.gene88152:CDS
TACCAATGTCCTTCAGATTA+TGG 0.267347 4.3:+68898238 None:intergenic
ATAATTTCATCATCATTAAT+AGG 0.285530 4.3:+68898126 None:intergenic
GTGAGATCAATTATGGAGTT+TGG 0.309548 4.3:-68898041 MS.gene88152:CDS
AACAAAGGGTCTATTGAAAA+AGG 0.314581 4.3:-68898598 MS.gene88152:CDS
AGCATCTAGGAGTGAGGAAA+TGG 0.344298 4.3:-68898178 MS.gene88152:CDS
ATGAGCCTCAACCTGAGATT+TGG 0.345571 4.3:-68898518 MS.gene88152:CDS
ATCCTTCAAGGTAGTAAATC+AGG 0.372648 4.3:+68898018 None:intergenic
TATGCAAAGTCAATTATTGA+TGG 0.385590 4.3:-68898106 MS.gene88152:CDS
CTAGATGCTGTTGGAGGTGG+TGG 0.417295 4.3:+68898192 None:intergenic
GAAACAAAGAAAAGAAAATA+GGG 0.419680 4.3:-68898364 MS.gene88152:CDS
GGCCTGATTTACTACCTTGA+AGG 0.429526 4.3:-68898020 None:intergenic
GAAGGACATTGGTAGACGTT+TGG 0.439260 4.3:-68898229 MS.gene88152:CDS
AGTGAGGAAATGGGAATTGT+GGG 0.443118 4.3:-68898168 MS.gene88152:CDS
TTGTGGGTCATGGCCATGTT+GGG 0.452922 4.3:-68898152 MS.gene88152:CDS
CACAACCATGGCTAGAAGTA+AGG 0.457305 4.3:-68898676 None:intergenic
CTCATAAGAGCCATACACTA+TGG 0.467809 4.3:+68898536 None:intergenic
ATTGTGGGTCATGGCCATGT+TGG 0.468248 4.3:-68898153 MS.gene88152:CDS
TCTGATGAAGGCCAAATCTC+AGG 0.474702 4.3:+68898507 None:intergenic
CTCCTAGATGCTGTTGGAGG+TGG 0.476689 4.3:+68898189 None:intergenic
TCAATTATTGATGGACTCAA+TGG 0.482426 4.3:-68898097 MS.gene88152:CDS
TTGATTTGAGTTATCTTACT+TGG 0.482489 4.3:-68898269 MS.gene88152:CDS
TCCTCACTCCTAGATGCTGT+TGG 0.486555 4.3:+68898183 None:intergenic
CTTGACACAAAGGATTCTGA+AGG 0.491635 4.3:-68898403 MS.gene88152:CDS
TGCAGCATCATTGACAATGA+AGG 0.502295 4.3:+68898644 None:intergenic
TTTGTGTCAAGAAAGTCTCT+TGG 0.512375 4.3:+68898415 None:intergenic
GATGCTGTTGGAGGTGGTGG+TGG 0.513228 4.3:+68898195 None:intergenic
GAGTGAGGAAATGGGAATTG+TGG 0.516317 4.3:-68898169 MS.gene88152:CDS
GGACATTGGTAGACGTTTGG+CGG 0.524285 4.3:-68898226 MS.gene88152:CDS
GAGATTTGGCCTTCATCAGA+GGG 0.524738 4.3:-68898504 MS.gene88152:CDS
TCACTCCTAGATGCTGTTGG+AGG 0.527908 4.3:+68898186 None:intergenic
CACCACCTCCAACAGCATCT+AGG 0.540352 4.3:-68898191 MS.gene88152:CDS
ATGTCTCATTGTCTCAATGA+AGG 0.542205 4.3:-68898321 MS.gene88152:CDS
GCATCTAGGAGTGAGGAAAT+GGG 0.544227 4.3:-68898177 MS.gene88152:CDS
CCATAATTGATCTCACCAAA+GGG 0.558369 4.3:+68898048 None:intergenic
GAAGCCTGTGCCATAGTGTA+TGG 0.560968 4.3:-68898546 MS.gene88152:CDS
GAAGGCCAAATCTCAGGTTG+AGG 0.568672 4.3:+68898513 None:intergenic
GTTGATTGACCATAATCTGA+AGG 0.571124 4.3:-68898247 MS.gene88152:CDS
TTTAACCTTACTTCTAGCCA+TGG 0.572129 4.3:+68898671 None:intergenic
TCCATAATTGATCTCACCAA+AGG 0.580970 4.3:+68898047 None:intergenic
GTGCACGAGACAGTGCCCTT+TGG 0.582311 4.3:-68898063 MS.gene88152:CDS
GATTTGGCCTTCATCAGAGG+GGG 0.586170 4.3:-68898502 MS.gene88152:CDS
AAGAGACTTTCTTGACACAA+AGG 0.587821 4.3:-68898413 MS.gene88152:CDS
CATTAATAGGTATCCCAACA+TGG 0.589301 4.3:+68898139 None:intergenic
TGAGATTTGGCCTTCATCAG+AGG 0.593649 4.3:-68898505 MS.gene88152:CDS
GACCATAATCTGAAGGACAT+TGG 0.595565 4.3:-68898240 MS.gene88152:CDS
ACAGGCTTCAATGCCACAGA+GGG 0.601811 4.3:+68898560 None:intergenic
TTGATGGACTCAATGGTGGC+TGG 0.607204 4.3:-68898090 MS.gene88152:CDS
GAAATGGGAATTGTGGGTCA+TGG 0.616732 4.3:-68898162 MS.gene88152:CDS
TCCAACAGCATCTAGGAGTG+AGG 0.643310 4.3:-68898184 MS.gene88152:CDS
TCATTGTCAATGATGCTGCA+AGG 0.652548 4.3:-68898641 MS.gene88152:CDS
AGAGCCATACACTATGGCAC+AGG 0.656790 4.3:+68898542 None:intergenic
AGATTTGGCCTTCATCAGAG+GGG 0.658935 4.3:-68898503 MS.gene88152:CDS
ATTATTGATGGACTCAATGG+TGG 0.666274 4.3:-68898094 MS.gene88152:CDS
GCTGAACTTAGCACCCTCTG+TGG 0.677042 4.3:-68898573 MS.gene88152:CDS
TGTGCACGACAATATGTCAA+CGG 0.688304 4.3:-68898292 MS.gene88152:CDS
CACAGGCTTCAATGCCACAG+AGG 0.696692 4.3:+68898559 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! ATAATTTCATCATCATTAAT+AGG + chr4.3:68898569-68898588 None:intergenic 15.0%
!! AACATACAAAAAAAGAACAA+AGG - chr4.3:68898079-68898098 MS.gene88152:CDS 20.0%
!! ACATACAAAAAAAGAACAAA+GGG - chr4.3:68898080-68898099 MS.gene88152:CDS 20.0%
!! AGAAACAAAGAAAAGAAAAT+AGG - chr4.3:68898327-68898346 MS.gene88152:CDS 20.0%
!! GAAACAAAGAAAAGAAAATA+GGG - chr4.3:68898328-68898347 MS.gene88152:CDS 20.0%
! TATGCAAAGTCAATTATTGA+TGG - chr4.3:68898586-68898605 MS.gene88152:CDS 25.0%
!! TTGATTTGAGTTATCTTACT+TGG - chr4.3:68898423-68898442 MS.gene88152:CDS 25.0%
AACAAAGGGTCTATTGAAAA+AGG - chr4.3:68898094-68898113 MS.gene88152:CDS 30.0%
!! TCAATTATTGATGGACTCAA+TGG - chr4.3:68898595-68898614 MS.gene88152:CDS 30.0%
AAGAGACTTTCTTGACACAA+AGG - chr4.3:68898279-68898298 MS.gene88152:CDS 35.0%
ATGTCTCATTGTCTCAATGA+AGG - chr4.3:68898371-68898390 MS.gene88152:CDS 35.0%
CATTAATAGGTATCCCAACA+TGG + chr4.3:68898556-68898575 None:intergenic 35.0%
CCATAATTGATCTCACCAAA+GGG + chr4.3:68898647-68898666 None:intergenic 35.0%
GTGAGATCAATTATGGAGTT+TGG - chr4.3:68898651-68898670 MS.gene88152:CDS 35.0%
GTTGATTGACCATAATCTGA+AGG - chr4.3:68898445-68898464 MS.gene88152:CDS 35.0%
TACCAATGTCCTTCAGATTA+TGG + chr4.3:68898457-68898476 None:intergenic 35.0%
TCCATAATTGATCTCACCAA+AGG + chr4.3:68898648-68898667 None:intergenic 35.0%
TTTGTGTCAAGAAAGTCTCT+TGG + chr4.3:68898280-68898299 None:intergenic 35.0%
!! ATTATTGATGGACTCAATGG+TGG - chr4.3:68898598-68898617 MS.gene88152:CDS 35.0%
AGTGAGGAAATGGGAATTGT+GGG - chr4.3:68898524-68898543 MS.gene88152:CDS 40.0%
CCCTTTGGTGAGATCAATTA+TGG - chr4.3:68898644-68898663 MS.gene88152:CDS 40.0%
CTCATAAGAGCCATACACTA+TGG + chr4.3:68898159-68898178 None:intergenic 40.0%
CTTGACACAAAGGATTCTGA+AGG - chr4.3:68898289-68898308 MS.gene88152:CDS 40.0%
GACCATAATCTGAAGGACAT+TGG - chr4.3:68898452-68898471 MS.gene88152:CDS 40.0%
TCATTGTCAATGATGCTGCA+AGG - chr4.3:68898051-68898070 MS.gene88152:CDS 40.0%
TGCAGCATCATTGACAATGA+AGG + chr4.3:68898051-68898070 None:intergenic 40.0%
TGTGCACGACAATATGTCAA+CGG - chr4.3:68898400-68898419 MS.gene88152:CDS 40.0%
AGCATCTAGGAGTGAGGAAA+TGG - chr4.3:68898514-68898533 MS.gene88152:CDS 45.0%
ATGAGCCTCAACCTGAGATT+TGG - chr4.3:68898174-68898193 MS.gene88152:CDS 45.0%
GAAATGGGAATTGTGGGTCA+TGG - chr4.3:68898530-68898549 MS.gene88152:CDS 45.0%
GAAGGACATTGGTAGACGTT+TGG - chr4.3:68898463-68898482 MS.gene88152:CDS 45.0%
GAGTGAGGAAATGGGAATTG+TGG - chr4.3:68898523-68898542 MS.gene88152:CDS 45.0%
GCATCTAGGAGTGAGGAAAT+GGG - chr4.3:68898515-68898534 MS.gene88152:CDS 45.0%
TCTGATGAAGGCCAAATCTC+AGG + chr4.3:68898188-68898207 None:intergenic 45.0%
! AGATTTGGCCTTCATCAGAG+GGG - chr4.3:68898189-68898208 MS.gene88152:CDS 45.0%
! GAGATTTGGCCTTCATCAGA+GGG - chr4.3:68898188-68898207 MS.gene88152:CDS 45.0%
! TGAGATTTGGCCTTCATCAG+AGG - chr4.3:68898187-68898206 MS.gene88152:CDS 45.0%
ACAGGCTTCAATGCCACAGA+GGG + chr4.3:68898135-68898154 None:intergenic 50.0%
AGAGCCATACACTATGGCAC+AGG + chr4.3:68898153-68898172 None:intergenic 50.0%
ATTGTGGGTCATGGCCATGT+TGG - chr4.3:68898539-68898558 MS.gene88152:CDS 50.0%
GAAGCCTGTGCCATAGTGTA+TGG - chr4.3:68898146-68898165 MS.gene88152:CDS 50.0%
GATTGAACCCCCTCTGATGA+AGG + chr4.3:68898200-68898219 None:intergenic 50.0%
GGACATTGGTAGACGTTTGG+CGG - chr4.3:68898466-68898485 MS.gene88152:CDS 50.0%
TCACTCCTAGATGCTGTTGG+AGG + chr4.3:68898509-68898528 None:intergenic 50.0%
TCCAACAGCATCTAGGAGTG+AGG - chr4.3:68898508-68898527 MS.gene88152:CDS 50.0%
TCCTCACTCCTAGATGCTGT+TGG + chr4.3:68898512-68898531 None:intergenic 50.0%
TTGTGGGTCATGGCCATGTT+GGG - chr4.3:68898540-68898559 MS.gene88152:CDS 50.0%
! GAAGGCCAAATCTCAGGTTG+AGG + chr4.3:68898182-68898201 None:intergenic 50.0%
! GATTTGGCCTTCATCAGAGG+GGG - chr4.3:68898190-68898209 MS.gene88152:CDS 50.0%
!! TTGATGGACTCAATGGTGGC+TGG - chr4.3:68898602-68898621 MS.gene88152:CDS 50.0%
CACAGGCTTCAATGCCACAG+AGG + chr4.3:68898136-68898155 None:intergenic 55.0%
CACCACCTCCAACAGCATCT+AGG - chr4.3:68898501-68898520 MS.gene88152:CDS 55.0%
CTAGATGCTGTTGGAGGTGG+TGG + chr4.3:68898503-68898522 None:intergenic 55.0%
CTCCTAGATGCTGTTGGAGG+TGG + chr4.3:68898506-68898525 None:intergenic 55.0%
GCTGAACTTAGCACCCTCTG+TGG - chr4.3:68898119-68898138 MS.gene88152:CDS 55.0%
GTGCACGAGACAGTGCCCTT+TGG - chr4.3:68898629-68898648 MS.gene88152:CDS 60.0%
! GATGCTGTTGGAGGTGGTGG+TGG + chr4.3:68898500-68898519 None:intergenic 60.0%


Chromosome Type Strat End Strand Name
chr4.3 gene 68898023 68898691 68898023 ID=MS.gene88152
chr4.3 mRNA 68898023 68898691 68898023 ID=MS.gene88152.t1;Parent=MS.gene88152
chr4.3 exon 68898023 68898691 68898023 ID=MS.gene88152.t1.exon1;Parent=MS.gene88152.t1
chr4.3 CDS 68898023 68898691 68898023 ID=cds.MS.gene88152.t1;Parent=MS.gene88152.t1
Gene Sequence

>MS.gene88152

ATGGCTAGAAGTAAGGTTAAACTCGCCTTCATTGTCAATGATGCTGCAAGGAAAGCAACATACAAAAAAAGAACAAAGGGTCTATTGAAAAAGGTTGCTGAACTTAGCACCCTCTGTGGCATTGAAGCCTGTGCCATAGTGTATGGCTCTTATGAGCCTCAACCTGAGATTTGGCCTTCATCAGAGGGGGTTCAATCTGTGCTCTCAAAATTCATGACGATGCACGAGTTTCAAAAGTGCAAGAAAATGATGAACCAAGAGACTTTCTTGACACAAAGGATTCTGAAGGCTGAAGAGAAATTGAAGAAACAAAGAAAAGAAAATAGGGAGCAAGAGATGACAATACTCATGTCTCATTGTCTCAATGAAGGTAGAGTTGTGCACGACAATATGTCAACGGTTGATTTGAGTTATCTTACTTGGTTGATTGACCATAATCTGAAGGACATTGGTAGACGTTTGGCGGCAACAGTGCCACCACCACCTCCAACAGCATCTAGGAGTGAGGAAATGGGAATTGTGGGTCATGGCCATGTTGGGATACCTATTAATGATGATGAAATTATGCAAAGTCAATTATTGATGGACTCAATGGTGGCTGGTAATGTGCACGAGACAGTGCCCTTTGGTGAGATCAATTATGGAGTTTGGCCTGATTTACTACCTTGA
Protein sequence

>MS.gene88152.t1

MARSKVKLAFIVNDAARKATYKKRTKGLLKKVAELSTLCGIEACAIVYGSYEPQPEIWPSSEGVQSVLSKFMTMHEFQKCKKMMNQETFLTQRILKAEEKLKKQRKENREQEMTILMSHCLNEGRVVHDNMSTVDLSYLTWLIDHNLKDIGRRLAATVPPPPPTASRSEEMGIVGHGHVGIPINDDEIMQSQLLMDSMVAGNVHETVPFGEINYGVWPDLLP