AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG039690

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG039690 MtrunA17_Chr7g0261031 96.875 224 6 1 1 223 1 224 8.64e-166 456
MsaG039690 MtrunA17_Chr1g0184271 71.204 191 45 5 8 194 12 196 1.16e-92 271
MsaG039690 MtrunA17_Chr7g0260971 73.585 106 28 0 3 108 9 114 2.51e-55 176
MsaG039690 MtrunA17_Chr5g0435641 55.782 147 61 2 2 145 1 146 2.14e-52 167
MsaG039690 MtrunA17_Chr8g0351701 50.000 176 65 3 8 162 23 196 7.98e-52 167
MsaG039690 MtrunA17_Chr1g0184281 70.192 104 31 0 5 108 12 115 2.31e-49 160
MsaG039690 MtrunA17_Chr7g0245871 71.287 101 29 0 8 108 27 127 3.65e-49 160
MsaG039690 MtrunA17_Chr8g0351721 66.667 105 35 0 6 110 16 120 1.01e-48 159
MsaG039690 MtrunA17_Chr6g0460951 63.889 108 39 0 7 114 39 146 8.25e-47 154
MsaG039690 MtrunA17_Chr7g0245861 68.817 93 27 2 5 95 9 101 2.56e-40 135
MsaG039690 MtrunA17_Chr3g0114061 43.919 148 80 2 1 148 1 145 2.19e-36 125
MsaG039690 MtrunA17_Chr5g0437571 45.625 160 72 5 4 162 2 147 4.84e-36 125
MsaG039690 MtrunA17_Chr2g0311601 56.000 100 43 1 4 103 9 107 2.94e-34 120
MsaG039690 MtrunA17_Chr4g0043421 52.830 106 49 1 4 109 11 115 7.05e-34 119
MsaG039690 MtrunA17_Chr3g0106101 44.516 155 79 6 4 157 2 150 8.00e-34 119
MsaG039690 MtrunA17_Chr7g0227511 56.122 98 42 1 5 102 8 104 2.61e-33 118
MsaG039690 MtrunA17_Chr5g0437401 41.250 160 76 4 5 164 8 149 6.30e-33 117
MsaG039690 MtrunA17_Chr3g0097221 50.877 114 55 1 2 115 1 113 7.55e-33 120
MsaG039690 MtrunA17_Chr4g0058651 57.292 96 40 1 7 102 10 104 1.14e-32 117
MsaG039690 MtrunA17_Chr5g0438091 53.398 103 45 2 7 108 38 138 1.32e-32 117
MsaG039690 MtrunA17_Chr3g0117121 56.250 96 41 1 7 102 9 103 5.49e-32 115
MsaG039690 MtrunA17_Chr3g0129071 55.446 101 42 2 7 106 46 144 8.80e-32 115
MsaG039690 MtrunA17_Chr6g0460941 59.091 88 36 0 8 95 7 94 2.08e-31 110
MsaG039690 MtrunA17_Chr5g0402611 51.818 110 52 1 1 110 1 109 2.56e-31 116
MsaG039690 MtrunA17_Chr3g0113891 49.515 103 51 1 5 107 11 112 3.93e-31 112
MsaG039690 MtrunA17_Chr6g0449641 53.061 98 45 1 5 102 6 102 4.60e-31 111
MsaG039690 MtrunA17_Chr3g0115431 48.182 110 56 1 1 110 2 110 3.94e-30 111
MsaG039690 MtrunA17_Chr6g0449651 49.524 105 49 2 1 102 57 160 5.54e-29 107
MsaG039690 MtrunA17_Chr4g0030001 53.061 98 44 2 7 103 23 119 1.89e-27 103
MsaG039690 MtrunA17_Chr5g0432451 55.340 103 43 2 7 108 42 142 1.25e-26 102
MsaG039690 MtrunA17_Chr1g0200201 51.579 95 45 1 9 103 73 166 1.66e-26 102
MsaG039690 MtrunA17_Chr8g0353981 55.172 87 38 1 2 88 1 86 2.47e-25 99.0
MsaG039690 MtrunA17_Chr5g0444351 40.000 140 77 3 9 148 6 138 4.52e-25 95.9
MsaG039690 MtrunA17_Chr7g0225111 43.269 104 58 1 7 110 4 106 2.41e-24 93.2
MsaG039690 MtrunA17_Chr8g0374591 40.385 104 61 1 8 111 8 110 3.73e-19 80.1
MsaG039690 MtrunA17_Chr8g0374601 37.500 104 64 1 8 111 26 128 1.10e-18 82.4
MsaG039690 MtrunA17_Chr8g0342351 37.255 102 63 1 9 110 13 113 2.62e-18 80.9
MsaG039690 MtrunA17_Chr4g0059901 37.143 105 65 1 4 108 6 109 6.46e-18 80.1
MsaG039690 MtrunA17_Chr2g0330201 34.579 107 69 1 4 110 15 120 3.62e-17 78.6
MsaG039690 MtrunA17_Chr6g0452691 38.636 88 52 2 2 88 3 89 1.40e-15 72.0
MsaG039690 MtrunA17_Chr4g0040831 27.979 193 115 6 4 178 11 197 1.42e-15 72.4
MsaG039690 MtrunA17_Chr6g0452661 42.353 85 45 3 9 90 10 93 3.02e-15 72.4
MsaG039690 MtrunA17_Chr8g0374581 35.294 102 64 2 8 108 8 108 6.89e-15 71.2
MsaG039690 MtrunA17_Chr6g0452671 34.906 106 65 2 9 111 12 116 1.20e-14 70.1
MsaG039690 MtrunA17_Chr2g0326041 54.167 48 21 1 7 54 32 78 8.17e-12 59.7
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG039690 AT3G58190.1 81.356 118 20 1 8 123 11 128 1.09e-70 215
MsaG039690 AT2G42440.1 74.046 131 32 1 2 130 1 131 1.07e-68 211
MsaG039690 AT2G31310.1 61.972 142 53 1 2 143 1 141 5.82e-60 187
MsaG039690 AT2G42430.1 72.897 107 29 0 4 110 11 117 5.81e-54 173
MsaG039690 AT4G00210.1 58.333 132 54 1 3 133 6 137 2.26e-51 166
MsaG039690 AT3G03760.1 71.569 102 29 0 7 108 50 151 5.20e-50 164
MsaG039690 AT5G06080.1 68.224 107 34 0 2 108 1 107 1.08e-49 160
MsaG039690 AT2G45420.1 74.000 100 26 0 11 110 40 139 2.86e-49 162
MsaG039690 AT4G00220.1 70.000 100 30 0 11 110 20 119 1.85e-46 154
MsaG039690 AT2G45410.1 60.000 115 43 2 11 122 19 133 5.32e-42 141
MsaG039690 AT3G27650.1 57.292 96 40 1 7 102 38 132 6.00e-33 117
MsaG039690 AT2G30130.1 51.695 118 53 3 2 118 1 115 1.54e-32 117
MsaG039690 AT5G63090.4 40.642 187 88 6 7 193 10 173 2.57e-32 116
MsaG039690 AT5G63090.3 40.642 187 88 6 7 193 10 173 2.57e-32 116
MsaG039690 AT5G63090.2 40.642 187 88 6 7 193 10 173 2.57e-32 116
MsaG039690 AT5G63090.1 40.642 187 88 6 7 193 10 173 2.57e-32 116
MsaG039690 AT1G07900.1 53.608 97 44 1 7 103 32 127 1.04e-30 112
MsaG039690 AT3G11090.1 50.980 102 49 1 5 106 8 108 1.17e-30 111
MsaG039690 AT1G31320.1 53.261 92 42 1 4 95 9 99 1.25e-30 111
MsaG039690 AT1G16530.1 48.305 118 58 3 7 122 13 129 2.40e-30 110
MsaG039690 AT2G28500.1 53.608 97 44 1 7 103 54 149 6.29e-30 111
MsaG039690 AT5G66870.1 51.376 109 52 1 2 110 1 108 1.59e-29 112
MsaG039690 AT2G30340.1 51.456 103 47 2 7 108 51 151 5.43e-29 109
MsaG039690 AT2G30340.2 51.456 103 47 2 7 108 52 152 5.79e-29 109
MsaG039690 AT2G23660.2 49.020 102 51 1 7 108 4 104 7.61e-27 105
MsaG039690 AT2G23660.3 49.020 102 51 1 7 108 4 104 7.61e-27 105
MsaG039690 AT2G23660.1 49.020 102 51 1 7 108 4 104 7.61e-27 105
MsaG039690 AT3G26660.1 46.316 95 50 1 9 103 6 99 3.73e-26 98.6
MsaG039690 AT1G65620.1 56.977 86 36 1 3 88 4 88 6.31e-26 100
MsaG039690 AT1G65620.4 56.977 86 36 1 3 88 4 88 6.31e-26 100
MsaG039690 AT1G65620.3 56.977 86 36 1 3 88 4 88 6.31e-26 100
MsaG039690 AT1G65620.5 56.977 86 36 1 3 88 4 88 6.31e-26 100
MsaG039690 AT1G65620.2 56.977 86 36 1 3 88 4 88 6.31e-26 100
MsaG039690 AT3G26620.1 46.316 95 50 1 9 103 6 99 7.16e-26 97.8
MsaG039690 AT2G40470.2 54.369 103 44 2 7 108 19 119 9.64e-26 99.8
MsaG039690 AT2G40470.1 54.369 103 44 2 7 108 44 144 1.36e-25 99.8
MsaG039690 AT3G50510.1 42.478 113 64 1 2 114 6 117 4.20e-25 97.8
MsaG039690 AT3G50510.2 42.478 113 64 1 2 114 6 117 4.20e-25 97.8
MsaG039690 AT3G13850.1 38.136 118 63 3 9 118 37 152 1.31e-18 82.4
MsaG039690 AT1G72980.1 36.190 105 66 1 4 108 9 112 2.39e-16 75.1
MsaG039690 AT5G35900.1 38.235 102 62 1 9 110 6 106 6.83e-16 73.9
MsaG039690 AT3G47870.1 32.381 105 70 1 4 108 32 135 3.00e-14 70.9
MsaG039690 AT1G06280.1 38.667 75 45 1 9 83 25 98 4.30e-13 66.2

Find 47 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AGACTTCAAGATCCAATTTA+TGG 0.151814 7:-91946155 MsaT039690.1:CDS
TTTCCAAAGTTCTTCTCATT+AGG 0.257962 7:+91945547 None:intergenic
CCTTATGAATAGCTGCAAAA+TGG 0.260543 7:+91946273 None:intergenic
ATTAGTGGAAGAAGAGAAAT+CGG 0.262535 7:+91945447 None:intergenic
GCAGCTATTCATAAGGTCTT+TGG 0.287235 7:-91946266 MsaT039690.1:CDS
TGGGCAACACATCCATAAAT+TGG 0.288880 7:+91946143 None:intergenic
TCAACAACACAATATTATAA+TGG 0.305675 7:-91945418 MsaT039690.1:CDS
TTCCAAAGTTCTTCTCATTA+GGG 0.315481 7:+91945548 None:intergenic
CTCATGGATCTAAACCCTAT+TGG 0.344271 7:-91945382 MsaT039690.1:CDS
ATTGGAAACTATGAAAATTC+AGG 0.345302 7:-91945364 MsaT039690.1:CDS
TTTCCTCCTCAAGAATTTGC+AGG 0.357584 7:+91946349 None:intergenic
ATGAGATGCTTTCTTCCAAT+AGG 0.363922 7:+91945338 None:intergenic
TGAAAATTCAGGAACCCTAT+TGG 0.376897 7:-91945353 MsaT039690.1:CDS
ACGGCCATGATGACTGGTTC+TGG 0.395558 7:-91946386 None:intergenic
CAACAACACAATATTATAAT+GGG 0.395664 7:-91945417 MsaT039690.1:CDS
TTGAGGAGGAAATGTGTTAG+AGG 0.402110 7:-91946338 MsaT039690.1:CDS
TGAGATGCTTTCTTCCAATA+GGG 0.428947 7:+91945339 None:intergenic
TCTTGAGGGAGAATATTAGT+AGG 0.429657 7:+91945523 None:intergenic
GAGATGAACAAACCTGTTGC+TGG 0.430997 7:+91946108 None:intergenic
CTTATGAATAGCTGCAAAAT+GGG 0.434815 7:+91946274 None:intergenic
AACCCTAATGAGAAGAACTT+TGG 0.435631 7:-91945550 MsaT039690.1:CDS
ATTCTTACGGCCATGATGAC+TGG 0.446907 7:-91946392 None:intergenic
AATGGGTAGCACCTTGTTCA+TGG 0.448967 7:+91946291 None:intergenic
TGTTGTTGATGAGAGATTAG+TGG 0.463491 7:+91945432 None:intergenic
TCCCTCAAGATCTTCAAAGT+TGG 0.463884 7:-91945510 MsaT039690.1:CDS
CAAATTAGCCACTTACTGAT+AGG 0.482945 7:+91945249 None:intergenic
ACTGGTTCTGGTTCTCCTTG+TGG 0.494488 7:-91946374 MsaT039690.1:CDS
TGGGACTACCACTACTCTCA+TGG 0.512301 7:-91945398 MsaT039690.1:CDS
TCTTCAAAGTTGGTTCCAGA+TGG 0.523638 7:-91945500 MsaT039690.1:CDS
CTGTCTTTGCATGTTGTCAA+AGG 0.524030 7:+91945276 None:intergenic
CCTTGTTCATGGCAAAAGTA+AGG 0.524451 7:+91946302 None:intergenic
AACCAACTTTGAAGATCTTG+AGG 0.528680 7:+91945508 None:intergenic
GCTTCACAACGATCAGTCAC+AGG 0.531664 7:+91946209 None:intergenic
TTAGTGGAAGAAGAGAAATC+GGG 0.531706 7:+91945448 None:intergenic
ACCAACTTTGAAGATCTTGA+GGG 0.534056 7:+91945509 None:intergenic
GTGGAGCCTGCAAATTCTTG+AGG 0.534107 7:-91946355 MsaT039690.1:CDS
AAGAAATTGAGAACACATGT+TGG 0.541417 7:+91945471 None:intergenic
ATTATTACATCGCTCATCAA+AGG 0.565424 7:+91945306 None:intergenic
AGAACCAGAACCAGTCATCA+TGG 0.567393 7:+91946382 None:intergenic
TGAGAGAACAAGCAGCTCAA+AGG 0.584503 7:-91945597 MsaT039690.1:CDS
AAGAATTTGCAGGCTCCACA+AGG 0.586151 7:+91946359 None:intergenic
CAGTCACAGGGAGGTGTGCG+AGG 0.596818 7:+91946222 None:intergenic
GTTTAGATCCATGAGAGTAG+TGG 0.619212 7:+91945390 None:intergenic
GAGCCTGCAAATTCTTGAGG+AGG 0.637179 7:-91946352 MsaT039690.1:CDS
CTTCACAACGATCAGTCACA+GGG 0.652040 7:+91946210 None:intergenic
TTGACAACATGCAAAGACAG+TGG 0.686531 7:-91945273 MsaT039690.1:CDS
CACAACGATCAGTCACAGGG+AGG 0.754403 7:+91946213 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr7 gene 91945261 91946402 91945261 ID=MsaG039690
Chr7 mRNA 91945261 91946402 91945261 ID=MsaT039690.1;Parent=MsaG039690
Chr7 exon 91945261 91945650 91945261 ID=MsaT039690.1.exon2;Parent=MsaT039690.1
Chr7 CDS 91945261 91945650 91945261 ID=cds.MsaT039690.1;Parent=MsaT039690.1
Chr7 exon 91946121 91946402 91946121 ID=MsaT039690.1.exon1;Parent=MsaT039690.1
Chr7 CDS 91946121 91946402 91946121 ID=cds.MsaT039690.1;Parent=MsaT039690.1
Gene Sequence

>MsaT039690.1

ATGATGACTGGTTCTGGTTCTCCTTGTGGAGCCTGCAAATTCTTGAGGAGGAAATGTGTTAGAGGTTGTGTTTTTGCACCTTACTTTTGCCATGAACAAGGTGCTACCCATTTTGCAGCTATTCATAAGGTCTTTGGTGCAAGTAATGTTTCAAAGCTCCTCGCACACCTCCCTGTGACTGATCGTTGTGAAGCTGCAGTCACAATCTCTTATGAAGCTCAAGCTAGACTTCAAGATCCAATTTATGGATGTGTTGCCCATATTTTTGCACTCCAGCAACAGGTAGTCAATTTACAAGCACAGCTAGCTTTTCTGAGAGAACAAGCAGCTCAAAGGTGTCTCAATGCCCCAAATTCTGAAAACCCTAATGAGAAGAACTTTGGAAAACCTACTAATATTCTCCCTCAAGATCTTCAAAGTTGGTTCCAGATGGAAAATTCCAACATGTGTTCTCAATTTCTTCCCGATTTCTCTTCTTCCACTAATCTCTCATCAACAACACAATATTATAATGGGACTACCACTACTCTCATGGATCTAAACCCTATTGGAAACTATGAAAATTCAGGAACCCTATTGGAAGAAAGCATCTCATCATTTTCTACCTTTGATGAGCGATGTAATAATTCAATGTCCTTTGACAACATGCAAAGACAGTGGACCTATCAGTAA
Protein sequence

>MsaT039690.1

MMTGSGSPCGACKFLRRKCVRGCVFAPYFCHEQGATHFAAIHKVFGASNVSKLLAHLPVTDRCEAAVTISYEAQARLQDPIYGCVAHIFALQQQVVNLQAQLAFLREQAAQRCLNAPNSENPNEKNFGKPTNILPQDLQSWFQMENSNMCSQFLPDFSSSTNLSSTTQYYNGTTTTLMDLNPIGNYENSGTLLEESISSFSTFDERCNNSMSFDNMQRQWTYQ*