AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG006534

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG006534 MtrunA17_Chr2g0282441 84.726 347 28 4 1 333 1 336 1.29e-164 462
MsaG006534 MtrunA17_Chr2g0328021 65.556 90 25 2 12 95 45 134 9.25e-34 125
MsaG006534 MtrunA17_Chr8g0346551 65.882 85 28 1 19 102 17 101 1.32e-32 122
MsaG006534 MtrunA17_Chr4g0030051 77.941 68 12 2 11 76 26 92 4.31e-31 118
MsaG006534 MtrunA17_Chr7g0223311 56.863 102 33 2 11 111 62 153 4.36e-31 120
MsaG006534 MtrunA17_Chr8g0367161 82.540 63 10 1 26 88 33 94 6.14e-31 119
MsaG006534 MtrunA17_Chr4g0047001 65.882 85 18 2 26 100 56 139 7.63e-30 117
MsaG006534 MtrunA17_Chr2g0326001 78.689 61 10 1 22 79 34 94 8.82e-30 115
MsaG006534 MtrunA17_Chr3g0127201 75.385 65 13 1 19 80 18 82 1.36e-29 114
MsaG006534 MtrunA17_Chr3g0126201 72.308 65 15 1 17 81 46 107 3.60e-29 114
MsaG006534 MtrunA17_Chr3g0117601 83.636 55 9 0 21 75 57 111 4.06e-29 114
MsaG006534 MtrunA17_Chr8g0374251 80.357 56 11 0 23 78 66 121 5.84e-29 114
MsaG006534 MtrunA17_Chr7g0237921 66.216 74 24 1 6 79 58 130 9.73e-29 113
MsaG006534 MtrunA17_Chr5g0411951 84.906 53 8 0 23 75 41 93 1.66e-28 112
MsaG006534 MtrunA17_Chr1g0188851 66.667 69 18 1 18 81 31 99 1.73e-28 111
MsaG006534 MtrunA17_Chr4g0010151 66.667 75 20 2 10 79 62 136 4.22e-28 112
MsaG006534 MtrunA17_Chr4g0061761 88.000 50 6 0 26 75 41 90 4.63e-28 111
MsaG006534 MtrunA17_Chr4g0031411 40.571 175 65 5 22 181 71 221 7.45e-28 110
MsaG006534 MtrunA17_Chr1g0177251 81.132 53 10 0 27 79 14 66 4.44e-27 107
MsaG006534 MtrunA17_Chr2g0308011 87.500 48 6 0 26 73 38 85 7.38e-27 105
MsaG006534 MtrunA17_Chr8g0374111 64.000 75 22 2 22 91 22 96 2.04e-26 104
MsaG006534 MtrunA17_Chr2g0282511 89.583 48 5 0 26 73 46 93 7.51e-26 105
MsaG006534 MtrunA17_Chr8g0341671 72.881 59 16 0 26 84 21 79 8.02e-26 102
MsaG006534 MtrunA17_Chr2g0282051 64.286 70 22 2 14 81 33 101 3.78e-24 99.8
MsaG006534 MtrunA17_Chr3g0092111 68.421 57 18 0 27 83 138 194 7.20e-24 101
MsaG006534 MtrunA17_Chr4g0047761 76.364 55 12 1 27 81 74 127 7.51e-24 99.8
MsaG006534 MtrunA17_Chr7g0217581 72.222 54 15 0 27 80 234 287 2.45e-23 100
MsaG006534 MtrunA17_Chr4g0042481 68.421 57 18 0 27 83 124 180 3.85e-23 99.8
MsaG006534 MtrunA17_Chr6g0453321 53.409 88 32 2 17 95 125 212 7.84e-23 99.0
MsaG006534 MtrunA17_Chr7g0254161 52.778 72 34 0 7 78 83 154 1.06e-22 97.8
MsaG006534 MtrunA17_Chr2g0283811 71.154 52 15 0 27 78 49 100 1.48e-22 92.4
MsaG006534 MtrunA17_Chr8g0355261 64.815 54 19 0 27 80 120 173 2.51e-22 97.1
MsaG006534 MtrunA17_Chr6g0460731 67.925 53 17 0 26 78 97 149 2.68e-22 96.3
MsaG006534 MtrunA17_Chr6g0460721 64.815 54 19 0 26 79 90 143 4.62e-22 95.1
MsaG006534 MtrunA17_Chr5g0417571 53.247 77 32 1 4 80 121 193 1.35e-20 90.9
MsaG006534 MtrunA17_Chr5g0417551 65.517 58 20 0 27 84 129 186 4.16e-20 90.1
MsaG006534 MtrunA17_Chr5g0417601 67.308 52 17 0 27 78 142 193 5.15e-20 89.7
MsaG006534 MtrunA17_Chr5g0417561 64.407 59 21 0 27 85 121 179 1.05e-19 88.6
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG006534 AT5G60850.1 63.043 92 28 2 18 109 44 129 9.55e-33 124
MsaG006534 AT5G60200.1 73.529 68 14 1 22 85 48 115 4.35e-32 120
MsaG006534 AT5G62940.1 75.362 69 12 1 7 75 60 123 8.00e-32 122
MsaG006534 AT2G28510.1 77.419 62 14 0 23 84 46 107 1.61e-30 117
MsaG006534 AT1G51700.1 70.270 74 19 2 26 99 34 104 8.68e-30 113
MsaG006534 AT1G07640.1 67.568 74 22 1 8 79 2 75 1.01e-29 115
MsaG006534 AT1G07640.2 67.568 74 22 1 8 79 58 131 1.43e-29 115
MsaG006534 AT1G07640.3 67.568 74 22 1 8 79 66 139 1.70e-29 115
MsaG006534 AT5G65590.1 43.373 166 73 4 15 177 31 178 1.78e-29 115
MsaG006534 AT3G61850.2 62.353 85 29 2 19 102 55 137 1.80e-29 114
MsaG006534 AT3G61850.3 62.353 85 29 2 19 102 55 137 1.80e-29 114
MsaG006534 AT3G52440.1 72.727 66 18 0 27 92 27 92 2.31e-29 113
MsaG006534 AT3G61850.1 62.353 85 29 2 19 102 67 149 2.45e-29 114
MsaG006534 AT3G52440.2 72.727 66 18 0 27 92 46 111 2.64e-29 113
MsaG006534 AT3G61850.5 62.353 85 29 2 19 102 55 137 2.67e-29 114
MsaG006534 AT3G61850.4 62.353 85 29 2 19 102 67 149 3.37e-29 114
MsaG006534 AT2G28810.2 64.789 71 25 0 6 76 58 128 7.66e-29 114
MsaG006534 AT2G37590.1 78.571 56 12 0 26 81 90 145 8.58e-29 114
MsaG006534 AT3G45610.1 68.750 64 20 0 23 86 38 101 9.54e-29 111
MsaG006534 AT2G28810.1 64.789 71 25 0 6 76 75 145 1.14e-28 113
MsaG006534 AT4G21050.1 67.647 68 22 0 22 89 21 88 1.93e-28 110
MsaG006534 AT3G55370.1 76.667 60 14 0 27 86 78 137 2.31e-28 112
MsaG006534 AT5G66940.1 50.000 110 50 3 27 131 34 143 2.53e-28 110
MsaG006534 AT3G55370.2 76.667 60 14 0 27 86 78 137 2.95e-28 112
MsaG006534 AT3G55370.3 65.753 73 22 1 17 86 110 182 3.80e-28 112
MsaG006534 AT1G28310.1 82.143 56 10 0 26 81 28 83 5.96e-28 111
MsaG006534 AT1G21340.1 77.586 58 13 0 27 84 40 97 5.97e-28 110
MsaG006534 AT4G00940.1 77.193 57 13 0 23 79 66 122 9.82e-28 110
MsaG006534 AT4G00940.3 77.193 57 13 0 23 79 66 122 9.82e-28 110
MsaG006534 AT4G00940.2 77.193 57 13 0 23 79 66 122 9.82e-28 110
MsaG006534 AT1G28310.2 82.143 56 10 0 26 81 52 107 1.04e-27 110
MsaG006534 AT5G02460.1 60.870 92 35 1 26 117 96 186 1.87e-27 111
MsaG006534 AT3G21270.1 86.275 51 7 0 26 76 30 80 8.39e-27 105
MsaG006534 AT4G24060.1 75.439 57 14 0 23 79 51 107 2.32e-26 107
MsaG006534 AT4G38000.1 49.167 120 41 3 26 143 42 143 2.48e-26 105
MsaG006534 AT3G50410.1 78.947 57 11 1 27 82 32 88 2.52e-26 105
MsaG006534 AT2G46590.1 76.364 55 12 1 19 72 61 115 1.06e-24 103
MsaG006534 AT1G64620.1 67.742 62 15 1 18 74 37 98 1.06e-24 103
MsaG006534 AT1G47655.1 76.471 51 12 0 23 73 27 77 1.11e-24 99.8
MsaG006534 AT2G46590.2 76.364 55 12 1 19 72 73 127 1.14e-24 103
MsaG006534 AT5G62430.1 51.250 80 36 1 2 78 28 107 3.92e-23 97.8
MsaG006534 AT3G47500.1 72.222 54 15 0 27 80 112 165 4.45e-23 99.8
MsaG006534 AT4G21040.1 61.194 67 26 0 27 93 27 93 7.03e-23 95.5
MsaG006534 AT1G69570.1 59.701 67 27 0 12 78 119 185 7.44e-23 98.6
MsaG006534 AT5G39660.3 59.420 69 24 1 10 78 127 191 1.44e-22 98.2
MsaG006534 AT5G39660.1 59.420 69 24 1 10 78 127 191 1.44e-22 98.2
MsaG006534 AT5G39660.2 59.420 69 24 1 10 78 127 191 1.44e-22 98.2
MsaG006534 AT2G34140.1 59.155 71 26 1 11 78 41 111 2.22e-22 92.4
MsaG006534 AT1G29160.1 61.194 67 23 1 15 78 49 115 3.41e-22 92.0
MsaG006534 AT4G21080.1 64.912 57 19 1 27 83 27 82 1.90e-21 92.0
MsaG006534 AT1G26790.1 67.308 52 17 0 27 78 113 164 8.23e-21 92.4
MsaG006534 AT4G21030.1 50.000 72 36 0 22 93 18 89 1.66e-16 77.0

Find 90 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GAGCCTCTGATCAATCTTTA+TGG 0.208599 2:+6588618 MsaT006534.1:CDS
GGTAGCGGTGGTGTTGCTGC+TGG 0.285628 2:+6588731 MsaT006534.1:CDS
GGGTAGTGGATCTGCTTCTT+TGG 0.299081 2:+6588754 MsaT006534.1:CDS
CAACATTGAAACCTTGTAAA+AGG 0.337370 2:-6588373 None:intergenic
GTAGCGGTGGTGTTGCTGCT+GGG 0.368263 2:+6588732 MsaT006534.1:CDS
ATTGGTGTTGGTGCTGGTGC+TGG 0.371549 2:+6588689 MsaT006534.1:CDS
CTTCTTTGGCTCTGAATCAA+TGG 0.377878 2:+6588768 MsaT006534.1:CDS
GTTGGAGTTGGTGTTGGTCT+TGG 0.379165 2:+6588332 MsaT006534.1:CDS
TGGTGTTGAGGATGAAGTTT+TGG 0.384562 2:-6588060 None:intergenic
TTCTTTCAACTAGGTGGTAA+TGG 0.386741 2:+6588452 MsaT006534.1:CDS
AATCAATGGCATGATCTGTC+TGG 0.392409 2:+6588782 MsaT006534.1:CDS
TTGCTACTTACAATGAAAGT+TGG 0.396849 2:+6588564 MsaT006534.1:CDS
TTCCCTAAGGAATTACTTGA+TGG 0.409259 2:-6588080 None:intergenic
TGAAAGAATTGTTGCGGCGG+TGG 0.414683 2:-6588437 None:intergenic
ACACCATCAAGTAATTCCTT+AGG 0.417503 2:+6588077 MsaT006534.1:CDS
CCACTATTGATGAAGCTTTG+AGG 0.422498 2:-6588587 None:intergenic
ATCAACACCACTTCAACTAA+TGG 0.426570 2:+6588647 MsaT006534.1:CDS
TGTTGCGGCGGTGGACGATT+CGG 0.426876 2:-6588428 None:intergenic
GTTGGTGTTGGAGTTGGTGT+TGG 0.430153 2:+6588326 MsaT006534.1:CDS
GCTGGTGGTAGCCGTGGTGC+TGG 0.442217 2:+6588707 MsaT006534.1:CDS
CCATCGCAGCCATGGTCAAC+TGG 0.443933 2:-6588142 None:intergenic
GCAAAACATGCAGAAGGTAC+TGG 0.452080 2:+6587976 MsaT006534.1:CDS
GAAAGGATTGGTGTTGGTGC+TGG 0.452826 2:+6588683 MsaT006534.1:CDS
GAATGATTAAATGCCGCAAA+AGG 0.453309 2:-6588245 None:intergenic
AGCCGTGGTGCTGGTGGTAG+CGG 0.461359 2:+6588716 MsaT006534.1:CDS
CAGAATGTTGGTGTTGGAGT+TGG 0.465123 2:+6588320 MsaT006534.1:CDS
GTAGCATTAACCATGCTAGA+TGG 0.472281 2:-6588521 None:intergenic
CACCATCAAGTAATTCCTTA+GGG 0.476186 2:+6588078 MsaT006534.1:CDS
TAGCGGTGGTGTTGCTGCTG+GGG 0.478385 2:+6588733 MsaT006534.1:CDS
GTGGCAGTGTTGGCTGAGAC+AGG 0.487687 2:-6588109 None:intergenic
TCCACCACCATTAGTTGAAG+TGG 0.494139 2:-6588654 None:intergenic
TGTTGGTGGTGGTTGTCGTA+AGG 0.494164 2:+6588028 MsaT006534.1:CDS
CCTCAAAGCTTCATCAATAG+TGG 0.497822 2:+6588587 MsaT006534.1:CDS
TTACGACAACCACCACCAAC+AGG 0.505491 2:-6588026 None:intergenic
CTAGGACACTTCTGAGGTTG+AGG 0.509691 2:-6587885 None:intergenic
AGAAATGTTCCTGTTGGTGG+TGG 0.514308 2:+6588017 MsaT006534.1:CDS
CTCAACCTCAGAAGTGTCCT+AGG 0.514646 2:+6587886 MsaT006534.1:CDS
CCGCAACAATTCTTTCAACT+AGG 0.517280 2:+6588443 MsaT006534.1:CDS
TTTGAACAGTCTCAGAATGT+TGG 0.527603 2:+6588308 MsaT006534.1:CDS
CCAGTTGACCATGGCTGCGA+TGG 0.534868 2:+6588142 MsaT006534.1:CDS
TTGAGAAATGTTCCTGTTGG+TGG 0.536092 2:+6588014 MsaT006534.1:CDS
TCGGTTGATTGTGGCAGTGT+TGG 0.542995 2:-6588119 None:intergenic
ACCACTTCAACTAATGGTGG+TGG 0.543681 2:+6588653 MsaT006534.1:CDS
TTTGATTCCTCCATCTAGCA+TGG 0.549167 2:+6588511 MsaT006534.1:CDS
CGCAGCCATGGTCAACTGGT+CGG 0.551583 2:-6588138 None:intergenic
ATCAATGGCATGATCTGTCT+GGG 0.564597 2:+6588783 MsaT006534.1:CDS
AAGAACGTGGTGATGGTGGA+AGG 0.564755 2:+6587829 MsaT006534.1:CDS
AGCGGTGGTGTTGCTGCTGG+GGG 0.569854 2:+6588734 MsaT006534.1:CDS
GTTGTTGTAATAGCAGAACT+TGG 0.576616 2:-6587925 None:intergenic
GGTGTTGGTGCTGGTGCTGG+TGG 0.577339 2:+6588692 MsaT006534.1:CDS
TGTGCTGAAGAGTGTGCTGA+TGG 0.579842 2:-6588281 None:intergenic
TGCAGAAGGTACTGGACTCA+AGG 0.580923 2:+6587984 MsaT006534.1:CDS
CGTGGTGATGGTGGAAGGAG+AGG 0.581943 2:+6587834 MsaT006534.1:CDS
GTTGGTGGTGGTTGTCGTAA+GGG 0.586036 2:+6588029 MsaT006534.1:CDS
GTCAACTGGTCGGTTGATTG+TGG 0.591951 2:-6588128 None:intergenic
ATTCAAACCTCGTGGTTCAG+AGG 0.592802 2:-6588489 None:intergenic
CGTGGTGCTGGTGGTAGCGG+TGG 0.594465 2:+6588719 MsaT006534.1:CDS
GAGCAAGAACGTGGTGATGG+TGG 0.595958 2:+6587825 MsaT006534.1:CDS
GCTGGTGCTGGTGGTAGCCG+TGG 0.599832 2:+6588701 MsaT006534.1:CDS
CAGTCTCAGAATGTTGGTGT+TGG 0.601097 2:+6588314 MsaT006534.1:CDS
GGTGGTAGCCGTGGTGCTGG+TGG 0.612351 2:+6588710 MsaT006534.1:CDS
CAACAATTCTTTCAACTAGG+TGG 0.614943 2:+6588446 MsaT006534.1:CDS
GGAATTACTTGATGGTGTTG+AGG 0.615613 2:-6588072 None:intergenic
TCTTCTGCAAAACATGCAGA+AGG 0.615692 2:+6587970 MsaT006534.1:CDS
GGTGGAAATTCTGAAAGGAT+TGG 0.619425 2:+6588671 MsaT006534.1:CDS
AGAAGAAACGAGGCTGAGAG+AGG 0.619615 2:-6587953 None:intergenic
ATGGAGCAAGAACGTGGTGA+TGG 0.620486 2:+6587822 MsaT006534.1:CDS
CGTGGTTCAGAGGTAAACAT+TGG 0.628309 2:-6588479 None:intergenic
ATGGTGGTGGAAATTCTGAA+AGG 0.635909 2:+6588666 MsaT006534.1:CDS
AATTCTGAAAGGATTGGTGT+TGG 0.637664 2:+6588677 MsaT006534.1:CDS
AACACCACTTCAACTAATGG+TGG 0.642679 2:+6588650 MsaT006534.1:CDS
TTTCAACTAGGTGGTAATGG+AGG 0.647517 2:+6588455 MsaT006534.1:CDS
CCTAGTTGAAAGAATTGTTG+CGG 0.647938 2:-6588443 None:intergenic
CACCGCTACCACCAGCACCA+CGG 0.647987 2:-6588718 None:intergenic
ACATTGAGAAATGTTCCTGT+TGG 0.650180 2:+6588011 MsaT006534.1:CDS
AGACAGGGAAGAATTCCCTA+AGG 0.650183 2:-6588093 None:intergenic
GCATTAACCATGCTAGATGG+AGG 0.653768 2:-6588518 None:intergenic
TCACACCTAGGACACTTCTG+AGG 0.655155 2:-6587891 None:intergenic
ATCAACCGACCAGTTGACCA+TGG 0.659300 2:+6588133 MsaT006534.1:CDS
CATCAACAAGATCACTGAGG+AGG 0.672156 2:-6588812 None:intergenic
GGAATCAAATTCAAACCTCG+TGG 0.678570 2:-6588497 None:intergenic
TGAGAGATGGAGCAAGAACG+TGG 0.685685 2:+6587816 None:intergenic
AGTTGAAAGAATTGTTGCGG+CGG 0.685998 2:-6588440 None:intergenic
TGGCAGTGTTGGCTGAGACA+GGG 0.687589 2:-6588108 None:intergenic
ACTCCATAAAGATTGATCAG+AGG 0.693689 2:-6588621 None:intergenic
GTGTTGAATGAATCACACCT+AGG 0.703840 2:-6587903 None:intergenic
GCTCTTGTAAGCTCATCACA+AGG 0.707366 2:+6588404 MsaT006534.1:CDS
AGAAGGTACTGGACTCAAGG+TGG 0.711298 2:+6587987 MsaT006534.1:CDS
ATGTTTACCTCTGAACCACG+AGG 0.723992 2:+6588482 MsaT006534.1:CDS
CAACATCAACAAGATCACTG+AGG 0.799835 2:-6588815 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr2 gene 6587822 6588823 6587822 ID=MsaG006534
Chr2 mRNA 6587822 6588823 6587822 ID=MsaT006534.1;Parent=MsaG006534
Chr2 exon 6587822 6588823 6587822 ID=MsaT006534.1.exon1;Parent=MsaT006534.1
Chr2 CDS 6587822 6588823 6587822 ID=cds.MsaT006534.1;Parent=MsaT006534.1
Gene Sequence

>MsaT006534.1

ATGGAGCAAGAACGTGGTGATGGTGGAAGGAGAGGTGAGATGAGTAAGCATGTTCAAGCTCATCCTCAACCTCAGAAGTGTCCTAGGTGTGATTCATTCAACACCAAGTTCTGCTATTACAACAACTATAGCCTCTCTCAGCCTCGTTTCTTCTGCAAAACATGCAGAAGGTACTGGACTCAAGGTGGAACATTGAGAAATGTTCCTGTTGGTGGTGGTTGTCGTAAGGGAAAGAAATCCAAAACTTCATCCTCAACACCATCAAGTAATTCCTTAGGGAATTCTTCCCTGTCTCAGCCAACACTGCCACAATCAACCGACCAGTTGACCATGGCTGCGATGGCTAAAAACTCTTCTTCTGTTTTTGCTTCATTTTCCTCTGCTGCTTCTTTTTATCAAGGAGGTGTTGTTGGTTACATGTCGCCTTTTGCGGCATTTAATCATTCGTTGAATTCGAATCCATCAGCACACTCTTCAGCACACACTTTTGAACAGTCTCAGAATGTTGGTGTTGGAGTTGGTGTTGGTCTTGGTTCTTCTTCAAATTTGAGCCTTTTACAAGGTTTCAATGTTGCTGCTGCTGCTCTTGTAAGCTCATCACAAGGACCGAATCGTCCACCGCCGCAACAATTCTTTCAACTAGGTGGTAATGGAGGACCAATGTTTACCTCTGAACCACGAGGTTTGAATTTGATTCCTCCATCTAGCATGGTTAATGCTACTACTTCTGTTGCTACTGATTTTGCTACTTACAATGAAAGTTGGCCTCAAAGCTTCATCAATAGTGGTAACAACAGAGCCTCTGATCAATCTTTATGGAGTACTATCAACACCACTTCAACTAATGGTGGTGGAAATTCTGAAAGGATTGGTGTTGGTGCTGGTGCTGGTGGTAGCCGTGGTGCTGGTGGTAGCGGTGGTGTTGCTGCTGGGGGTAGTGGATCTGCTTCTTTGGCTCTGAATCAATGGCATGATCTGTCTGGGTTCAATCCTCCTCAGTGA
Protein sequence

>MsaT006534.1

MEQERGDGGRRGEMSKHVQAHPQPQKCPRCDSFNTKFCYYNNYSLSQPRFFCKTCRRYWTQGGTLRNVPVGGGCRKGKKSKTSSSTPSSNSLGNSSLSQPTLPQSTDQLTMAAMAKNSSSVFASFSSAASFYQGGVVGYMSPFAAFNHSLNSNPSAHSSAHTFEQSQNVGVGVGVGLGSSSNLSLLQGFNVAAAALVSSSQGPNRPPPQQFFQLGGNGGPMFTSEPRGLNLIPPSSMVNATTSVATDFATYNESWPQSFINSGNNRASDQSLWSTINTTSTNGGGNSERIGVGAGAGGSRGAGGSGGVAAGGSGSASLALNQWHDLSGFNPPQ*