AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG006498

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG006498 MtrunA17_Chr2g0282051 91.336 277 20 2 1 276 1 274 6.26e-174 481
MsaG006498 MtrunA17_Chr4g0047761 54.949 293 97 10 12 276 35 320 7.29e-81 246
MsaG006498 MtrunA17_Chr3g0127201 66.197 71 23 1 30 99 11 81 6.89e-29 111
MsaG006498 MtrunA17_Chr4g0047001 63.415 82 29 1 48 128 57 138 1.04e-28 112
MsaG006498 MtrunA17_Chr2g0328021 46.212 132 58 4 46 176 62 181 1.25e-28 110
MsaG006498 MtrunA17_Chr8g0374251 59.036 83 31 2 39 120 63 143 1.59e-28 111
MsaG006498 MtrunA17_Chr8g0374111 58.750 80 27 3 44 121 27 102 5.09e-27 105
MsaG006498 MtrunA17_Chr7g0223311 67.568 74 19 2 38 106 69 142 6.50e-27 107
MsaG006498 MtrunA17_Chr8g0346551 58.108 74 30 1 28 100 6 79 9.41e-27 105
MsaG006498 MtrunA17_Chr2g0326001 77.193 57 12 1 44 99 38 94 1.42e-26 105
MsaG006498 MtrunA17_Chr2g0282511 83.673 49 8 0 45 93 44 92 1.79e-26 105
MsaG006498 MtrunA17_Chr4g0031411 55.682 88 33 2 45 127 74 160 1.91e-26 105
MsaG006498 MtrunA17_Chr8g0367161 60.870 69 26 1 40 107 26 94 2.04e-26 105
MsaG006498 MtrunA17_Chr8g0341671 60.811 74 22 1 20 93 1 67 3.35e-26 102
MsaG006498 MtrunA17_Chr4g0010151 53.846 91 34 2 45 127 81 171 3.47e-26 105
MsaG006498 MtrunA17_Chr1g0188851 59.420 69 27 1 32 99 29 97 4.52e-26 103
MsaG006498 MtrunA17_Chr4g0030051 77.193 57 12 1 42 97 37 93 1.15e-25 102
MsaG006498 MtrunA17_Chr3g0126201 74.138 58 14 1 45 101 50 107 1.24e-25 103
MsaG006498 MtrunA17_Chr7g0237921 79.245 53 10 1 48 99 78 130 1.39e-25 103
MsaG006498 MtrunA17_Chr4g0061761 80.000 50 10 0 44 93 38 87 3.24e-25 102
MsaG006498 MtrunA17_Chr2g0308011 79.592 49 10 0 45 93 36 84 5.81e-25 99.0
MsaG006498 MtrunA17_Chr1g0177251 56.627 83 35 1 47 128 13 95 6.99e-25 100
MsaG006498 MtrunA17_Chr3g0092111 44.444 99 55 0 48 146 138 236 8.55e-24 100
MsaG006498 MtrunA17_Chr5g0411951 75.000 48 12 0 46 93 43 90 2.69e-23 97.1
MsaG006498 MtrunA17_Chr3g0117601 46.789 109 41 4 1 93 1 108 2.71e-23 97.1
MsaG006498 MtrunA17_Chr6g0460731 54.118 85 35 2 46 129 96 177 9.46e-23 96.3
MsaG006498 MtrunA17_Chr7g0217581 74.074 54 13 1 46 98 232 285 1.11e-22 97.4
MsaG006498 MtrunA17_Chr4g0042481 66.102 59 19 1 46 103 122 180 1.11e-22 97.1
MsaG006498 MtrunA17_Chr2g0282441 78.261 46 10 0 48 93 27 72 1.79e-22 95.1
MsaG006498 MtrunA17_Chr6g0460721 67.857 56 17 1 46 100 89 144 2.00e-22 94.7
MsaG006498 MtrunA17_Chr2g0283811 62.963 54 20 0 46 99 47 100 4.38e-22 90.1
MsaG006498 MtrunA17_Chr7g0254161 67.857 56 17 1 46 100 101 156 4.67e-22 94.7
MsaG006498 MtrunA17_Chr6g0453321 73.077 52 13 1 48 98 138 189 4.93e-22 95.1
MsaG006498 MtrunA17_Chr5g0417571 58.209 67 27 1 33 98 125 191 1.34e-21 92.4
MsaG006498 MtrunA17_Chr8g0355261 49.333 75 37 1 48 121 120 194 1.90e-21 93.2
MsaG006498 MtrunA17_Chr5g0417601 58.209 67 27 1 33 98 127 193 5.69e-20 88.6
MsaG006498 MtrunA17_Chr5g0417561 69.231 52 15 1 48 98 121 172 6.76e-20 88.2
MsaG006498 MtrunA17_Chr5g0417551 63.793 58 20 1 48 104 129 186 7.85e-20 88.2
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG006498 AT1G28310.1 65.060 83 28 1 20 101 1 83 3.72e-29 112
MsaG006498 AT1G28310.2 65.060 83 28 1 20 101 25 107 6.58e-29 112
MsaG006498 AT5G66940.1 60.274 73 27 1 42 112 28 100 9.70e-28 107
MsaG006498 AT5G60850.1 59.770 87 31 2 34 116 36 122 1.88e-27 108
MsaG006498 AT5G60200.1 57.447 94 32 3 19 111 32 118 2.76e-27 106
MsaG006498 AT3G55370.2 66.667 66 21 1 45 109 75 140 2.78e-27 108
MsaG006498 AT3G55370.1 66.667 66 21 1 45 109 75 140 2.93e-27 108
MsaG006498 AT3G55370.3 66.667 66 21 1 45 109 120 185 3.06e-27 108
MsaG006498 AT1G51700.1 38.125 160 86 4 33 179 16 175 3.80e-27 104
MsaG006498 AT3G61850.2 75.439 57 13 1 44 99 60 116 1.95e-26 105
MsaG006498 AT3G61850.3 75.439 57 13 1 44 99 60 116 1.95e-26 105
MsaG006498 AT2G28510.1 77.193 57 12 1 44 99 46 102 2.15e-26 105
MsaG006498 AT3G61850.1 75.439 57 13 1 44 99 72 128 2.29e-26 105
MsaG006498 AT3G61850.5 75.439 57 13 1 44 99 60 116 2.96e-26 105
MsaG006498 AT3G45610.1 48.958 96 43 2 44 133 38 133 3.22e-26 103
MsaG006498 AT3G61850.4 75.439 57 13 1 44 99 72 128 3.80e-26 105
MsaG006498 AT3G50410.1 64.789 71 18 2 30 99 20 84 4.02e-26 103
MsaG006498 AT2G37590.1 61.429 70 24 2 35 101 76 145 9.01e-26 104
MsaG006498 AT4G24060.1 73.684 57 14 1 44 99 51 107 1.42e-25 103
MsaG006498 AT1G64620.1 57.692 78 31 1 16 93 21 96 3.13e-25 103
MsaG006498 AT1G07640.1 70.690 58 15 1 46 101 21 78 3.41e-25 101
MsaG006498 AT2G28810.2 77.551 49 11 0 45 93 76 124 3.49e-25 102
MsaG006498 AT3G21270.1 79.245 53 10 1 46 97 29 81 4.77e-25 99.4
MsaG006498 AT2G28810.1 77.551 49 11 0 45 93 93 141 5.34e-25 102
MsaG006498 AT4G38000.1 50.617 81 35 1 45 125 40 115 5.41e-25 100
MsaG006498 AT1G07640.2 70.690 58 15 1 46 101 77 134 5.57e-25 102
MsaG006498 AT4G21050.1 66.129 62 20 1 48 108 26 87 6.28e-25 99.4
MsaG006498 AT5G02460.1 73.214 56 14 1 45 99 94 149 6.47e-25 102
MsaG006498 AT1G07640.3 70.690 58 15 1 46 101 85 142 6.79e-25 102
MsaG006498 AT1G21340.1 55.128 78 31 2 25 101 20 94 1.80e-24 99.4
MsaG006498 AT5G65590.1 61.111 72 24 2 29 99 27 95 2.00e-24 100
MsaG006498 AT2G46590.1 74.000 50 13 0 44 93 66 115 4.02e-24 100
MsaG006498 AT2G46590.2 74.000 50 13 0 44 93 78 127 4.52e-24 100
MsaG006498 AT3G52440.1 68.966 58 17 1 48 104 27 84 1.16e-23 96.7
MsaG006498 AT3G52440.2 68.966 58 17 1 48 104 46 103 1.75e-23 96.7
MsaG006498 AT4G00940.1 67.241 58 18 1 44 100 66 123 6.17e-23 95.9
MsaG006498 AT4G00940.3 67.241 58 18 1 44 100 66 123 6.17e-23 95.9
MsaG006498 AT4G00940.2 67.241 58 18 1 44 100 66 123 6.17e-23 95.9
MsaG006498 AT3G47500.1 76.923 52 11 1 48 98 112 163 6.49e-23 97.8
MsaG006498 AT5G39660.3 53.947 76 35 0 48 123 140 215 1.01e-22 97.4
MsaG006498 AT5G39660.1 53.947 76 35 0 48 123 140 215 1.01e-22 97.4
MsaG006498 AT5G39660.2 53.947 76 35 0 48 123 140 215 1.01e-22 97.4
MsaG006498 AT5G62430.1 67.742 62 15 2 48 108 56 113 1.19e-22 95.1
MsaG006498 AT4G21040.1 64.286 56 20 0 48 103 27 82 1.40e-22 93.6
MsaG006498 AT1G47655.1 70.000 50 15 0 44 93 27 76 1.47e-22 92.8
MsaG006498 AT1G69570.1 72.222 54 14 1 46 98 132 185 1.85e-22 96.3
MsaG006498 AT5G62940.1 78.261 46 10 0 48 93 75 120 3.05e-22 95.1
MsaG006498 AT1G26790.1 73.077 52 13 1 48 98 113 164 5.02e-22 94.7
MsaG006498 AT4G21080.1 51.471 68 33 0 48 115 27 94 5.89e-22 92.4
MsaG006498 AT2G34140.1 68.519 54 16 1 46 98 58 111 6.46e-22 90.1
MsaG006498 AT1G29160.1 68.519 54 16 1 46 98 62 115 7.37e-22 90.1
MsaG006498 AT4G21030.1 49.275 69 34 1 48 115 23 91 5.07e-14 69.3

Find 62 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TTGGGAGGATATTGATTCTT+TGG 0.256542 2:+6243247 MsaT006498.1:CDS
TTTCTCATGGGAGGAGTCTT+TGG 0.293343 2:-6242570 None:intergenic
GTTACCACCTGATTGATCTT+TGG 0.308181 2:-6242961 None:intergenic
GTTGTTGTAGTAACAAAATT+TGG 0.316594 2:-6242655 None:intergenic
GGTGGTAACAATGAAGAATT+TGG 0.329209 2:+6242975 MsaT006498.1:CDS
GTCATTTGAGGTGGTGGTGG+AGG 0.372781 2:-6242847 None:intergenic
TCTTGCAAGCTCTGCAGAAA+TGG 0.390626 2:-6242698 None:intergenic
AACAATGAAGAATTTGGTAT+TGG 0.395188 2:+6242981 MsaT006498.1:CDS
TTTGATCTTGCAACAAGGTT+TGG 0.402739 2:-6242536 None:intergenic
ATTCTGCCTGTTGTCATTTG+AGG 0.406425 2:-6242859 None:intergenic
TCCATGCCACTACTTGTTGC+AGG 0.407180 2:-6243206 None:intergenic
AGAATGGGAATATAAAGCTT+TGG 0.413450 2:-6243046 None:intergenic
AAAGAGCTTGAGTTTGAGAA+TGG 0.415643 2:-6243062 None:intergenic
TCATCCAATGGATATAACTA+TGG 0.419434 2:+6243089 MsaT006498.1:CDS
CAACTGATCTAAATGTTCCT+TGG 0.420889 2:+6243273 MsaT006498.1:CDS
TTTCTAGTAGAGGTGTTGAT+TGG 0.423681 2:+6242511 MsaT006498.1:CDS
AACTGATCTAAATGTTCCTT+GGG 0.432000 2:+6243274 MsaT006498.1:CDS
ATGTTCCTGTTGGTGGTGTT+AGG 0.438700 2:+6242751 MsaT006498.1:CDS
CTCAGGAATGTTCCTGTTGG+TGG 0.438781 2:+6242744 MsaT006498.1:CDS
GGACTAAAGGTGGTACTCTC+AGG 0.447007 2:+6242727 MsaT006498.1:CDS
GAGGTGATGCTAATAGAAGT+TGG 0.447374 2:-6242804 None:intergenic
TTCTTCCTAACACCACCAAC+AGG 0.450348 2:-6242756 None:intergenic
TTCACCATAGTTATATCCAT+TGG 0.450485 2:-6243093 None:intergenic
GCATGGATATGTCAAACTAT+TGG 0.455144 2:+6243222 MsaT006498.1:CDS
ATTTGAGGTGGTGGTGGAGG+AGG 0.457027 2:-6242844 None:intergenic
GTATTTGTAGAGTCACATCT+TGG 0.471158 2:-6242633 None:intergenic
GCAGAGCTTGCAAGAGACAT+TGG 0.471598 2:+6242706 MsaT006498.1:CDS
GTTGTCATTTGAGGTGGTGG+TGG 0.475259 2:-6242850 None:intergenic
CCTGTTGTCATTTGAGGTGG+TGG 0.483435 2:-6242853 None:intergenic
TTGGTACTCATTAGATTCTG+TGG 0.490071 2:-6242942 None:intergenic
CCACCACCTCAAATGACAAC+AGG 0.496169 2:+6242853 MsaT006498.1:CDS
ATGAGTACCAAAGATCAATC+AGG 0.500364 2:+6242954 MsaT006498.1:CDS
TATGTCAAACTATTGGAGTT+GGG 0.508899 2:+6243229 MsaT006498.1:CDS
TGCAAGAGACATTGGACTAA+AGG 0.515682 2:+6242714 MsaT006498.1:CDS
AAGAGCTTGAGTTTGAGAAT+GGG 0.526214 2:-6243061 None:intergenic
TGGTGAAGAGTTTAAAGTAA+TGG 0.531149 2:+6243109 MsaT006498.1:CDS
ATATGTCAAACTATTGGAGT+TGG 0.531877 2:+6243228 MsaT006498.1:CDS
ATGCCAAGCACTAGTGGTAG+TGG 0.534649 2:+6243158 MsaT006498.1:CDS
GTGGCACTATTACACATCCA+TGG 0.536686 2:+6243177 MsaT006498.1:CDS
ATAGATTCATGCATAGAAGA+AGG 0.541676 2:-6242894 None:intergenic
CTGCCTGTTGTCATTTGAGG+TGG 0.547681 2:-6242856 None:intergenic
TGAAGAGTTTAAAGTAATGG+AGG 0.549976 2:+6243112 MsaT006498.1:CDS
TCTAAGCAAGTTTCTAGTAG+AGG 0.557594 2:+6242501 MsaT006498.1:CDS
ACCTGCAACAAGTAGTGGCA+TGG 0.573077 2:+6243205 MsaT006498.1:CDS
TTCTGTGGTGGCAACAAAGA+TGG 0.580745 2:-6242927 None:intergenic
GTGCCACTACCACTAGTGCT+TGG 0.582189 2:-6243161 None:intergenic
CTTGTTGCAGGTATCTCCCA+TGG 0.587087 2:-6243194 None:intergenic
GAGATACCTGCAACAAGTAG+TGG 0.600865 2:+6243200 MsaT006498.1:CDS
ACTCTCAGGAATGTTCCTGT+TGG 0.606251 2:+6242741 MsaT006498.1:CDS
GTACTCATTAGATTCTGTGG+TGG 0.610936 2:-6242939 None:intergenic
AGTGCAATGCCAAGCACTAG+TGG 0.615832 2:+6243152 MsaT006498.1:CDS
TTCATGCATAGAAGAAGGTG+TGG 0.623493 2:-6242889 None:intergenic
TGGCACTATTACACATCCAT+GGG 0.627148 2:+6243178 MsaT006498.1:CDS
CAAGCTCTGCAGAAATGGCG+AGG 0.631289 2:-6242693 None:intergenic
AGCTCTTTAAGATCATCCAA+TGG 0.640870 2:+6243077 MsaT006498.1:CDS
CTTGTTGCAAGATCAAAACA+TGG 0.647907 2:+6242542 MsaT006498.1:CDS
AAGAGACATTGGACTAAAGG+TGG 0.661565 2:+6242717 MsaT006498.1:CDS
GTCAAACTATTGGAGTTGGG+AGG 0.665707 2:+6243232 MsaT006498.1:CDS
GCAACAAAATCAGCAACTAG+AGG 0.669254 2:+6242599 MsaT006498.1:CDS
TTGATATCAGAATCATCCCA+AGG 0.669368 2:-6243290 None:intergenic
AGTACCAAAGATCAATCAGG+TGG 0.670824 2:+6242957 MsaT006498.1:CDS
TGTGGTGGCAACAAAGATGG+TGG 0.671597 2:-6242924 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr2 gene 6242489 6243319 6242489 ID=MsaG006498
Chr2 mRNA 6242489 6243319 6242489 ID=MsaT006498.1;Parent=MsaG006498
Chr2 exon 6242489 6243319 6242489 ID=MsaT006498.1.exon1;Parent=MsaT006498.1
Chr2 CDS 6242489 6243319 6242489 ID=cds.MsaT006498.1;Parent=MsaT006498.1
Gene Sequence

>MsaT006498.1

ATGGGCTTGAGTTCTAAGCAAGTTTCTAGTAGAGGTGTTGATTGGAACCAAACCTTGTTGCAAGATCAAAACATGGAACTTCCAAAGACTCCTCCCATGAGAAAACAACAGCAACAAAATCAGCAACTAGAGGCAGTGAATTGTCCAAGATGTGACTCTACAAATACCAAATTTTGTTACTACAACAACTATAACAAGTCTCAACCTCGCCATTTCTGCAGAGCTTGCAAGAGACATTGGACTAAAGGTGGTACTCTCAGGAATGTTCCTGTTGGTGGTGTTAGGAAGAATAAGAGAGTCAAGATATCAACTTCTCCAACTTCTATTAGCATCACCTCAAAAACTACTATTAGCACCTCCTCCACCACCACCTCAAATGACAACAGGCAGAATAAAAAAACCACACCTTCTTCTATGCATGAATCTATTATTCATCCACCATCTTTGTTGCCACCACAGAATCTAATGAGTACCAAAGATCAATCAGGTGGTAACAATGAAGAATTTGGTATTGGTAATGACATGTTTCTGAGTTCATCTATGCCTTTTCCTCAAAACCAAAGCTTTATATTCCCATTCTCAAACTCAAGCTCTTTAAGATCATCCAATGGATATAACTATGGTGAAGAGTTTAAAGTAATGGAGGAGTCAACTATTAACAACAGTGCAATGCCAAGCACTAGTGGTAGTGGCACTATTACACATCCATGGGAGATACCTGCAACAAGTAGTGGCATGGATATGTCAAACTATTGGAGTTGGGAGGATATTGATTCTTTGGTCTCAACTGATCTAAATGTTCCTTGGGATGATTCTGATATCAAACCTTGA
Protein sequence

>MsaT006498.1

MGLSSKQVSSRGVDWNQTLLQDQNMELPKTPPMRKQQQQNQQLEAVNCPRCDSTNTKFCYYNNYNKSQPRHFCRACKRHWTKGGTLRNVPVGGVRKNKRVKISTSPTSISITSKTTISTSSTTTSNDNRQNKKTTPSSMHESIIHPPSLLPPQNLMSTKDQSGGNNEEFGIGNDMFLSSSMPFPQNQSFIFPFSNSSSLRSSNGYNYGEEFKVMEESTINNSAMPSTSGSGTITHPWEIPATSSGMDMSNYWSWEDIDSLVSTDLNVPWDDSDIKP*