AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG002465

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG002465 MtrunA17_Chr1g0175021 90.000 230 22 1 116 344 8 237 6.08e-151 424
MsaG002465 MtrunA17_Chr7g0258471 50.898 334 120 11 23 341 91 395 5.02e-82 255
MsaG002465 MtrunA17_Chr1g0175031 92.157 102 6 1 17 118 17 116 1.27e-51 167
MsaG002465 MtrunA17_Chr3g0122411 35.069 288 130 11 8 268 111 368 6.91e-31 121
MsaG002465 MtrunA17_Chr7g0231911 45.255 137 46 3 20 142 101 222 2.23e-26 106
MsaG002465 MtrunA17_Chr8g0334671 42.857 154 62 4 2 144 124 262 4.45e-26 106
MsaG002465 MtrunA17_Chr4g0061651 47.794 136 49 5 20 144 74 198 1.34e-25 107
MsaG002465 MtrunA17_Chr5g0420051 57.955 88 29 2 76 156 181 267 1.45e-25 106
MsaG002465 MtrunA17_Chr3g0132091 37.640 178 92 3 18 176 15 192 3.78e-25 103
MsaG002465 MtrunA17_Chr8g0360361 60.759 79 24 1 76 147 65 143 3.80e-25 100
MsaG002465 MtrunA17_Chr2g0308321 44.366 142 62 5 76 203 171 309 4.86e-25 105
MsaG002465 MtrunA17_Chr4g0046991 63.514 74 20 1 76 142 73 146 1.90e-24 97.4
MsaG002465 MtrunA17_Chr8g0386271 48.544 103 39 2 76 171 99 194 8.87e-24 100
MsaG002465 MtrunA17_Chr2g0282521 62.162 74 21 1 76 142 64 137 3.54e-23 93.6
MsaG002465 MtrunA17_Chr2g0302791 56.098 82 29 1 76 150 139 220 2.14e-22 98.6
MsaG002465 MtrunA17_Chr8g0377401 42.857 133 49 3 16 141 122 234 2.71e-22 94.4
MsaG002465 MtrunA17_Chr7g0224821 47.573 103 41 2 76 171 77 173 2.95e-22 96.3
MsaG002465 MtrunA17_Chr1g0162871 54.545 88 33 1 76 156 104 191 2.45e-21 95.5
MsaG002465 MtrunA17_Chr7g0270541 59.459 74 23 1 76 142 145 218 5.74e-21 94.4
MsaG002465 MtrunA17_Chr1g0194121 60.811 74 22 1 76 142 147 220 1.01e-20 93.6
MsaG002465 MtrunA17_Chr8g0377421 41.085 129 59 4 24 142 84 205 2.27e-19 87.0
MsaG002465 MtrunA17_Chr2g0286661 47.297 74 32 1 76 142 103 176 7.21e-15 75.9
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG002465 AT3G57920.1 41.912 272 104 9 23 277 27 261 1.68e-44 156
MsaG002465 AT2G42200.1 43.548 248 97 11 23 251 32 255 4.95e-43 153
MsaG002465 AT2G33810.1 63.514 74 20 1 76 142 54 127 6.71e-26 100
MsaG002465 AT5G43270.3 47.059 136 51 3 22 145 119 245 7.15e-26 107
MsaG002465 AT5G43270.1 47.059 136 51 3 22 145 119 245 7.15e-26 107
MsaG002465 AT5G43270.2 47.059 136 51 3 22 145 119 245 7.15e-26 107
MsaG002465 AT3G15270.1 57.317 82 28 1 74 148 61 142 4.24e-25 100
MsaG002465 AT1G69170.1 55.340 103 36 3 76 171 124 223 2.29e-24 103
MsaG002465 AT1G27370.6 38.889 162 72 5 13 162 117 263 1.41e-23 100
MsaG002465 AT5G50570.1 44.444 144 65 4 15 145 36 177 1.45e-23 100
MsaG002465 AT5G50570.2 44.444 144 65 4 15 145 36 177 1.45e-23 100
MsaG002465 AT5G50670.1 44.444 144 65 4 15 145 36 177 1.45e-23 100
MsaG002465 AT5G50670.2 44.444 144 65 4 15 145 36 177 1.45e-23 100
MsaG002465 AT1G02065.1 44.186 129 49 3 22 142 148 261 2.04e-23 99.4
MsaG002465 AT2G47070.1 62.338 77 22 1 76 145 106 182 2.92e-23 101
MsaG002465 AT1G53160.3 58.025 81 27 1 74 147 52 132 2.94e-23 95.1
MsaG002465 AT1G27370.1 38.889 162 72 5 13 162 117 263 3.12e-23 99.8
MsaG002465 AT1G27370.5 38.889 162 72 5 13 162 117 263 3.12e-23 99.8
MsaG002465 AT1G27370.3 38.889 162 72 5 13 162 117 263 3.12e-23 99.8
MsaG002465 AT1G27370.2 38.889 162 72 5 13 162 117 263 3.12e-23 99.8
MsaG002465 AT1G27370.4 38.889 162 72 5 13 162 117 263 3.12e-23 99.8
MsaG002465 AT1G27370.7 38.889 162 72 5 13 162 117 263 3.12e-23 99.8
MsaG002465 AT1G53160.2 60.526 76 23 1 74 142 52 127 4.27e-23 94.7
MsaG002465 AT1G53160.1 60.526 76 23 1 74 142 52 127 4.27e-23 94.7
MsaG002465 AT1G27360.2 58.442 77 25 1 75 144 174 250 9.67e-23 98.2
MsaG002465 AT1G27360.1 58.442 77 25 1 75 144 174 250 9.67e-23 98.2
MsaG002465 AT1G27360.3 58.442 77 25 1 75 144 174 250 9.67e-23 98.2
MsaG002465 AT1G27360.4 58.442 77 25 1 75 144 174 250 9.67e-23 98.2
MsaG002465 AT3G60030.1 53.261 92 33 2 67 148 115 206 1.83e-22 99.4
MsaG002465 AT1G20980.1 43.796 137 67 4 69 196 114 249 8.48e-22 97.1
MsaG002465 AT1G76580.2 56.471 85 29 2 71 148 110 193 9.18e-22 97.1
MsaG002465 AT1G76580.1 56.471 85 29 2 71 148 110 193 9.88e-22 97.1
MsaG002465 AT1G76580.3 56.471 85 29 2 71 148 110 193 1.01e-21 96.7
MsaG002465 AT5G18830.2 47.619 84 36 2 68 143 130 213 8.72e-16 79.0
MsaG002465 AT5G18830.3 47.619 84 36 2 68 143 130 213 9.77e-16 79.0
MsaG002465 AT5G18830.1 47.619 84 36 2 68 143 130 213 1.02e-15 79.0
MsaG002465 AT2G47070.2 62.264 53 13 1 100 145 1 53 2.68e-12 68.2
MsaG002465 AT1G02065.2 38.776 98 44 2 22 118 148 230 1.48e-11 64.3

Find 79 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TCTCCTTCTGTTGTTGTTTC+TGG 0.016193 1:-41736547 MsaT002465.1:CDS
TTCAAACAAATGCTTCTTCT+TGG 0.212145 1:-41732960 MsaT002465.1:CDS
TCATTGTAGTTATCCATTAT+TGG 0.242355 1:+41733135 None:intergenic
GCTTTCTCCGCCTTTCATTA+TGG 0.263953 1:+41733724 None:intergenic
ATTTGTTTGAAGATGATAAT+TGG 0.265913 1:+41732972 None:intergenic
CGTTTCCCTTGATCAAATTC+AGG 0.267407 1:+41733771 None:intergenic
TCTTCATCATGTTCATCTTC+AGG 0.272191 1:-41736685 MsaT002465.1:CDS
TTCTGTTGTTGTTTCTGGTT+TGG 0.298755 1:-41736542 MsaT002465.1:CDS
CCCGAGGATGTTCCTGATCT+TGG 0.303604 1:-41732901 MsaT002465.1:CDS
AAAGGTAGAAGAGGAGAGTT+TGG 0.318520 1:+41733668 None:intergenic
AGATCAGCCGAGCCGGTTCC+CGG 0.321219 1:-41733258 MsaT002465.1:CDS
AAACTCTCCTCTTCTACCTT+TGG 0.328520 1:-41733666 MsaT002465.1:intron
TCATCTACCGAGTTTCTTGA+TGG 0.335549 1:-41736814 MsaT002465.1:CDS
CCACCAACACCAACAGCATT+AGG 0.337043 1:+41736718 None:intergenic
TTTCTTGATGGATTAAAGTT+TGG 0.342712 1:-41736802 MsaT002465.1:CDS
TACTAGACATCCTCCAATAA+TGG 0.345407 1:-41733148 MsaT002465.1:CDS
CTGGCACCACCAATGAGTTC+AGG 0.351780 1:-41736868 None:intergenic
CACAAGGCAAGAACCATTAC+TGG 0.360782 1:-41732822 MsaT002465.1:CDS
GGGAAAACGCGAGGTTAAAA+AGG 0.385183 1:+41733689 None:intergenic
CCTAATGCTGTTGGTGTTGG+TGG 0.385726 1:-41736718 MsaT002465.1:CDS
AACAACTTGTTGAATTTCAA+TGG 0.386985 1:-41733027 MsaT002465.1:CDS
CATGGAAGTTTGTTCCTTGT+AGG 0.408815 1:+41733178 None:intergenic
TTGTTTCTGGTTTGGAGCAA+AGG 0.417760 1:-41736534 MsaT002465.1:intron
TGTTTCTAGAGTACCATGTT+TGG 0.425256 1:+41733073 None:intergenic
GTTGTTTGATCACCGGGAAC+CGG 0.437467 1:+41733246 None:intergenic
CAGCTTCCTGAATTTGATCA+AGG 0.441323 1:-41733777 MsaT002465.1:CDS
AGAAACTCGGTAGATGAGTT+AGG 0.444243 1:+41736820 None:intergenic
GATGAGTTAGGTTGTGAAGA+GGG 0.463824 1:+41736832 None:intergenic
TTTGTTTGAAGATGATAATT+GGG 0.467753 1:+41732973 None:intergenic
AAATTGTGTTGTTTGATCAC+CGG 0.493108 1:+41733239 None:intergenic
AGTTGCCGCAGGCGACTAGC+TGG 0.499072 1:-41733747 MsaT002465.1:CDS
GATGTTCCTGATCTTGGTCT+CGG 0.501086 1:-41732895 MsaT002465.1:CDS
ATTATTGGAGGATGTCTAGT+AGG 0.503531 1:+41733150 None:intergenic
GGAACCGGCTCGGCTGATCT+CGG 0.507738 1:+41733261 None:intergenic
GGTACAAAACCTGAACTCAT+TGG 0.518582 1:+41736859 None:intergenic
AACTCCGAGATCAGCCGAGC+CGG 0.521520 1:-41733265 MsaT002465.1:CDS
TTGATCACCGGGAACCGGCT+CGG 0.522486 1:+41733251 None:intergenic
CAAAGGTAATAACTTTCTGA+TGG 0.523398 1:-41733331 MsaT002465.1:CDS
ACCAAGATCAGGAACATCCT+CGG 0.523631 1:+41732900 None:intergenic
AAGGTAGAAGAGGAGAGTTT+GGG 0.526795 1:+41733669 None:intergenic
CCAAGATCAGGAACATCCTC+GGG 0.531635 1:+41732901 None:intergenic
GACTAGCTGGCCATAATGAA+AGG 0.532987 1:-41733734 MsaT002465.1:CDS
CAAATCAAACCTAATGCTGT+TGG 0.533702 1:-41736727 MsaT002465.1:CDS
TCGTAGCTGTTTGTCGCCCG+AGG 0.537105 1:-41732917 MsaT002465.1:CDS
AGCAAACAAGAGTATTAAAG+TGG 0.540068 1:+41732799 None:intergenic
TCTGTGTCAACAGATAATAA+TGG 0.540600 1:-41733354 MsaT002465.1:intron
CTCTTCTGTCAAACCAAACA+TGG 0.546120 1:-41733086 MsaT002465.1:CDS
AGTAGATCTGAGTGGTGCTA+AGG 0.546255 1:-41736611 MsaT002465.1:CDS
AGTATTAAAGTGGCCAGTAA+TGG 0.550747 1:+41732809 None:intergenic
AATTGTGTTGTTTGATCACC+GGG 0.556847 1:+41733240 None:intergenic
AGATGAGTTAGGTTGTGAAG+AGG 0.562239 1:+41736831 None:intergenic
CTACAAGGAACAAACTTCCA+TGG 0.563190 1:-41733177 MsaT002465.1:CDS
AAACCAGAAACAACAACAGA+AGG 0.564585 1:+41736544 None:intergenic
TCAACAGATAATAATGGCAA+AGG 0.567701 1:-41733348 MsaT002465.1:intron
TTTCTAACCAAAGGTAGAAG+AGG 0.568592 1:+41733659 None:intergenic
TTCATCTTCAGGAATGAAGA+GGG 0.569922 1:-41736674 MsaT002465.1:CDS
AGCTTCCTGAATTTGATCAA+GGG 0.572503 1:-41733776 MsaT002465.1:CDS
TTAGGTTGTGAAGAGGGAGA+AGG 0.574494 1:+41736838 None:intergenic
CTTTAATCCATCAAGAAACT+CGG 0.578305 1:+41736807 None:intergenic
TGGTCTCGGTCAAAATTCGC+AGG 0.578947 1:-41732881 MsaT002465.1:CDS
ATCAAACAACACAATTTACC+TGG 0.583405 1:-41733233 MsaT002465.1:CDS
AAGGGAAACGAAGTTGCCGC+AGG 0.588964 1:-41733758 MsaT002465.1:CDS
TTGTAGTTATCCATTATTGG+AGG 0.589950 1:+41733138 None:intergenic
AAACCTAATGCTGTTGGTGT+TGG 0.593485 1:-41736721 MsaT002465.1:CDS
AAACAACTCATCGACACCAT+CGG 0.606869 1:-41733208 MsaT002465.1:CDS
GCGATTCATAGCGATCTTCG+TGG 0.611353 1:-41732859 MsaT002465.1:CDS
ATTGGAGGATGTCTAGTAGG+AGG 0.622162 1:+41733153 None:intergenic
GTTCATCTTCAGGAATGAAG+AGG 0.624178 1:-41736675 MsaT002465.1:CDS
AAGTTGTTCATCTCAACACT+TGG 0.626493 1:+41733042 None:intergenic
GGTGAGGTCAACGTTTCACA+AGG 0.632696 1:-41732838 MsaT002465.1:CDS
GGAGAGTTTGGGAAAACGCG+AGG 0.638128 1:+41733680 None:intergenic
TATGGCCAGCTAGTCGCCTG+CGG 0.649873 1:+41733742 None:intergenic
TCATAGCGATCTTCGTGGTG+AGG 0.663547 1:-41732854 MsaT002465.1:CDS
GATGTCTAGTAGGAGGACCA+TGG 0.664660 1:+41733160 None:intergenic
TAGCTGGCCATAATGAAAGG+CGG 0.700178 1:-41733731 MsaT002465.1:CDS
GCTTCAACTTGACACCTACG+TGG 0.700305 1:+41736640 None:intergenic
TCATCTTCAGGAATGAAGAG+GGG 0.707551 1:-41736673 MsaT002465.1:CDS
GGGGAAATAATCATCCACGT+AGG 0.738243 1:-41736654 MsaT002465.1:CDS
GCTTGTAAAGTAGATCTGAG+TGG 0.795108 1:-41736619 MsaT002465.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr1 gene 41732813 41736878 41732813 ID=MsaG002465
Chr1 mRNA 41732813 41736878 41732813 ID=MsaT002465.1;Parent=MsaG002465
Chr1 exon 41732813 41733363 41732813 ID=MsaT002465.1.exon3;Parent=MsaT002465.1
Chr1 CDS 41732813 41733363 41732813 ID=cds.MsaT002465.1;Parent=MsaT002465.1
Chr1 exon 41733667 41733806 41733667 ID=MsaT002465.1.exon2;Parent=MsaT002465.1
Chr1 CDS 41733667 41733806 41733667 ID=cds.MsaT002465.1;Parent=MsaT002465.1
Chr1 exon 41736535 41736878 41736535 ID=MsaT002465.1.exon1;Parent=MsaT002465.1
Chr1 CDS 41736535 41736878 41736535 ID=cds.MsaT002465.1;Parent=MsaT002465.1
Gene Sequence

>MsaT002465.1

ATGAGTTCAGGTTTTGTACCTTCTCCCTCTTCACAACCTAACTCATCTACCGAGTTTCTTGATGGATTAAAGTTTGGTCAAAAAATCTACTTTGAGGATGCAACAAGTACTGTTGTAGTAGCAGCTTCTCAAATCAAACCTAATGCTGTTGGTGTTGGTGGCTCTTCTTCTTCTTCATCATGTTCATCTTCAGGAATGAAGAGGGGAAATAATCATCCACGTAGGTGTCAAGTTGAAGCTTGTAAAGTAGATCTGAGTGGTGCTAAGGCTTATTATTCTAGACATAAAGTTTGTTGCATGCATTCAAAATCTCCTTCTGTTGTTGTTTCTGGTTTGGAGCAAAGGTTTCATCAGCTTCCTGAATTTGATCAAGGGAAACGAAGTTGCCGCAGGCGACTAGCTGGCCATAATGAAAGGCGGAGAAAGCCCCAACCGAGCTCCTTTTTAACCTCGCGTTTTCCCAAACTCTCCTCTTCTACCTTTGATAATAATGGCAAAGGTAATAACTTTCTGATGGAATGTGCTTCATTCCAAAAAATTTCTCTGGGAAATGCATTATCAACTCCGAGATCAGCCGAGCCGGTTCCCGGTGATCAAACAACACAATTTACCTGGCAAAACAACTCATCGACACCATCGGACTTTTTCCTACAAGGAACAAACTTCCATGGTCCTCCTACTAGACATCCTCCAATAATGGATAACTACAATGAAGTCACAGATTCAAGCTGTGCTCTCTCTCTTCTGTCAAACCAAACATGGTACTCTAGAAACACAACAACACCAAGTGTTGAGATGAACAACTTGTTGAATTTCAATGGTTCACTCACTACACAATCTTCTCAAGTTGCACCCAATTATCATCTTCAAACAAATGCTTCTTCTTGGTTTTTAAAGGGCGTTGATTCTCGTAGCTGTTTGTCGCCCGAGGATGTTCCTGATCTTGGTCTCGGTCAAAATTCGCAGGCGATTCATAGCGATCTTCGTGGTGAGGTCAACGTTTCACAAGGCAAGAACCATTACTGGCCACTTTAA
Protein sequence

>MsaT002465.1

MSSGFVPSPSSQPNSSTEFLDGLKFGQKIYFEDATSTVVVAASQIKPNAVGVGGSSSSSSCSSSGMKRGNNHPRRCQVEACKVDLSGAKAYYSRHKVCCMHSKSPSVVVSGLEQRFHQLPEFDQGKRSCRRRLAGHNERRRKPQPSSFLTSRFPKLSSSTFDNNGKGNNFLMECASFQKISLGNALSTPRSAEPVPGDQTTQFTWQNNSSTPSDFFLQGTNFHGPPTRHPPIMDNYNEVTDSSCALSLLSNQTWYSRNTTTPSVEMNNLLNFNGSLTTQSSQVAPNYHLQTNASSWFLKGVDSRSCLSPEDVPDLGLGQNSQAIHSDLRGEVNVSQGKNHYWPL*