AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG036018

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG036018 MtrunA17_Chr7g0267601 79.074 497 67 6 1 477 1 480 0.0 723
MsaG036018 MtrunA17_Chr4g0008701 78.044 501 81 5 1 477 1 496 0.0 712
MsaG036018 MtrunA17_Chr3g0128721 40.868 553 245 9 1 477 1 547 1.12e-109 336
MsaG036018 MtrunA17_Chr8g0361741 47.656 256 107 3 13 245 13 264 2.40e-52 178
MsaG036018 MtrunA17_Chr3g0107381 34.545 165 103 3 1 163 1 162 6.95e-24 99.8
MsaG036018 MtrunA17_Chr8g0351751 38.168 131 78 2 4 131 1 131 8.60e-21 91.7
MsaG036018 MtrunA17_Chr4g0014321 36.066 122 77 1 6 126 3 124 4.86e-20 89.0
MsaG036018 MtrunA17_Chr2g0283941 27.391 230 146 5 7 234 4 214 9.78e-20 88.6
MsaG036018 MtrunA17_Chr4g0013041 38.095 126 75 2 7 131 4 127 9.98e-19 84.7
MsaG036018 MtrunA17_Chr5g0432691 34.810 158 98 4 7 161 4 159 6.16e-18 81.3
MsaG036018 MtrunA17_Chr4g0014031 38.415 164 87 4 1 159 1 155 6.83e-18 82.8
MsaG036018 MtrunA17_Chr3g0107331 34.667 150 96 2 6 153 2 151 8.78e-18 80.5
MsaG036018 MtrunA17_Chr3g0110131 39.316 117 70 1 6 121 3 119 5.27e-17 80.5
MsaG036018 MtrunA17_Chr3g0107351 32.450 151 100 2 6 154 2 152 1.72e-16 77.0
MsaG036018 MtrunA17_Chr3g0107361 33.113 151 99 2 6 154 2 152 2.20e-16 76.6
MsaG036018 MtrunA17_Chr1g0197321 31.304 115 77 2 6 119 3 116 8.79e-16 74.7
MsaG036018 MtrunA17_Chr3g0107341 31.788 151 101 2 6 154 2 152 2.93e-15 73.6
MsaG036018 MtrunA17_Chr4g0014131 32.500 160 80 5 37 174 34 187 3.98e-15 74.7
MsaG036018 MtrunA17_Chr5g0420351 35.000 120 73 3 1 119 1 116 4.94e-15 72.8
MsaG036018 MtrunA17_Chr2g0296831 36.800 125 75 2 1 124 1 122 5.73e-15 71.2
MsaG036018 MtrunA17_Chr4g0014121 40.625 96 56 1 37 131 62 157 5.80e-15 73.2
MsaG036018 MtrunA17_Chr1g0197461 26.897 145 104 2 6 149 2 145 1.00e-13 68.9
MsaG036018 MtrunA17_Chr1g0188681 32.174 115 76 2 6 119 3 116 1.37e-13 68.6
MsaG036018 MtrunA17_Chr1g0197261 28.667 150 102 3 1 149 1 146 2.49e-12 64.7
MsaG036018 MtrunA17_Chr1g0188651 28.834 163 103 4 6 166 3 154 2.48e-11 62.0
MsaG036018 MtrunA17_Chr4g0012761 33.333 147 93 3 6 148 3 148 2.61e-11 62.0
MsaG036018 MtrunA17_Chr1g0193311 37.097 124 69 4 1 119 1 120 4.72e-11 61.2
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG036018 AT1G65300.1 35.652 115 73 1 6 119 2 116 9.25e-18 84.0
MsaG036018 AT2G40210.1 27.374 179 124 4 4 181 1 174 3.58e-17 83.6
MsaG036018 AT1G31640.1 26.754 228 152 8 6 221 2 226 3.23e-15 78.2
MsaG036018 AT1G31630.1 33.043 115 75 2 6 119 2 115 3.05e-14 74.3
MsaG036018 AT3G05860.1 30.657 137 90 3 1 135 1 134 4.01e-14 72.8
MsaG036018 AT5G26650.1 30.702 114 78 1 7 119 2 115 4.57e-14 73.9
MsaG036018 AT3G05860.3 30.657 137 90 3 1 135 1 134 4.71e-14 72.4
MsaG036018 AT3G05860.2 30.657 137 90 3 1 135 1 134 1.44e-13 70.1
MsaG036018 AT5G27960.1 30.702 114 78 1 7 119 2 115 1.75e-13 71.6
MsaG036018 AT5G48670.1 36.752 117 73 1 6 121 3 119 2.31e-13 71.2
MsaG036018 AT5G06500.1 28.472 144 101 2 6 148 3 145 4.17e-13 69.3
MsaG036018 AT1G65330.1 31.858 113 76 1 8 119 4 116 7.85e-13 69.3
MsaG036018 AT2G28700.1 31.624 117 79 1 4 119 1 117 7.98e-12 67.0
MsaG036018 AT1G22590.2 30.000 100 65 2 6 100 3 102 7.45e-11 61.2

Find 92 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TTGCTTCCTCAAGAAAATTT+TGG 0.166377 7:-26098176 MsaT036018.1:CDS
AACAACTTTGGCAATATTAA+TGG 0.192138 7:-26097927 MsaT036018.1:CDS
TTGACTCATACTTGGTTATT+AGG 0.193064 7:+26099188 None:intergenic
TTGCCTCCTCAAGGATATTT+TGG 0.199048 7:-26098398 MsaT036018.1:CDS
AGTATTATTCTCAATCAATT+TGG 0.203967 7:+26099360 None:intergenic
TTGGCTAATCAAGCCGATTT+TGG 0.211096 7:-26098677 MsaT036018.1:CDS
AACAATATAGGTAGCAATAT+TGG 0.211965 7:-26098461 MsaT036018.1:CDS
CAAAATCTTCAAAGTTAAAT+TGG 0.246957 7:+26098150 None:intergenic
GATTGTCACCTGCTCCATTT+TGG 0.265823 7:+26099294 None:intergenic
GAGGCATGTGCGGTTGTCTT+TGG 0.278505 7:-26099259 MsaT036018.1:CDS
GAAAGGGTTGTTCACCAAAA+TGG 0.296295 7:-26099308 MsaT036018.1:CDS
GATGGTGATGGGGTACATTC+TGG 0.296453 7:-26098851 MsaT036018.1:CDS
AGAAAATGAAGAGACTTTAA+TGG 0.303503 7:-26099068 MsaT036018.1:CDS
GTTATCAAAATTGCCAAAAT+CGG 0.349719 7:+26098664 None:intergenic
AGGCATGTGCGGTTGTCTTT+GGG 0.363456 7:-26099258 MsaT036018.1:CDS
TTTGAAGTTCACAGAAACTT+TGG 0.364250 7:-26098041 MsaT036018.1:CDS
TGTTTCTTCCTCATGGAAAT+CGG 0.364437 7:-26098496 MsaT036018.1:CDS
ACAATATAGGTAGCAATATT+GGG 0.381596 7:-26098460 MsaT036018.1:CDS
GTGATACAAAACCATCAATA+TGG 0.384286 7:-26099231 MsaT036018.1:CDS
TTTGATGATCAAGAAAACTT+TGG 0.393915 7:-26098266 MsaT036018.1:CDS
TCTTCTAAAGTAAAAGATAT+TGG 0.398866 7:+26098872 None:intergenic
GTAGGAGATGGCCATATTGA+TGG 0.402716 7:+26099220 None:intergenic
GTTTCTTCCTCATGGAAATC+GGG 0.417845 7:-26098495 MsaT036018.1:CDS
CAATGACATTGACTCATACT+TGG 0.420310 7:+26099180 None:intergenic
CATGATATGTTTCTTCCTCA+TGG 0.427152 7:-26098503 MsaT036018.1:CDS
GAAAATGAAGAGACTTTAAT+GGG 0.430958 7:-26099067 MsaT036018.1:CDS
CAAGTATGAGTCAATGTCAT+TGG 0.431413 7:-26099179 MsaT036018.1:CDS
ATGGTGATGGGGTACATTCT+GGG 0.432610 7:-26098850 MsaT036018.1:CDS
TTTGGCAATATTAATGGAGA+TGG 0.443441 7:-26097921 MsaT036018.1:CDS
GGAGGTCAAAGCAACTTTCA+AGG 0.462180 7:-26098377 MsaT036018.1:CDS
GATGATCAAGAAAACTTTGG+AGG 0.463709 7:-26098263 MsaT036018.1:CDS
ATATCAACACCACCATTGCT+TGG 0.469029 7:+26097966 None:intergenic
GTTGGAGGAGGATTATTAAG+AGG 0.490332 7:+26098902 None:intergenic
GATGTCTAGGCATTTAGAAA+AGG 0.494516 7:-26098933 MsaT036018.1:CDS
TCAATATGGCCATCTCCTAC+TGG 0.500376 7:-26099217 MsaT036018.1:CDS
TTTACTTTAGAAGATGGTGA+TGG 0.506036 7:-26098863 MsaT036018.1:CDS
GTTATTAGGTCTTGACCAGT+AGG 0.513362 7:+26099202 None:intergenic
TTACTTTAGAAGATGGTGAT+GGG 0.515841 7:-26098862 MsaT036018.1:CDS
GATATTGGTGCCAACGTTGG+AGG 0.517309 7:+26098887 None:intergenic
TGAGAATAATACTCAAAGAA+AGG 0.521008 7:-26099350 MsaT036018.1:CDS
ATACCACCACATACAAATCA+TGG 0.521732 7:-26098101 MsaT036018.1:CDS
GACAATCTTATGTGGAATTG+AGG 0.522788 7:-26099278 MsaT036018.1:CDS
GTATCTCCATGCTACTTCCA+TGG 0.531474 7:+26098738 None:intergenic
CCTCCACTAACAGATCTTAG+TGG 0.531606 7:-26098716 MsaT036018.1:CDS
ATTGGTGCCAACGTTGGAGG+AGG 0.533160 7:+26098890 None:intergenic
CTAACAGATCTTAGTGGTGG+TGG 0.538898 7:-26098710 MsaT036018.1:CDS
GTTATAAGAAAAGATTGAAA+GGG 0.540577 7:-26099324 MsaT036018.1:CDS
AACAACTTTGATGGTGGCAT+GGG 0.547295 7:-26098644 MsaT036018.1:CDS
TTGGCAATATTAATGGAGAT+GGG 0.548013 7:-26097920 MsaT036018.1:CDS
CGTTATAAGAAAAGATTGAA+AGG 0.551031 7:-26099325 MsaT036018.1:CDS
CAATATTAATGGAGATGGGA+TGG 0.552115 7:-26097916 MsaT036018.1:CDS
GAAGTTCACAGAAACTTTGG+AGG 0.552988 7:-26098038 MsaT036018.1:CDS
GTTGTTCACCAAAATGGAGC+AGG 0.556851 7:-26099302 MsaT036018.1:CDS
TTTGATAACAACTTTGATGG+TGG 0.557716 7:-26098650 MsaT036018.1:CDS
CCACCACTAAGATCTGTTAG+TGG 0.562274 7:+26098713 None:intergenic
TGGTGGTGGTTGTGATAACT+TGG 0.567708 7:-26098696 MsaT036018.1:CDS
ACATTACAGGTAGCAATACA+AGG 0.567975 7:-26098346 MsaT036018.1:CDS
AGATCACTAGAAAGATGTCT+AGG 0.570407 7:-26098946 MsaT036018.1:CDS
TAATAATCCTCCTCCAACGT+TGG 0.577508 7:-26098897 MsaT036018.1:CDS
AAAGATATTGGTGCCAACGT+TGG 0.577514 7:+26098884 None:intergenic
GTAGGTGTGTTGCCTCCTCA+AGG 0.582180 7:-26098407 MsaT036018.1:CDS
TACTTTAGAAGATGGTGATG+GGG 0.582286 7:-26098861 MsaT036018.1:CDS
CCAACACCATGATTTGTATG+TGG 0.583138 7:+26098095 None:intergenic
GAGCAGGTGACAATCTTATG+TGG 0.583955 7:-26099286 MsaT036018.1:CDS
TAACAACTTTGATGGTGGCA+TGG 0.586911 7:-26098645 MsaT036018.1:CDS
TGGTGATGGGGTACATTCTG+GGG 0.588241 7:-26098849 MsaT036018.1:CDS
TAACAACCATGGAAGTAGCA+TGG 0.590557 7:-26098744 MsaT036018.1:CDS
TCATCACATGGAAATCATAG+TGG 0.598340 7:-26098533 MsaT036018.1:CDS
AGGTCTTGACCAGTAGGAGA+TGG 0.607354 7:+26099208 None:intergenic
TTTCTTCCTCATGGAAATCG+GGG 0.609048 7:-26098494 MsaT036018.1:CDS
CATGAAAATCCAAGCAATGG+TGG 0.610991 7:-26097975 MsaT036018.1:CDS
CCACATGAAAATCCAAGCAA+TGG 0.614633 7:-26097978 MsaT036018.1:CDS
TCACCTGAAAATTCTAGTGG+TGG 0.615267 7:-26098614 MsaT036018.1:CDS
CCACATACAAATCATGGTGT+TGG 0.616507 7:-26098095 MsaT036018.1:CDS
CCATCACCTGAAAATTCTAG+TGG 0.626301 7:-26098617 MsaT036018.1:CDS
TTCTCATTCAGATTTGCATG+TGG 0.626754 7:+26098317 None:intergenic
GAAAATCCTAGTGGTGGTGT+AGG 0.627650 7:-26098425 MsaT036018.1:CDS
ATGCATCAAATTGAAAACGA+AGG 0.641960 7:-26099037 MsaT036018.1:CDS
AGTGGTTTCAATAACAACCA+TGG 0.647385 7:-26098755 MsaT036018.1:CDS
AACACACCTACACCACCACT+AGG 0.650603 7:+26098419 None:intergenic
TTCTTCCTCATGGAAATCGG+GGG 0.655717 7:-26098493 MsaT036018.1:CDS
CCTCCAAAATATCCTTGAGG+AGG 0.656666 7:+26098395 None:intergenic
ATGATACATGTAGCAACATG+TGG 0.657144 7:-26098007 MsaT036018.1:CDS
ATGTGGAATTGAGGCATGTG+CGG 0.658684 7:-26099269 MsaT036018.1:CDS
TGACCTCCAAAATATCCTTG+AGG 0.660910 7:+26098392 None:intergenic
CCACTAAGATCTGTTAGTGG+AGG 0.673960 7:+26098716 None:intergenic
TCACATGAAAATCCTAGTGG+TGG 0.674534 7:-26098431 MsaT036018.1:CDS
ACAACATAGATAGCAGCATG+TGG 0.675578 7:-26098232 MsaT036018.1:CDS
CAATCACATGAAAATCCTAG+TGG 0.684612 7:-26098434 MsaT036018.1:CDS
ATCATGGAGATATCATCACA+TGG 0.688302 7:-26098545 MsaT036018.1:CDS
CCACTAACAGATCTTAGTGG+TGG 0.700550 7:-26098713 MsaT036018.1:CDS
ACACCATGATTTGTATGTGG+TGG 0.720749 7:+26098098 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr7 gene 26097908 26099413 26097908 ID=MsaG036018
Chr7 mRNA 26097908 26099413 26097908 ID=MsaT036018.1;Parent=MsaG036018
Chr7 exon 26097908 26098775 26097908 ID=MsaT036018.1.exon2;Parent=MsaT036018.1
Chr7 CDS 26097908 26098775 26097908 ID=cds.MsaT036018.1;Parent=MsaT036018.1
Chr7 exon 26098842 26099413 26098842 ID=MsaT036018.1.exon1;Parent=MsaT036018.1
Chr7 CDS 26098842 26099413 26098842 ID=cds.MsaT036018.1;Parent=MsaT036018.1
Gene Sequence

>MsaT036018.1

ATGACTAGAATCAGAAAAAAGAAGATCACATCCAAATTGATTGAGAATAATACTCAAAGAAAGGCGCGTTATAAGAAAAGATTGAAAGGGTTGTTCACCAAAATGGAGCAGGTGACAATCTTATGTGGAATTGAGGCATGTGCGGTTGTCTTTGGGCTGTGTGATACAAAACCATCAATATGGCCATCTCCTACTGGTCAAGACCTAATAACCAAGTATGAGTCAATGTCATTGGATGTACAATCGAAAAATAAGACTGACCAATTGACTTTTTTGAAGGATAAGGGCAAAAAACTTGAAGCAAGCCTTGCAAAGATCGAAAAAGAAAATGAAGAGACTTTAATGGGAGCTTATATGCATCAAATTGAAAACGAAGGTAAGTCTTTAGATGATTTTGATCATGATGTGCTGAATCGTTTGATTGCTTTTACACTTGAAAAAATTAAGATCACTAGAAAGATGTCTAGGCATTTAGAAAAGGAGATCTTGCCTCTTAATAATCCTCCTCCAACGTTGGCACCAATATCTTTTACTTTAGAAGATGGTGATGGGGTACATTCTGGGGTTAACATTGGTTTCAATAACAACCATGGAAGTAGCATGGAGATACCTCCACTAACAGATCTTAGTGGTGGTGGTTGTGATAACTTGGCTAATCAAGCCGATTTTGGCAATTTTGATAACAACTTTGATGGTGGCATGGGAATACCATCACCTGAAAATTCTAGTGGTGGTTTTTATGCAGCGTTTTTTCAAGATAATTTGCAAGATTTTGATAGTATCATGGAGATATCATCACATGGAAATCATAGTGGTAGTGTTCATGATATGTTTCTTCCTCATGGAAATCGGGGGCATTTTATTAACAATATAGGTAGCAATATTGGGATACAATCACATGAAAATCCTAGTGGTGGTGTAGGTGTGTTGCCTCCTCAAGGATATTTTGGAGGTCAAAGCAACTTTCAAGGTTTTGATGACATTACAGGTAGCAATACAAGGATAGTACCACATGCAAATCTGAATGAGAATGTTGATTTGTTGCCTCCTCAAGAAAATTTTGATGATCAAGAAAACTTTGGAGGTTTTGATGACAACATAGATAGCAGCATGTGGATACAACATGCAAATTTTAGTGGTGGTGATACATTGCTTCCTCAAGAAAATTTTGGAGACCAATTTAACTTTGAAGATTTTGATAACAACACTGGTAGCAACATGTTGATACCACCACATACAAATCATGGTGTTGGTAATGTTGATGTTTTGTCTCATCAAAGAAATTTTGAAGTTCACAGAAACTTTGGAGGTTTTGATGATGATACATGTAGCAACATGTGGAAACCTCCACATGAAAATCCAAGCAATGGTGGTGTTGATATGATGACTTTTCATCAAAACAACTTTGGCAATATTAATGGAGATGGGATGGAGTTTTAA
Protein sequence

>MsaT036018.1

MTRIRKKKITSKLIENNTQRKARYKKRLKGLFTKMEQVTILCGIEACAVVFGLCDTKPSIWPSPTGQDLITKYESMSLDVQSKNKTDQLTFLKDKGKKLEASLAKIEKENEETLMGAYMHQIENEGKSLDDFDHDVLNRLIAFTLEKIKITRKMSRHLEKEILPLNNPPPTLAPISFTLEDGDGVHSGVNIGFNNNHGSSMEIPPLTDLSGGGCDNLANQADFGNFDNNFDGGMGIPSPENSSGGFYAAFFQDNLQDFDSIMEISSHGNHSGSVHDMFLPHGNRGHFINNIGSNIGIQSHENPSGGVGVLPPQGYFGGQSNFQGFDDITGSNTRIVPHANLNENVDLLPPQENFDDQENFGGFDDNIDSSMWIQHANFSGGDTLLPQENFGDQFNFEDFDNNTGSNMLIPPHTNHGVGNVDVLSHQRNFEVHRNFGGFDDDTCSNMWKPPHENPSNGGVDMMTFHQNNFGNINGDGMEF*