AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG036086

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG036086 MtrunA17_Chr7g0267601 83.397 524 66 4 1 524 1 503 0.0 829
MsaG036086 MtrunA17_Chr4g0008701 83.206 524 83 2 1 524 1 519 0.0 825
MsaG036086 MtrunA17_Chr3g0128721 43.986 582 256 12 1 524 1 570 3.87e-132 395
MsaG036086 MtrunA17_Chr8g0361741 53.516 256 115 1 13 268 13 264 3.02e-71 229
MsaG036086 MtrunA17_Chr3g0107381 32.727 165 107 2 1 164 1 162 2.67e-23 98.2
MsaG036086 MtrunA17_Chr8g0351751 37.405 131 80 1 4 132 1 131 4.67e-22 95.5
MsaG036086 MtrunA17_Chr5g0432691 32.051 156 106 0 7 162 4 159 5.85e-22 92.8
MsaG036086 MtrunA17_Chr4g0014321 35.246 122 79 0 6 127 3 124 2.74e-21 92.8
MsaG036086 MtrunA17_Chr3g0107331 33.333 150 99 1 6 154 2 151 1.04e-20 89.0
MsaG036086 MtrunA17_Chr4g0013041 29.756 205 132 4 7 206 4 201 2.60e-20 89.4
MsaG036086 MtrunA17_Chr3g0107351 30.719 153 105 1 6 157 2 154 1.55e-19 85.9
MsaG036086 MtrunA17_Chr3g0107361 31.373 153 104 1 6 157 2 154 1.81e-19 85.5
MsaG036086 MtrunA17_Chr4g0014031 38.125 160 80 3 1 144 1 157 3.33e-19 86.7
MsaG036086 MtrunA17_Chr3g0107341 30.065 153 106 1 6 157 2 154 1.04e-18 83.6
MsaG036086 MtrunA17_Chr3g0110131 38.462 117 72 0 6 122 3 119 3.80e-18 84.0
MsaG036086 MtrunA17_Chr2g0283941 29.655 145 101 1 7 150 4 148 6.98e-18 83.2
MsaG036086 MtrunA17_Chr1g0197321 32.174 115 77 1 6 120 3 116 9.40e-18 80.5
MsaG036086 MtrunA17_Chr5g0420351 35.833 120 73 2 1 120 1 116 5.39e-17 78.6
MsaG036086 MtrunA17_Chr2g0296831 36.800 125 76 1 1 125 1 122 9.26e-17 76.6
MsaG036086 MtrunA17_Chr4g0014121 39.583 96 58 0 37 132 62 157 2.19e-16 77.4
MsaG036086 MtrunA17_Chr4g0014131 31.613 155 89 3 37 175 34 187 6.48e-16 77.4
MsaG036086 MtrunA17_Chr1g0188681 28.049 164 106 4 6 167 3 156 1.87e-15 73.9
MsaG036086 MtrunA17_Chr1g0197261 33.333 120 76 2 1 120 1 116 3.74e-15 73.2
MsaG036086 MtrunA17_Chr1g0197461 26.897 145 105 1 6 150 2 145 9.62e-15 72.0
MsaG036086 MtrunA17_Chr1g0188651 29.448 163 103 3 6 167 3 154 3.38e-14 70.5
MsaG036086 MtrunA17_Chr1g0193311 37.815 119 69 2 6 120 3 120 1.31e-13 68.6
MsaG036086 MtrunA17_Chr4g0012761 35.433 127 81 1 6 132 3 128 4.09e-13 67.4
MsaG036086 MtrunA17_Chr1g0188661 34.783 115 74 1 6 120 3 116 6.61e-13 66.6
MsaG036086 MtrunA17_Chr7g0218151 33.858 127 83 1 6 132 3 128 1.56e-12 65.5
MsaG036086 MtrunA17_Chr3g0107461 26.496 117 86 0 6 122 3 119 1.60e-11 62.8
MsaG036086 MtrunA17_Chr3g0106501 29.545 88 62 0 35 122 4 91 3.51e-11 61.6
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG036086 AT1G65300.1 36.522 115 73 0 6 120 2 116 4.71e-20 90.9
MsaG036086 AT2G40210.1 27.933 179 124 3 4 182 1 174 1.90e-19 90.5
MsaG036086 AT3G05860.3 31.387 137 90 2 1 136 1 134 6.38e-17 80.9
MsaG036086 AT3G05860.1 31.387 137 90 2 1 136 1 134 6.98e-17 81.3
MsaG036086 AT3G05860.2 31.387 137 90 2 1 136 1 134 1.74e-16 78.6
MsaG036086 AT5G26650.1 31.579 114 78 0 7 120 2 115 3.46e-16 80.9
MsaG036086 AT5G27960.1 31.579 114 78 0 7 120 2 115 1.28e-15 78.6
MsaG036086 AT1G31630.1 32.174 115 77 1 6 120 2 115 4.51e-15 77.0
MsaG036086 AT5G06500.1 29.167 144 101 1 6 149 3 145 4.55e-15 75.5
MsaG036086 AT1G65330.1 32.743 113 76 0 8 120 4 116 4.91e-15 75.9
MsaG036086 AT1G22590.2 28.440 109 75 1 6 114 3 108 1.16e-14 72.4
MsaG036086 AT1G31640.1 31.304 115 78 1 6 120 2 115 1.32e-14 76.6
MsaG036086 AT5G48670.1 35.897 117 75 0 6 122 3 119 1.87e-14 75.1
MsaG036086 AT2G28700.1 29.915 117 82 0 4 120 1 117 2.12e-14 74.7
MsaG036086 AT5G26630.1 32.212 208 121 6 1 199 1 197 3.64e-14 72.4
MsaG036086 AT2G15660.1 29.480 173 101 7 5 171 3 160 8.06e-14 72.0

Find 104 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:-27174706 MsaT036086.1:CDS
TTGACTCATACTTGGTTATT+AGG 0.193064 7:+27175718 None:intergenic
TTGCCTCCTCAAGGATATTT+TGG 0.199048 7:-27174928 MsaT036086.1:CDS
AGTATTATTCTCAATCAATT+TGG 0.203967 7:+27175893 None:intergenic
AACTTTGGCGGCAATATTAA+TGG 0.210065 7:-27174454 MsaT036086.1:CDS
TTGGCTAATCAAGCCGATTT+TGG 0.211096 7:-27175207 MsaT036086.1:CDS
AACAATATAGGTAGCAATAT+TGG 0.211965 7:-27174991 MsaT036086.1:CDS
CAAAATCTTCAAAGTTAAAT+TGG 0.246957 7:+27174680 None:intergenic
GATTGTCACCTGCTCCATTT+TGG 0.265152 7:+27175827 None:intergenic
GAGGCATGTGCGGTTGTCTT+TGG 0.280988 7:-27175792 MsaT036086.1:CDS
GATGGTGATGGGGTACATTC+TGG 0.296453 7:-27175381 MsaT036086.1:CDS
CCAACAACCCTTGTTAGATT+TGG 0.298734 7:-27175331 MsaT036086.1:CDS
AGAAAATGAAGAGACTTTAA+TGG 0.303503 7:-27175598 MsaT036086.1:CDS
GAAAGGGTTGTTCGCCAAAA+TGG 0.321274 7:-27175841 MsaT036086.1:CDS
GTTTCTTCCTCATGGAAATC+AGG 0.337830 7:-27175025 MsaT036086.1:CDS
GTTATCAAAATTGCCAAAAT+CGG 0.349719 7:+27175194 None:intergenic
TTTGAAGTTCACAGAAACTT+TGG 0.364250 7:-27174571 MsaT036086.1:CDS
AGGCATGTGCGGTTGTCTTT+GGG 0.371862 7:-27175791 MsaT036086.1:CDS
ACTTTGTTGACAATAATTAC+AGG 0.379077 7:-27174405 MsaT036086.1:CDS
ACAATATAGGTAGCAATATT+GGG 0.381596 7:-27174990 MsaT036086.1:CDS
GTGATACAAAACCATCAATA+TGG 0.392745 7:-27175764 MsaT036086.1:CDS
TTTGATGATCAAGAAAACTT+TGG 0.393915 7:-27174796 MsaT036086.1:CDS
TCTTCTAAAGTAAAAGATAT+TGG 0.398866 7:+27175402 None:intergenic
GTAGGAGATGGCCATATTGA+TGG 0.410732 7:+27175753 None:intergenic
CCATCACCTGAAAATTCTAA+TGG 0.415139 7:-27175147 MsaT036086.1:CDS
CAATGACATTGACTCATACT+TGG 0.420310 7:+27175710 None:intergenic
CATGATATGTTTCTTCCTCA+TGG 0.427152 7:-27175033 MsaT036086.1:CDS
GAAAATGAAGAGACTTTAAT+GGG 0.430958 7:-27175597 MsaT036086.1:CDS
CAAGTATGAGTCAATGTCAT+TGG 0.431413 7:-27175709 MsaT036086.1:CDS
ATGGTGATGGGGTACATTCT+GGG 0.432610 7:-27175380 MsaT036086.1:CDS
CATTCTGGGGTTAACATGTA+TGG 0.436691 7:-27175366 MsaT036086.1:CDS
GGCGGCAATATTAATGGAGA+TGG 0.442349 7:-27174448 MsaT036086.1:CDS
TGTGCGGTTGTCTTTGGGCC+AGG 0.443467 7:-27175786 MsaT036086.1:CDS
CCAAATCTAACAAGGGTTGT+TGG 0.460158 7:+27175331 None:intergenic
GGAGGTCAAAGCAACTTTCA+AGG 0.462180 7:-27174907 MsaT036086.1:CDS
GATGATCAAGAAAACTTTGG+AGG 0.463709 7:-27174793 MsaT036086.1:CDS
TACAGGAACAACTTCAACCC+TGG 0.480219 7:-27174388 MsaT036086.1:CDS
TTTCATCAAAACAACTTTGG+CGG 0.485753 7:-27174466 MsaT036086.1:CDS
ATATCAACACCACCGTTGCT+TGG 0.486539 7:+27174496 None:intergenic
GTTGGAGGAGGATTATTAAG+AGG 0.490332 7:+27175432 None:intergenic
TTTCTTCCTCATGGAAATCA+GGG 0.494193 7:-27175024 MsaT036086.1:CDS
GATGTCTAGGCATTTAGAAA+AGG 0.494516 7:-27175463 MsaT036086.1:CDS
ATCAATATGGCCATCTCCTA+CGG 0.501169 7:-27175751 MsaT036086.1:CDS
TTTACTTTAGAAGATGGTGA+TGG 0.506036 7:-27175393 MsaT036086.1:CDS
ATGGTTGTTATTGAAACCAC+TGG 0.506528 7:+27175287 None:intergenic
GTAAAAGCAATCAAACGATT+CGG 0.507902 7:+27175513 None:intergenic
TTACTTTAGAAGATGGTGAT+GGG 0.515841 7:-27175392 MsaT036086.1:CDS
GATATTGGTGCCAACGTTGG+AGG 0.517309 7:+27175417 None:intergenic
TGAGAATAATACTCAAAGAA+AGG 0.521008 7:-27175883 MsaT036086.1:CDS
ATACCACCACATACAAATCA+TGG 0.521732 7:-27174631 MsaT036086.1:CDS
GACAATCTTATGTGGAATTG+AGG 0.522788 7:-27175811 MsaT036086.1:CDS
GTATCTCCATGCTACTTCCA+TGG 0.531474 7:+27175268 None:intergenic
CCTCCACTAACAGATCTTAG+TGG 0.531606 7:-27175246 MsaT036086.1:CDS
ATTGGTGCCAACGTTGGAGG+AGG 0.533160 7:+27175420 None:intergenic
CTAACAGATCTTAGTGGTGG+TGG 0.538898 7:-27175240 MsaT036086.1:CDS
GTTATAAGAAAAGATTGAAA+GGG 0.540577 7:-27175857 MsaT036086.1:CDS
AACAACTTTGATGGTGGCAT+GGG 0.547295 7:-27175174 MsaT036086.1:CDS
ATATTAATGGAGATGGGATG+CGG 0.549478 7:-27174441 MsaT036086.1:CDS
CGTTATAAGAAAAGATTGAA+AGG 0.551031 7:-27175858 MsaT036086.1:CDS
GAAGTTCACAGAAACTTTGG+AGG 0.552988 7:-27174568 MsaT036086.1:CDS
GCGGCAATATTAATGGAGAT+GGG 0.556348 7:-27174447 MsaT036086.1:CDS
TTTGATAACAACTTTGATGG+TGG 0.557716 7:-27175180 MsaT036086.1:CDS
GTTGTTCGCCAAAATGGAGC+AGG 0.559147 7:-27175835 MsaT036086.1:CDS
TCTTCAGCCACCGTAGGAGA+TGG 0.560949 7:+27175741 None:intergenic
CCACCACTAAGATCTGTTAG+TGG 0.562274 7:+27175243 None:intergenic
TGGTGGTGGTTGTGATAACT+TGG 0.567708 7:-27175226 MsaT036086.1:CDS
AGATCACTAGAAAGATGTCT+AGG 0.570407 7:-27175476 MsaT036086.1:CDS
AATATGGCCATCTCCTACGG+TGG 0.571701 7:-27175748 MsaT036086.1:CDS
TTTCTCAACCAAATCTAACA+AGG 0.573944 7:+27175323 None:intergenic
TAATAATCCTCCTCCAACGT+TGG 0.577508 7:-27175427 MsaT036086.1:CDS
AAAGATATTGGTGCCAACGT+TGG 0.577514 7:+27175414 None:intergenic
GTAGGTGTGTTGCCTCCTCA+AGG 0.582180 7:-27174937 MsaT036086.1:CDS
TACTTTAGAAGATGGTGATG+GGG 0.582286 7:-27175391 MsaT036086.1:CDS
CCAACACCATGATTTGTATG+TGG 0.583138 7:+27174625 None:intergenic
GAGCAGGTGACAATCTTATG+TGG 0.583955 7:-27175819 MsaT036086.1:CDS
TAACAACTTTGATGGTGGCA+TGG 0.586911 7:-27175175 MsaT036086.1:CDS
TGGTGATGGGGTACATTCTG+GGG 0.588241 7:-27175379 MsaT036086.1:CDS
TAACAACCATGGAAGTAGCA+TGG 0.590557 7:-27175274 MsaT036086.1:CDS
TTTATTCTGAAGGAAATCCA+GGG 0.595152 7:+27174371 None:intergenic
TCACCTGAAAATTCTAATGG+TGG 0.607370 7:-27175144 MsaT036086.1:CDS
TTCTCAACCAAATCTAACAA+GGG 0.610146 7:+27175324 None:intergenic
CCACATACAAATCATGGTGT+TGG 0.616507 7:-27174625 MsaT036086.1:CDS
ATTAGGTCTTCAGCCACCGT+AGG 0.620414 7:+27175735 None:intergenic
GAAAATCCTAGTGGTGGTGT+AGG 0.627650 7:-27174955 MsaT036086.1:CDS
TCATCACATGAAAATCATAG+TGG 0.635133 7:-27175063 MsaT036086.1:CDS
ATGCATCAAATTGAAAACGA+AGG 0.641960 7:-27175567 MsaT036086.1:CDS
AAAGTTGATCAAATGACCAG+TGG 0.646800 7:-27175303 MsaT036086.1:CDS
CCACATGAAAATCCAAGCAA+CGG 0.646879 7:-27174508 MsaT036086.1:CDS
AGTGGTTTCAATAACAACCA+TGG 0.647385 7:-27175285 MsaT036086.1:CDS
TTCTCATTCAGATTTGCATG+TGG 0.650408 7:+27174847 None:intergenic
AACACACCTACACCACCACT+AGG 0.650603 7:+27174949 None:intergenic
CCTCCAAAATATCCTTGAGG+AGG 0.656666 7:+27174925 None:intergenic
ATGATACATGTAGCAACATG+TGG 0.657144 7:-27174537 MsaT036086.1:CDS
ATGTGGAATTGAGGCATGTG+CGG 0.658684 7:-27175802 MsaT036086.1:CDS
TTCTTCCTCATGGAAATCAG+GGG 0.660402 7:-27175023 MsaT036086.1:CDS
TGACCTCCAAAATATCCTTG+AGG 0.660910 7:+27174922 None:intergenic
CCACTAAGATCTGTTAGTGG+AGG 0.673960 7:+27175246 None:intergenic
TCACATGAAAATCCTAGTGG+TGG 0.674534 7:-27174961 MsaT036086.1:CDS
ACAACATAGATAGCAGCATG+TGG 0.675578 7:-27174762 MsaT036086.1:CDS
CAATCACATGAAAATCCTAG+TGG 0.684612 7:-27174964 MsaT036086.1:CDS
CATGAAAATCCAAGCAACGG+TGG 0.699566 7:-27174505 MsaT036086.1:CDS
CCACTAACAGATCTTAGTGG+TGG 0.700550 7:-27175243 MsaT036086.1:CDS
AAATGCCCCTGATTTCCATG+AGG 0.719477 7:+27175018 None:intergenic
ACACCATGATTTGTATGTGG+TGG 0.720749 7:+27174628 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr7 gene 27174372 27175946 27174372 ID=MsaG036086
Chr7 mRNA 27174372 27175946 27174372 ID=MsaT036086.1;Parent=MsaG036086
Chr7 exon 27174372 27175946 27174372 ID=MsaT036086.1.exon1;Parent=MsaT036086.1
Chr7 CDS 27174372 27175946 27174372 ID=cds.MsaT036086.1;Parent=MsaT036086.1
Gene Sequence

>MsaT036086.1

ATGACTAGAATCAGAAAAAAGAAGATCACATCCAAATTGATTGAGAATAATACTCAAAGAAAGGCGCGTTATAAGAAAAGATTGAAAGGGTTGTTCGCCAAAATGGAGCAGGTGACAATCTTATGTGGAATTGAGGCATGTGCGGTTGTCTTTGGGCCAGGTGATACAAAACCATCAATATGGCCATCTCCTACGGTGGCTGAAGACCTAATAACCAAGTATGAGTCAATGTCATTGGATGTACAATCAAAAAATAAGACTGACCAATTGACTTTTTTGAAGGATAAGGGCAAAAAACTTGAAGCAAGCCTTGCAAAGATCGAAAAAGAAAATGAAGAGACTTTAATGGGAGCTTATATGCATCAAATTGAAAACGAAGGTAAGTCTTTAGATGATTTTGATCATGATGTGCCGAATCGTTTGATTGCTTTTACACTTGAAAAAATTAAGATCACTAGAAAGATGTCTAGGCATTTAGAAAAGGAGATCTTGCCTCTTAATAATCCTCCTCCAACGTTGGCACCAATATCTTTTACTTTAGAAGATGGTGATGGGGTACATTCTGGGGTTAACATGTATGGACATGTTTTGAACCAACAACCCTTGTTAGATTTGGTTGAGAAAGTTGATCAAATGACCAGTGGTTTCAATAACAACCATGGAAGTAGCATGGAGATACCTCCACTAACAGATCTTAGTGGTGGTGGTTGTGATAACTTGGCTAATCAAGCCGATTTTGGCAATTTTGATAACAACTTTGATGGTGGCATGGGAATACCATCACCTGAAAATTCTAATGGTGGTTTTTATGCAGCGTTTTTTCAAGATAATTTGCAAGATTTTGATAGTATCATGGAGATATCATCACATGAAAATCATAGTGGTAGTGTTCATGATATGTTTCTTCCTCATGGAAATCAGGGGCATTTTATTAACAATATAGGTAGCAATATTGGGATACAATCACATGAAAATCCTAGTGGTGGTGTAGGTGTGTTGCCTCCTCAAGGATATTTTGGAGGTCAAAGCAACTTTCAAGGTTTTGATGACATTACAGGTAGCAATACAAAGATACTACCACATGCAAATCTGAATGAGAATGTTGATTTGTTGCCTCCTCAAGAAAATTTTGATGATCAAGAAAACTTTGGAGGTTTTGATGACAACATAGATAGCAGCATGTGGATACAACATGCAAATTTTAGTGGTGGTGATACATTGCTTCCTCAAGAAAATTTTGGAGACCAATTTAACTTTGAAGATTTTGATAACAACACTGGTAGCAACATGTTGATACCACCACATACAAATCATGGTGTTGGTAATGTTGATGTTTTGTCTCATCAAAGAAATTTTGAAGTTCACAGAAACTTTGGAGGTTTTGATGATGATACATGTAGCAACATGTGGAAACCTCCACATGAAAATCCAAGCAACGGTGGTGTTGATATGATGACTTTTCATCAAAACAACTTTGGCGGCAATATTAATGGAGATGGGATGCGGAGTTTTAATGCGAACTTTGTTGACAATAATTACAGGAACAACTTCAACCCTGGATTTCCTTCAGAATAA
Protein sequence

>MsaT036086.1

MTRIRKKKITSKLIENNTQRKARYKKRLKGLFAKMEQVTILCGIEACAVVFGPGDTKPSIWPSPTVAEDLITKYESMSLDVQSKNKTDQLTFLKDKGKKLEASLAKIEKENEETLMGAYMHQIENEGKSLDDFDHDVPNRLIAFTLEKIKITRKMSRHLEKEILPLNNPPPTLAPISFTLEDGDGVHSGVNMYGHVLNQQPLLDLVEKVDQMTSGFNNNHGSSMEIPPLTDLSGGGCDNLANQADFGNFDNNFDGGMGIPSPENSNGGFYAAFFQDNLQDFDSIMEISSHENHSGSVHDMFLPHGNQGHFINNIGSNIGIQSHENPSGGVGVLPPQGYFGGQSNFQGFDDITGSNTKILPHANLNENVDLLPPQENFDDQENFGGFDDNIDSSMWIQHANFSGGDTLLPQENFGDQFNFEDFDNNTGSNMLIPPHTNHGVGNVDVLSHQRNFEVHRNFGGFDDDTCSNMWKPPHENPSNGGVDMMTFHQNNFGGNINGDGMRSFNANFVDNNYRNNFNPGFPSE*