AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG017023


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG017023 MtrunA17_Chr3g0135331 83.607 305 31 5 1 298 12 304 5.12e-156 437
MsaG017023 MtrunA17_Chr1g0151971 48.485 297 123 11 6 294 11 285 1.40e-72 225
MsaG017023 MtrunA17_Chr5g0400781 58.084 167 59 4 124 290 114 269 2.78e-56 182
MsaG017023 MtrunA17_Chr7g0258831 69.048 126 36 2 123 248 150 272 2.48e-54 178
MsaG017023 MtrunA17_Chr1g0175651 50.249 201 90 4 50 250 78 268 1.67e-53 176
MsaG017023 MtrunA17_Chr4g0054421 64.567 127 42 2 122 248 116 239 1.44e-51 171
MsaG017023 MtrunA17_Chr2g0308611 64.341 129 43 2 124 252 191 316 1.31e-49 167
MsaG017023 MtrunA17_Chr4g0055851 53.165 158 67 3 123 276 110 264 2.56e-49 165
MsaG017023 MtrunA17_Chr8g0335131 67.521 117 34 2 132 247 145 258 9.10e-48 162
MsaG017023 MtrunA17_Chr5g0399491 62.205 127 44 2 123 248 126 249 2.60e-47 160
MsaG017023 MtrunA17_Chr4g0044091 43.386 189 97 3 62 247 1 182 4.61e-42 144
MsaG017023 MtrunA17_Chr2g0299031 51.656 151 62 4 104 248 50 195 2.46e-38 134
MsaG017023 MtrunA17_Chr4g0071411 59.130 115 44 3 135 247 90 203 4.29e-32 118
MsaG017023 MtrunA17_Chr6g0450991 48.352 91 47 0 130 220 64 154 3.88e-18 82.8
MsaG017023 MtrunA17_Chr1g0179581 42.857 84 48 0 133 216 28 111 1.55e-17 76.6
MsaG017023 MtrunA17_Chr7g0265521 40.000 100 59 1 121 219 50 149 6.12e-17 78.2
MsaG017023 MtrunA17_Chr5g0416391 40.351 114 58 2 121 224 62 175 8.77e-17 79.0
MsaG017023 MtrunA17_Chr7g0217111 40.952 105 55 1 123 220 70 174 1.26e-16 78.2
MsaG017023 MtrunA17_Chr5g0415941 45.745 94 44 1 133 219 87 180 4.50e-16 77.4
MsaG017023 MtrunA17_Chr4g0060031 37.879 132 77 1 89 220 56 182 6.20e-16 77.0
MsaG017023 MtrunA17_Chr3g0123691 40.984 122 64 2 131 245 58 178 1.01e-15 75.9
MsaG017023 MtrunA17_Chr8g0362751 46.809 94 43 1 133 219 89 182 1.06e-15 75.9
MsaG017023 MtrunA17_Chr8g0362151 40.000 100 57 1 124 220 65 164 1.72e-15 75.1
MsaG017023 MtrunA17_Chr6g0453021 44.681 94 45 1 133 219 96 189 1.15e-14 72.8
MsaG017023 MtrunA17_Chr3g0119291 44.211 95 46 1 133 220 59 153 1.55e-14 72.0
MsaG017023 MtrunA17_Chr8g0381741 40.909 110 61 1 121 226 42 151 3.23e-14 71.6
MsaG017023 MtrunA17_Chr8g0346251 37.000 100 60 1 137 236 45 141 2.66e-12 65.5
MsaG017023 MtrunA17_Chr5g0403691 43.158 95 49 1 123 217 48 137 1.22e-11 63.2
MsaG017023 MtrunA17_Chr3g0127511 42.353 85 49 0 136 220 41 125 1.38e-11 63.5
MsaG017023 MtrunA17_Chr5g0403701 39.796 98 59 0 129 226 49 146 5.38e-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
MsaG017023 AT5G06710.1 54.098 183 76 4 89 271 151 325 2.73e-55 182
MsaG017023 AT4G37790.1 67.717 127 38 2 122 248 115 238 5.92e-53 174
MsaG017023 AT2G22800.1 67.200 125 38 2 124 248 104 225 7.33e-51 169
MsaG017023 AT4G16780.1 42.324 241 96 4 43 248 10 242 3.17e-50 167
MsaG017023 AT3G60390.1 62.992 127 43 2 122 247 151 274 2.56e-48 164
MsaG017023 AT5G47370.1 61.719 128 45 2 122 248 119 243 8.80e-47 159
MsaG017023 AT4G17460.1 61.905 126 44 2 124 248 126 248 1.13e-46 158
MsaG017023 AT2G44910.1 63.248 117 41 1 132 248 162 276 3.26e-45 155
MsaG017023 AT2G01430.1 55.639 133 48 3 122 248 122 249 2.76e-40 142
MsaG017023 AT1G70920.1 50.388 129 53 2 121 248 56 174 4.77e-35 126
MsaG017023 AT1G70920.2 50.388 129 53 2 121 248 26 144 5.09e-35 125
MsaG017023 AT5G06710.4 61.176 85 28 2 100 184 162 241 2.26e-23 97.1
MsaG017023 AT2G01430.2 62.319 69 20 2 122 184 122 190 9.49e-19 83.2
MsaG017023 AT5G03790.1 40.000 95 57 0 127 221 71 165 1.77e-16 77.4
MsaG017023 AT3G01470.1 54.167 72 33 0 133 204 68 139 3.78e-16 77.0
MsaG017023 AT1G69780.1 40.541 111 56 2 124 224 73 183 1.75e-15 75.5
MsaG017023 AT2G36610.1 35.714 126 66 3 109 221 44 167 3.82e-15 72.8
MsaG017023 AT2G18550.1 46.154 91 49 0 129 219 57 147 4.78e-15 73.2
MsaG017023 AT5G15150.1 40.741 108 52 2 124 219 101 208 7.39e-15 73.9
MsaG017023 AT1G26960.1 37.288 118 69 1 133 250 71 183 1.31e-14 72.4
MsaG017023 AT5G03790.2 36.066 122 73 1 127 243 71 192 1.66e-14 71.2
MsaG017023 AT1G27045.1 51.389 72 35 0 133 204 68 139 2.36e-14 71.2
MsaG017023 AT1G27045.5 51.389 72 35 0 133 204 25 96 2.71e-14 70.5
MsaG017023 AT1G27045.3 51.389 72 35 0 133 204 25 96 2.71e-14 70.5
MsaG017023 AT1G27045.2 51.389 72 35 0 133 204 17 88 2.75e-14 70.1
MsaG017023 AT4G40060.1 40.187 107 56 2 131 230 57 162 3.58e-14 72.0
MsaG017023 AT1G27045.4 51.389 72 35 0 133 204 68 139 3.59e-14 71.2
MsaG017023 AT5G65310.1 42.857 98 49 1 130 220 69 166 6.78e-14 71.2
MsaG017023 AT5G65310.2 42.857 98 49 1 130 220 51 148 7.44e-14 70.9
MsaG017023 AT2G22430.1 42.268 97 49 1 131 220 60 156 8.30e-14 70.9
MsaG017023 AT3G01220.1 35.593 118 66 2 99 211 53 165 9.20e-14 70.5
MsaG017023 AT4G36740.2 40.816 98 58 0 129 226 52 149 1.06e-13 69.3
MsaG017023 AT4G36740.1 40.816 98 58 0 129 226 51 148 1.10e-13 69.3
MsaG017023 AT2G46680.1 37.895 95 55 1 136 226 35 129 1.03e-11 64.3
MsaG017023 AT2G46680.2 40.000 85 51 0 136 220 35 119 1.99e-11 63.5
MsaG017023 AT3G61890.1 36.000 100 61 1 136 235 33 129 6.64e-11 61.6

Find 75 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GTCTCTTCAATATTATTATT+AGG 0.146207 3:-104977917 None:intergenic
TCTCTTCAATATTATTATTA+GGG 0.203525 3:-104977916 None:intergenic
TATTTGCATAGAAGTGAATT+TGG 0.206531 3:-104979404 None:intergenic
ACTCCTAAGGTAAGAGAATA+TGG 0.209934 3:-104977887 None:intergenic
CTGGCTCATGATGTACTTCT+TGG 0.248157 3:-104978093 None:intergenic
CAAGATTGAGGATTGTTCTT+TGG 0.279678 3:-104978182 None:intergenic
CTCCCTCTTGATGCTATTAG+AGG 0.294156 3:-104978053 None:intergenic
TAGAAGTGAATTTGGGCCTT+TGG 0.313028 3:-104979396 None:intergenic
GCCGGTGCCGGTGCCGGTGC+CGG 0.344947 3:-104979331 None:intergenic
ACCGGCACCGGCACCGGCAC+CGG 0.348075 3:+104979330 MsaT017023.1:CDS
TAAACAAAGCAAGAAGATTA+AGG 0.355539 3:+104977832 MsaT017023.1:CDS
TTTGATATTTCTCTTGGTCT+TGG 0.356272 3:+104977785 MsaT017023.1:CDS
AGCAATAGTTGCAGAAGATT+TGG 0.363873 3:-104979445 None:intergenic
AGAAGTGAATTTGGGCCTTT+GGG 0.375155 3:-104979395 None:intergenic
AGAGGAGGATCCATGTAATA+AGG 0.377051 3:+104977859 MsaT017023.1:CDS
GCCGGTGCCGGTGCCGGTGC+CGG 0.388771 3:-104979325 None:intergenic
AAATAATTACACGCAGCTTC+CGG 0.391339 3:+104979260 MsaT017023.1:CDS
AAGCCTAAGTTTCTTCCTAC+TGG 0.393408 3:-104978158 None:intergenic
AGCTGCGTGTAATTATTTAC+TGG 0.393707 3:-104979255 None:intergenic
AAGAGAAATATCAAAATTCA+TGG 0.395654 3:-104977777 None:intergenic
ATTTGCATAGAAGTGAATTT+GGG 0.397943 3:-104979403 None:intergenic
CATCACGCTAGTAGAATTAG+AGG 0.402844 3:-104978014 None:intergenic
CTCATCGCCGGTGCCGGTGC+CGG 0.407320 3:-104979337 None:intergenic
TGGAGGTGTGGTTTCAAAAC+AGG 0.418208 3:+104978721 MsaT017023.1:CDS
CAAAGAACAATCCTCAATCT+TGG 0.418520 3:+104978183 MsaT017023.1:CDS
ACCGGCACCGGCACCGGCAC+CGG 0.423688 3:+104979324 MsaT017023.1:CDS
TCAACAAATGAAATCTTCTC+TGG 0.427530 3:-104978112 None:intergenic
GAGAGTACAATGATCTTTGA+AGG 0.433397 3:-104978212 None:intergenic
GTTTATGTCTTTGTTCATGA+AGG 0.439832 3:-104977814 None:intergenic
TCAGAAGCAAAAGCAAGAAT+TGG 0.442692 3:+104978668 MsaT017023.1:intron
CAAGAAGATTAAGGAGGAAG+AGG 0.445576 3:+104977841 MsaT017023.1:CDS
ATTTCTCTTGGTCTTGGTCG+TGG 0.454096 3:+104977791 MsaT017023.1:CDS
CTTGATGCTATTAGAGGAGT+TGG 0.458659 3:-104978047 None:intergenic
GCCATTCTCATCGCCGGTGC+CGG 0.463859 3:-104979343 None:intergenic
TATTCTCTTACCTTAGGAGT+TGG 0.474125 3:+104977890 MsaT017023.1:CDS
TGGCAAGCAAGCTGAATCTT+CGG 0.477653 3:+104978688 MsaT017023.1:CDS
TACTACAACAAAGACTGAAT+CGG 0.478308 3:+104977961 MsaT017023.1:CDS
TACCCATATTCTCTTACCTT+AGG 0.484324 3:+104977884 MsaT017023.1:CDS
ATTTGCACCGGCACCGGCAC+CGG 0.484691 3:+104979318 MsaT017023.1:CDS
GAAGGTGTCCTCCAAGATTG+AGG 0.485914 3:-104978194 None:intergenic
AACAGAAGAGAACAAGAGGC+TGG 0.492600 3:+104979188 MsaT017023.1:CDS
ACCGGCACCGGCGATGAGAA+TGG 0.503337 3:+104979342 MsaT017023.1:CDS
TATGGGTATGCCTTATTACA+TGG 0.508332 3:-104977869 None:intergenic
CTCCTAAGGTAAGAGAATAT+GGG 0.512060 3:-104977886 None:intergenic
AAAAGAATTTGCACCGGCAC+CGG 0.514546 3:+104979312 MsaT017023.1:CDS
AGAGAACAAGAGGCTGGAAG+AGG 0.519798 3:+104979194 MsaT017023.1:CDS
AATCAAAGCCGTGGTGTGAG+AGG 0.529506 3:-104979367 None:intergenic
AAAGCTGAAACAAACGGAAG+TGG 0.530773 3:+104979131 MsaT017023.1:CDS
GGCTTTGATTCTCTGCCCAA+AGG 0.536458 3:+104979380 MsaT017023.1:CDS
CTCTTCAATATTATTATTAG+GGG 0.543753 3:-104977915 None:intergenic
CTCTAACAGAAGAGAACAAG+AGG 0.544383 3:+104979184 MsaT017023.1:CDS
CAGGACAAAGCTGAAACAAA+CGG 0.546061 3:+104979125 MsaT017023.1:intron
AGATCATTGTACTCTCAATC+CGG 0.550528 3:+104978219 MsaT017023.1:CDS
AGAAGGGCAAACTGTAAGAC+TGG 0.550866 3:-104979286 None:intergenic
ACTCCAGTAGGAAGAAACTT+AGG 0.556676 3:+104978155 MsaT017023.1:CDS
GGACGAGACAAGTGGAGGTG+TGG 0.566994 3:+104978709 MsaT017023.1:CDS
CAAACTGTAAGACTGGCAAC+CGG 0.573412 3:-104979279 None:intergenic
ATTAGGGGATCCAACTCCTA+AGG 0.574104 3:-104977900 None:intergenic
GAAGATTAAGGAGGAAGAGG+AGG 0.576607 3:+104977844 MsaT017023.1:CDS
AGAGGAGCCATTCTCATCGC+CGG 0.585404 3:-104979349 None:intergenic
GGTTTCAAAACAGGAGGGCA+AGG 0.585888 3:+104978730 MsaT017023.1:CDS
AGAACAATCCTCAATCTTGG+AGG 0.594021 3:+104978186 MsaT017023.1:CDS
AGGTGTGGTTTCAAAACAGG+AGG 0.617414 3:+104978724 MsaT017023.1:CDS
ACTCCTCTAATAGCATCAAG+AGG 0.625878 3:+104978050 MsaT017023.1:CDS
ATGTAAATGATAACTCCAGT+AGG 0.626226 3:+104978143 MsaT017023.1:CDS
TCTTGTAAAAGAATTTGCAC+CGG 0.632422 3:+104979306 MsaT017023.1:CDS
GAATCTTCGGACGAGACAAG+TGG 0.639016 3:+104978701 MsaT017023.1:CDS
CTCCTCTAATAGCATCAAGA+GGG 0.641427 3:+104978051 MsaT017023.1:CDS
ACAAAGCAAGAAGATTAAGG+AGG 0.671987 3:+104977835 MsaT017023.1:CDS
TGGGCAGAGAATCAAAGCCG+TGG 0.678880 3:-104979376 None:intergenic
TCTTCGGACGAGACAAGTGG+AGG 0.693782 3:+104978704 MsaT017023.1:CDS
ACAAACGGAAGTGGACTGTG+AGG 0.696543 3:+104979140 MsaT017023.1:CDS
GGTGTGGTTTCAAAACAGGA+GGG 0.700214 3:+104978725 MsaT017023.1:CDS
GCTTAAGTCCATGAAAACAA+CGG 0.721053 3:+104979227 MsaT017023.1:CDS
GAATGGCTCCTCTCACACCA+CGG 0.757581 3:+104979359 MsaT017023.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr3 gene 104977770 104979473 104977770 ID=MsaG017023
Chr3 mRNA 104977770 104979473 104977770 ID=MsaT017023.1;Parent=MsaG017023
Chr3 exon 104977770 104978240 104977770 ID=MsaT017023.1.exon1;Parent=MsaT017023.1
Chr3 CDS 104977770 104978240 104977770 ID=cds.MsaT017023.1;Parent=MsaT017023.1
Chr3 exon 104978672 104978751 104978672 ID=MsaT017023.1.exon2;Parent=MsaT017023.1
Chr3 CDS 104978672 104978751 104978672 ID=cds.MsaT017023.1;Parent=MsaT017023.1
Chr3 exon 104979128 104979473 104979128 ID=MsaT017023.1.exon3;Parent=MsaT017023.1
Chr3 CDS 104979128 104979473 104979128 ID=cds.MsaT017023.1;Parent=MsaT017023.1
Gene Sequence

>MsaT017023.1

ATGAACACCATGAATTTTGATATTTCTCTTGGTCTTGGTCGTGGCCTTCATGAACAAAGACATAAACAAAGCAAGAAGATTAAGGAGGAAGAGGAGGATCCATGTAATAAGGCATACCCATATTCTCTTACCTTAGGAGTTGGATCCCCTAATAATAATATTGAAGAGACAGATAATCATCAAGTAGCTACTACTACAACAAAGACTGAATCGGATGAGTTTATTTATAATTTGCATCAACGTGCCTCTAATTCTACTAGCGTGATGTCTTCATTTTCCAACTCCTCTAATAGCATCAAGAGGGAGAGAAATGATTTCAACAGCCAAGAAGTACATCATGAGCCAGAGAAGATTTCATTTGTTGATGCTGATGATGTAAATGATAACTCCAGTAGGAAGAAACTTAGGCTTACCAAAGAACAATCCTCAATCTTGGAGGACACCTTCAAAGATCATTGTACTCTCAATCCGAAGCAAAAGCAAGAATTGGCAAGCAAGCTGAATCTTCGGACGAGACAAGTGGAGGTGTGGTTTCAAAACAGGAGGGCAAGGACAAAGCTGAAACAAACGGAAGTGGACTGTGAGGCACTGAAGCATTGTTATGAAACTCTAACAGAAGAGAACAAGAGGCTGGAAGAGGAGTTGAAAGAGCTTAAGTCCATGAAAACAACGGCACAACCAGTAAATAATTACACGCAGCTTCCGGTTGCCAGTCTTACAGTTTGCCCTTCTTGTAAAAGAATTTGCACCGGCACCGGCACCGGCACCGGCACCGGCGATGAGAATGGCTCCTCTCACACCACGGCTTTGATTCTCTGCCCAAAGGCCCAAATTCACTTCTATGCAAATAATAATAACTATACGTTCGCCAAATCTTCTGCAACTATTGCTAGCTAG

Protein sequence

>MsaT017023.1

MNTMNFDISLGLGRGLHEQRHKQSKKIKEEEEDPCNKAYPYSLTLGVGSPNNNIEETDNHQVATTTTKTESDEFIYNLHQRASNSTSVMSSFSNSSNSIKRERNDFNSQEVHHEPEKISFVDADDVNDNSSRKKLRLTKEQSSILEDTFKDHCTLNPKQKQELASKLNLRTRQVEVWFQNRRARTKLKQTEVDCEALKHCYETLTEENKRLEEELKELKSMKTTAQPVNNYTQLPVASLTVCPSCKRICTGTGTGTGTGDENGSSHTTALILCPKAQIHFYANNNNYTFAKSSATIAS*