AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene09946


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene09946.t1 MTR_5g012000 97.449 196 5 0 1 196 22 217 1.74e-142 395
MS.gene09946.t1 MTR_4g101760 63.402 194 60 2 9 191 10 203 9.12e-85 249
MS.gene09946.t1 MTR_3g008840 53.571 168 77 1 23 190 21 187 8.04e-65 198
MS.gene09946.t1 MTR_3g008820 51.190 168 81 1 23 190 20 186 3.72e-62 191
MS.gene09946.t1 MTR_4g035905 43.030 165 91 1 27 191 36 197 6.51e-45 147
MS.gene09946.t1 MTR_4g035870 38.191 199 111 2 1 190 1 196 6.50e-42 140
MS.gene09946.t1 MTR_4g035880 42.073 164 92 1 27 190 36 196 2.55e-41 138
MS.gene09946.t1 MTR_4g025550 38.308 201 106 6 9 195 10 206 8.50e-39 132
MS.gene09946.t1 MTR_4g025610 37.245 196 115 4 7 195 12 206 7.60e-38 130
MS.gene09946.t1 MTR_4g025590 38.636 176 96 4 27 193 3 175 1.37e-36 126
MS.gene09946.t1 MTR_4g025620 35.567 194 113 4 7 191 12 202 1.23e-35 124
MS.gene09946.t1 MTR_8g104765 38.596 171 96 3 25 187 42 211 1.70e-33 119
MS.gene09946.t1 MTR_4g120825 38.596 171 96 3 25 187 33 202 1.71e-33 119
MS.gene09946.t1 MTR_4g120830 38.596 171 96 3 25 187 33 202 2.69e-33 118
MS.gene09946.t1 MTR_7g108790 35.802 162 99 2 28 189 34 190 3.26e-30 110
MS.gene09946.t1 MTR_3g008760 34.161 161 102 2 27 185 66 224 5.41e-28 105
MS.gene09946.t1 MTR_2g043560 35.912 181 95 6 16 189 23 189 1.26e-25 98.6
MS.gene09946.t1 MTR_4g124855 31.606 193 115 5 8 189 13 199 2.45e-24 95.5
MS.gene09946.t1 MTR_4g035855 31.056 161 110 1 27 187 43 202 1.24e-22 90.9
MS.gene09946.t1 MTR_1g088540 30.405 148 98 2 42 189 1 143 3.99e-19 80.1
MS.gene09946.t1 MTR_3g091380 30.864 162 107 2 24 182 74 233 1.20e-17 80.5
MS.gene09946.t1 MTR_1g008140 29.762 168 106 3 24 182 78 242 9.21e-17 78.2
MS.gene09946.t1 MTR_8g023310 25.478 157 113 2 28 182 68 222 8.30e-15 72.4
MS.gene09946.t1 MTR_8g023150 29.341 167 108 5 20 183 69 228 3.83e-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
MS.gene09946.t1 AT1G62770 50.244 205 92 6 1 196 1 204 5.06e-61 189
MS.gene09946.t1 AT4G12390 56.805 169 69 2 27 192 39 206 1.79e-60 187
MS.gene09946.t1 AT4G25260 46.409 181 96 1 11 190 21 201 2.27e-55 174
MS.gene09946.t1 AT5G62350 47.273 165 86 1 27 190 38 202 8.20e-55 173
MS.gene09946.t1 AT3G47380 42.784 194 101 2 7 190 9 202 3.56e-52 166
MS.gene09946.t1 AT5G62360 41.818 165 92 2 26 190 42 202 2.57e-45 149
MS.gene09946.t1 AT1G62760 43.182 176 90 2 20 191 140 309 7.70e-42 143
MS.gene09946.t1 AT1G14890 41.566 166 90 2 26 189 57 217 8.00e-39 133
MS.gene09946.t1 AT2G01610 40.113 177 93 3 26 189 43 219 2.79e-37 129
MS.gene09946.t1 AT5G20740 40.361 166 90 3 26 186 32 193 1.61e-35 124
MS.gene09946.t1 AT5G20740 40.361 166 90 3 26 186 66 227 4.95e-35 124
MS.gene09946.t1 AT4G25250 34.969 163 104 2 27 188 37 198 2.48e-34 120
MS.gene09946.t1 AT4G00080 36.683 199 111 6 1 185 1 198 2.75e-34 121
MS.gene09946.t1 AT1G70720 34.254 181 110 3 12 187 18 194 2.86e-29 107
MS.gene09946.t1 AT1G70720 34.254 181 110 3 12 187 30 206 3.38e-29 108
MS.gene09946.t1 AT5G51520 33.929 168 101 2 27 186 37 202 8.61e-28 104
MS.gene09946.t1 AT1G23205 35.870 184 105 4 11 184 17 197 2.71e-25 97.8
MS.gene09946.t1 AT3G62820 32.796 186 115 5 8 188 11 191 1.76e-22 90.1
MS.gene09946.t1 AT3G14310 27.933 179 124 3 14 189 43 219 8.97e-21 89.7
MS.gene09946.t1 AT2G47670 30.675 163 109 2 25 187 46 204 1.03e-19 83.2
MS.gene09946.t1 AT1G53830 28.235 170 119 2 21 189 55 222 8.07e-18 81.3
MS.gene09946.t1 AT3G49220 32.184 174 92 7 24 190 128 282 2.24e-15 73.9
MS.gene09946.t1 AT3G49220 32.184 174 92 7 24 190 128 282 3.39e-15 73.6
MS.gene09946.t1 AT3G49220 32.184 174 92 7 24 190 83 237 4.03e-15 73.2
MS.gene09946.t1 AT5G53370 27.500 160 108 4 24 182 107 259 4.39e-13 67.4
MS.gene09946.t1 AT5G53370 27.500 160 108 4 24 182 71 223 5.08e-13 67.0
MS.gene09946.t1 AT3G14300 26.136 176 123 2 22 191 265 439 2.25e-12 65.5
MS.gene09946.t1 AT5G62340 25.616 203 120 7 9 190 14 206 2.77e-11 60.5

Find 53 sgRNAs with CRISPR-Local

Find 51 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GATGATAACACTTGTCTTGA+TGG 0.271370 5.2:+4469102 MS.gene09946:CDS
ACTTGTCTTGATGGCTTTGC+TGG 0.284433 5.2:+4469111 MS.gene09946:CDS
TAGAGCAGGGGTTTATTTGC+TGG 0.342763 5.2:+4468681 MS.gene09946:CDS
AGAAAACATGGGTGACAGTT+TGG 0.352972 5.2:+4468969 MS.gene09946:CDS
ATTGACAACCCTGTCCTTGA+TGG 0.385514 5.2:-4469163 None:intergenic
ACAGTCTTAGCCAATCGGTT+AGG 0.388918 5.2:+4468992 MS.gene09946:CDS
TACCAGCAACACACTCGCTT+TGG 0.400248 5.2:+4469197 MS.gene09946:CDS
ATGGGGTATGCGAGCGTGAT+TGG 0.403801 5.2:+4468808 MS.gene09946:CDS
AACCAAAGCGAGTGTGTTGC+TGG 0.408904 5.2:-4469199 None:intergenic
TTCCATGAATGGAATTGTTA+AGG 0.412818 5.2:+4469137 MS.gene09946:CDS
TCGTTAGTTGTCGCTCGCTT+TGG 0.415738 5.2:-4468831 None:intergenic
AGCCTTAACAATTCCATTCA+TGG 0.416556 5.2:-4469139 None:intergenic
GTAAACATGGCGGCTAGAGC+AGG 0.417002 5.2:+4468667 None:intergenic
ACATGAACAACGTGCAGACT+TGG 0.438369 5.2:+4469061 MS.gene09946:CDS
AGCCAATCGGTTAGGGAGTT+AGG 0.439103 5.2:+4469000 MS.gene09946:CDS
TTTGCTGGTCCTTCCATGAA+TGG 0.446590 5.2:+4469126 MS.gene09946:CDS
CGATGCACTCGATCGTGTCC+TGG 0.450154 5.2:-4468878 None:intergenic
CAGTCTTAGCCAATCGGTTA+GGG 0.452763 5.2:+4468993 MS.gene09946:CDS
AGACATTGAACGCATAAAAC+AGG 0.460054 5.2:-4468784 None:intergenic
GGCAGTATTGGTCATGCTGT+TGG 0.460878 5.2:+4469021 MS.gene09946:CDS
TTTATGCGTTCAATGTCTCA+TGG 0.462904 5.2:+4468789 MS.gene09946:CDS
GTTAGGGAGTTAGGCAGTAT+TGG 0.470731 5.2:+4469009 MS.gene09946:CDS
GAACTCTGATGGGGTTATAG+AGG 0.476311 5.2:-4468731 None:intergenic
TTAAGGCTGCCATCAAGGAC+AGG 0.476862 5.2:+4469154 MS.gene09946:CDS
TGTACGGCTCTGTACTCCCT+TGG 0.486585 5.2:-4468937 None:intergenic
CTCTATCAGTGAGCATATCC+AGG 0.495431 5.2:+4468860 MS.gene09946:CDS
TTATGCGTTCAATGTCTCAT+GGG 0.496994 5.2:+4468790 MS.gene09946:CDS
TTTGGACAGTCTTAGCCAAT+CGG 0.504656 5.2:+4468987 MS.gene09946:CDS
GGCAAGAGGCATCAAGCCAA+GGG 0.526611 5.2:+4468921 MS.gene09946:CDS
TTCTGCAGTTCGATGGCTTG+AGG 0.534233 5.2:-4469232 None:intergenic
AATTGTTAAGGCTGCCATCA+AGG 0.538854 5.2:+4469149 MS.gene09946:CDS
TGCCTAACTCCCTAACCGAT+TGG 0.544285 5.2:-4469002 None:intergenic
AGGCAAGAGGCATCAAGCCA+AGG 0.545433 5.2:+4468920 MS.gene09946:CDS
TAAACATGGCGGCTAGAGCA+GGG 0.549343 5.2:+4468668 None:intergenic
GAGGACTTGATGAACTCTGA+TGG 0.549989 5.2:-4468742 None:intergenic
AGGACTTGATGAACTCTGAT+GGG 0.550827 5.2:-4468741 None:intergenic
AAGGAGTTTCTGCAGTTCGA+TGG 0.560457 5.2:-4469239 None:intergenic
CTGCAGTCACAAGGCTCATG+AGG 0.571475 5.2:-4468705 None:intergenic
ACAAGACTGCATAGAAAACA+TGG 0.577763 5.2:+4468957 MS.gene09946:CDS
CATGAACAACGTGCAGACTT+GGG 0.585314 5.2:+4469062 MS.gene09946:CDS
TATGCGTTCAATGTCTCATG+GGG 0.593117 5.2:+4468791 MS.gene09946:CDS
TTAACAATTCCATTCATGGA+AGG 0.596367 5.2:-4469135 None:intergenic
TAAGGCTGCCATCAAGGACA+GGG 0.619720 5.2:+4469155 MS.gene09946:CDS
TATTGGTCATGCTGTTGGAG+AGG 0.620267 5.2:+4469026 MS.gene09946:CDS
TAGAGGATTCTGCAGTCACA+AGG 0.636790 5.2:-4468714 None:intergenic
CAGAAGATATCAAAGGCAAG+AGG 0.641738 5.2:+4468907 MS.gene09946:CDS
GTTTGTACAGAAGATATCAA+AGG 0.649432 5.2:+4468900 MS.gene09946:CDS
AAACATGGCGGCTAGAGCAG+GGG 0.656730 5.2:+4468669 None:intergenic
ATAGCGAGTAGCTCTACATG+AGG 0.683240 5.2:-4468761 None:intergenic
GGATATGCTCACTGATAGAG+CGG 0.692375 5.2:-4468857 None:intergenic
GGACTTGATGAACTCTGATG+GGG 0.708124 5.2:-4468740 None:intergenic
CAAGACTGCATAGAAAACAT+GGG 0.713583 5.2:+4468958 MS.gene09946:CDS
CTGTTGGAGAGGACTTCGTG+TGG 0.729717 5.2:+4469037 MS.gene09946:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
GTTTGTACAGAAGATATCAA+AGG + chr5.2:4468900-4468919 MS.gene09946:CDS 30.0%
TTAACAATTCCATTCATGGA+AGG - chr5.2:4469138-4469157 None:intergenic 30.0%
TTCCATGAATGGAATTGTTA+AGG + chr5.2:4469137-4469156 MS.gene09946:CDS 30.0%
ACAAGACTGCATAGAAAACA+TGG + chr5.2:4468957-4468976 MS.gene09946:CDS 35.0%
AGACATTGAACGCATAAAAC+AGG - chr5.2:4468787-4468806 None:intergenic 35.0%
AGCCTTAACAATTCCATTCA+TGG - chr5.2:4469142-4469161 None:intergenic 35.0%
CAAGACTGCATAGAAAACAT+GGG + chr5.2:4468958-4468977 MS.gene09946:CDS 35.0%
GATGATAACACTTGTCTTGA+TGG + chr5.2:4469102-4469121 MS.gene09946:CDS 35.0%
TTATGCGTTCAATGTCTCAT+GGG + chr5.2:4468790-4468809 MS.gene09946:CDS 35.0%
TTTATGCGTTCAATGTCTCA+TGG + chr5.2:4468789-4468808 MS.gene09946:CDS 35.0%
!! GTTTTCTATGCAGTCTTGTA+CGG - chr5.2:4468956-4468975 None:intergenic 35.0%
AATTGTTAAGGCTGCCATCA+AGG + chr5.2:4469149-4469168 MS.gene09946:CDS 40.0%
AGAAAACATGGGTGACAGTT+TGG + chr5.2:4468969-4468988 MS.gene09946:CDS 40.0%
AGGACTTGATGAACTCTGAT+GGG - chr5.2:4468744-4468763 None:intergenic 40.0%
CAGAAGATATCAAAGGCAAG+AGG + chr5.2:4468907-4468926 MS.gene09946:CDS 40.0%
TATGCGTTCAATGTCTCATG+GGG + chr5.2:4468791-4468810 MS.gene09946:CDS 40.0%
TTTGGACAGTCTTAGCCAAT+CGG + chr5.2:4468987-4469006 MS.gene09946:CDS 40.0%
AAGGAGTTTCTGCAGTTCGA+TGG - chr5.2:4469242-4469261 None:intergenic 45.0%
ACAGTCTTAGCCAATCGGTT+AGG + chr5.2:4468992-4469011 MS.gene09946:CDS 45.0%
ACATGAACAACGTGCAGACT+TGG + chr5.2:4469061-4469080 MS.gene09946:CDS 45.0%
ATTGACAACCCTGTCCTTGA+TGG - chr5.2:4469166-4469185 None:intergenic 45.0%
CAGTCTTAGCCAATCGGTTA+GGG + chr5.2:4468993-4469012 MS.gene09946:CDS 45.0%
CATGAACAACGTGCAGACTT+GGG + chr5.2:4469062-4469081 MS.gene09946:CDS 45.0%
CTCTATCAGTGAGCATATCC+AGG + chr5.2:4468860-4468879 MS.gene09946:CDS 45.0%
GAACTCTGATGGGGTTATAG+AGG - chr5.2:4468734-4468753 None:intergenic 45.0%
GAGGACTTGATGAACTCTGA+TGG - chr5.2:4468745-4468764 None:intergenic 45.0%
GGACTTGATGAACTCTGATG+GGG - chr5.2:4468743-4468762 None:intergenic 45.0%
GGATATGCTCACTGATAGAG+CGG - chr5.2:4468860-4468879 None:intergenic 45.0%
GTTAGGGAGTTAGGCAGTAT+TGG + chr5.2:4469009-4469028 MS.gene09946:CDS 45.0%
TAGAGCAGGGGTTTATTTGC+TGG + chr5.2:4468681-4468700 MS.gene09946:CDS 45.0%
TAGAGGATTCTGCAGTCACA+AGG - chr5.2:4468717-4468736 None:intergenic 45.0%
TATTGGTCATGCTGTTGGAG+AGG + chr5.2:4469026-4469045 MS.gene09946:CDS 45.0%
TTTGCTGGTCCTTCCATGAA+TGG + chr5.2:4469126-4469145 MS.gene09946:CDS 45.0%
! ACTTGTCTTGATGGCTTTGC+TGG + chr5.2:4469111-4469130 MS.gene09946:CDS 45.0%
! ATAGCGAGTAGCTCTACATG+AGG - chr5.2:4468764-4468783 None:intergenic 45.0%
AACCAAAGCGAGTGTGTTGC+TGG - chr5.2:4469202-4469221 None:intergenic 50.0%
AGCCAATCGGTTAGGGAGTT+AGG + chr5.2:4469000-4469019 MS.gene09946:CDS 50.0%
TAAGGCTGCCATCAAGGACA+GGG + chr5.2:4469155-4469174 MS.gene09946:CDS 50.0%
TACCAGCAACACACTCGCTT+TGG + chr5.2:4469197-4469216 MS.gene09946:CDS 50.0%
TCGTTAGTTGTCGCTCGCTT+TGG - chr5.2:4468834-4468853 None:intergenic 50.0%
TGCCTAACTCCCTAACCGAT+TGG - chr5.2:4469005-4469024 None:intergenic 50.0%
TTAAGGCTGCCATCAAGGAC+AGG + chr5.2:4469154-4469173 MS.gene09946:CDS 50.0%
TTCTGCAGTTCGATGGCTTG+AGG - chr5.2:4469235-4469254 None:intergenic 50.0%
!! GGCAGTATTGGTCATGCTGT+TGG + chr5.2:4469021-4469040 MS.gene09946:CDS 50.0%
ATGGGGTATGCGAGCGTGAT+TGG + chr5.2:4468808-4468827 MS.gene09946:CDS 55.0%
CTGCAGTCACAAGGCTCATG+AGG - chr5.2:4468708-4468727 None:intergenic 55.0%
CTGTTGGAGAGGACTTCGTG+TGG + chr5.2:4469037-4469056 MS.gene09946:CDS 55.0%
TGTACGGCTCTGTACTCCCT+TGG - chr5.2:4468940-4468959 None:intergenic 55.0%
!! AGGCAAGAGGCATCAAGCCA+AGG + chr5.2:4468920-4468939 MS.gene09946:CDS 55.0%
!! GGCAAGAGGCATCAAGCCAA+GGG + chr5.2:4468921-4468940 MS.gene09946:CDS 55.0%
CGATGCACTCGATCGTGTCC+TGG - chr5.2:4468881-4468900 None:intergenic 60.0%


Chromosome Type Strat End Strand Name
chr5.2 gene 4468673 4469263 4468673 ID=MS.gene09946
chr5.2 mRNA 4468673 4469263 4468673 ID=MS.gene09946.t1;Parent=MS.gene09946
chr5.2 exon 4468673 4469263 4468673 ID=MS.gene09946.t1.exon1;Parent=MS.gene09946.t1
chr5.2 CDS 4468673 4469263 4468673 ID=cds.MS.gene09946.t1;Parent=MS.gene09946.t1
Gene Sequence

>MS.gene09946

ATGGCGGCTAGAGCAGGGGTTTATTTGCTGGTCCTCATGAGCCTTGTGACTGCAGAATCCTCTATAACCCCATCAGAGTTCATCAAGTCCTCATGTAGAGCTACTCGCTATCCTGTTTTATGCGTTCAATGTCTCATGGGGTATGCGAGCGTGATTGGCCAAAGCGAGCGACAACTAACGATAACCGCTCTATCAGTGAGCATATCCAGGACACGATCGAGTGCATCGTTTGTACAGAAGATATCAAAGGCAAGAGGCATCAAGCCAAGGGAGTACAGAGCCGTACAAGACTGCATAGAAAACATGGGTGACAGTTTGGACAGTCTTAGCCAATCGGTTAGGGAGTTAGGCAGTATTGGTCATGCTGTTGGAGAGGACTTCGTGTGGCACATGAACAACGTGCAGACTTGGGTCAGTGCTGCACTTACTGATGATAACACTTGTCTTGATGGCTTTGCTGGTCCTTCCATGAATGGAATTGTTAAGGCTGCCATCAAGGACAGGGTTGTCAATGTTGCTCAAGTTACCAGCAACACACTCGCTTTGGTTAATCACTTCGCCTCAAGCCATCGAACTGCAGAAACTCCTTAA

Protein sequence

>MS.gene09946.t1

MAARAGVYLLVLMSLVTAESSITPSEFIKSSCRATRYPVLCVQCLMGYASVIGQSERQLTITALSVSISRTRSSASFVQKISKARGIKPREYRAVQDCIENMGDSLDSLSQSVRELGSIGHAVGEDFVWHMNNVQTWVSAALTDDNTCLDGFAGPSMNGIVKAAIKDRVVNVAQVTSNTLALVNHFASSHRTAETP