AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene015461

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene015461.t1 MTR_5g012000 96.939 196 6 0 1 196 22 217 1.14e-141 394
MS.gene015461.t1 MTR_4g101760 62.887 194 61 2 9 191 10 203 4.51e-84 247
MS.gene015461.t1 MTR_3g008840 53.571 168 77 1 23 190 21 187 9.37e-65 197
MS.gene015461.t1 MTR_3g008820 51.190 168 81 1 23 190 20 186 4.42e-62 191
MS.gene015461.t1 MTR_4g035905 42.424 165 92 1 27 191 36 197 4.03e-44 145
MS.gene015461.t1 MTR_4g035870 37.688 199 112 2 1 190 1 196 4.10e-41 138
MS.gene015461.t1 MTR_4g035880 41.463 164 93 1 27 190 36 196 1.66e-40 136
MS.gene015461.t1 MTR_4g025550 37.811 201 107 6 9 195 10 206 4.43e-38 130
MS.gene015461.t1 MTR_4g025610 36.735 196 116 4 7 195 12 206 3.83e-37 128
MS.gene015461.t1 MTR_4g025590 38.068 176 97 4 27 193 3 175 6.28e-36 124
MS.gene015461.t1 MTR_4g025620 35.052 194 114 4 7 191 12 202 6.23e-35 122
MS.gene015461.t1 MTR_8g104765 38.012 171 97 3 25 187 42 211 7.50e-33 117
MS.gene015461.t1 MTR_4g120825 38.012 171 97 3 25 187 33 202 8.40e-33 117
MS.gene015461.t1 MTR_4g120830 38.012 171 97 3 25 187 33 202 1.31e-32 116
MS.gene015461.t1 MTR_7g108790 35.185 162 100 2 28 189 34 190 2.02e-29 108
MS.gene015461.t1 MTR_3g008760 34.161 161 102 2 27 185 66 224 5.59e-28 105
MS.gene015461.t1 MTR_2g043560 35.912 181 95 6 16 189 23 189 1.16e-25 98.6
MS.gene015461.t1 MTR_4g124855 31.606 193 115 5 8 189 13 199 2.70e-24 95.1
MS.gene015461.t1 MTR_4g035855 30.435 161 111 1 27 187 43 202 8.27e-22 88.6
MS.gene015461.t1 MTR_1g088540 29.730 148 99 2 42 189 1 143 1.83e-18 78.6
MS.gene015461.t1 MTR_3g091380 30.247 162 108 2 24 182 74 233 5.06e-17 79.0
MS.gene015461.t1 MTR_1g008140 29.167 168 107 3 24 182 78 242 3.83e-16 76.3
MS.gene015461.t1 MTR_8g023310 24.841 157 114 2 28 182 68 222 3.47e-14 70.5
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene015461.t1 AT1G62770 49.756 205 93 6 1 196 1 204 2.54e-60 187
MS.gene015461.t1 AT4G12390 56.213 169 70 2 27 192 39 206 9.37e-60 186
MS.gene015461.t1 AT5G62350 47.273 165 86 1 27 190 38 202 8.29e-55 173
MS.gene015461.t1 AT4G25260 45.856 181 97 1 11 190 21 201 1.00e-54 173
MS.gene015461.t1 AT3G47380 42.268 194 102 2 7 190 9 202 1.96e-51 164
MS.gene015461.t1 AT5G62360 41.212 165 93 2 26 190 42 202 1.40e-44 147
MS.gene015461.t1 AT1G62760 42.614 176 91 2 20 191 140 309 4.26e-41 141
MS.gene015461.t1 AT1G14890 40.964 166 91 2 26 189 57 217 3.78e-38 131
MS.gene015461.t1 AT2G01610 39.548 177 94 3 26 189 43 219 1.27e-36 127
MS.gene015461.t1 AT5G20740 40.361 166 90 3 26 186 32 193 1.43e-35 124
MS.gene015461.t1 AT5G20740 40.361 166 90 3 26 186 66 227 4.44e-35 124
MS.gene015461.t1 AT4G00080 36.181 199 112 6 1 185 1 198 1.32e-33 119
MS.gene015461.t1 AT4G25250 34.356 163 105 2 27 188 37 198 1.55e-33 119
MS.gene015461.t1 AT1G70720 33.702 181 111 3 12 187 18 194 1.62e-28 105
MS.gene015461.t1 AT1G70720 33.702 181 111 3 12 187 30 206 1.72e-28 106
MS.gene015461.t1 AT5G51520 33.333 168 102 2 27 186 37 202 5.70e-27 102
MS.gene015461.t1 AT1G23205 34.574 188 102 5 11 184 17 197 1.29e-24 95.9
MS.gene015461.t1 AT3G62820 32.258 186 116 5 8 188 11 191 9.67e-22 88.2
MS.gene015461.t1 AT3G14310 27.374 179 125 3 14 189 43 219 4.47e-20 87.8
MS.gene015461.t1 AT2G47670 30.061 163 110 2 25 187 46 204 5.77e-19 81.3
MS.gene015461.t1 AT1G53830 28.313 166 116 2 21 185 55 218 3.33e-17 79.3
MS.gene015461.t1 AT3G49220 31.609 174 93 7 24 190 128 282 9.12e-15 72.0
MS.gene015461.t1 AT3G49220 31.609 174 93 7 24 190 128 282 1.35e-14 71.6
MS.gene015461.t1 AT3G49220 31.609 174 93 7 24 190 83 237 1.55e-14 71.6
MS.gene015461.t1 AT5G53370 26.875 160 109 4 24 182 107 259 1.94e-12 65.5
MS.gene015461.t1 AT5G53370 26.875 160 109 4 24 182 71 223 2.35e-12 65.1
MS.gene015461.t1 AT3G14300 25.568 176 124 2 22 191 265 439 9.73e-12 63.5
MS.gene015461.t1 AT5G62340 24.623 199 127 5 9 190 14 206 3.00e-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 5.4:+6212153 MS.gene015461:CDS
ACTTGTCTTGATGGCTTTGC+TGG 0.284433 5.4:+6212162 MS.gene015461:CDS
TAGAGCAGGGGTTTATTTGC+TGG 0.342763 5.4:+6211732 MS.gene015461:CDS
AGAAAACATGGGTGACAGTT+TGG 0.352972 5.4:+6212020 MS.gene015461:CDS
ATTGACAACCCTGTCCTTGA+TGG 0.385514 5.4:-6212214 None:intergenic
ACAGTCTTAGCCAATCGGTT+AGG 0.388918 5.4:+6212043 MS.gene015461:CDS
ATGGGGTATGCGAGCGTGAT+TGG 0.403801 5.4:+6211859 MS.gene015461:CDS
TTCCATGAATGGAATTGTTA+AGG 0.412818 5.4:+6212188 MS.gene015461:CDS
TCGTTAGTTGTCGCTCGCTT+TGG 0.415738 5.4:-6211882 None:intergenic
AGCCTTAACAATTCCATTCA+TGG 0.416556 5.4:-6212190 None:intergenic
GTAAACATGGCGGCTAGAGC+AGG 0.417002 5.4:+6211718 None:intergenic
AACCAAAGTGAGTGTGTTGC+TGG 0.417524 5.4:-6212250 None:intergenic
ACATGAACAACGTGCAGACT+TGG 0.438369 5.4:+6212112 MS.gene015461:CDS
AGCCAATCGGTTAGGGAGTT+AGG 0.439103 5.4:+6212051 MS.gene015461:CDS
TTTGCTGGTCCTTCCATGAA+TGG 0.446590 5.4:+6212177 MS.gene015461:CDS
CGATGCACTCGATCGTGTCC+TGG 0.450154 5.4:-6211929 None:intergenic
CAGTCTTAGCCAATCGGTTA+GGG 0.452763 5.4:+6212044 MS.gene015461:CDS
AGACATTGAACGCATAAAAC+AGG 0.460054 5.4:-6211835 None:intergenic
GGCAGTATTGGTCATGCTGT+TGG 0.460878 5.4:+6212072 MS.gene015461:CDS
TTTATGCGTTCAATGTCTCA+TGG 0.462904 5.4:+6211840 MS.gene015461:CDS
GTTAGGGAGTTAGGCAGTAT+TGG 0.470731 5.4:+6212060 MS.gene015461:CDS
GAACTCTGATGGGGTTATAG+AGG 0.476311 5.4:-6211782 None:intergenic
TTAAGGCTGCCATCAAGGAC+AGG 0.476862 5.4:+6212205 MS.gene015461:CDS
TACCAGCAACACACTCACTT+TGG 0.484286 5.4:+6212248 MS.gene015461:CDS
TGTACGGCTCTGTACTCCCT+TGG 0.486585 5.4:-6211988 None:intergenic
CTCTATCAGTGAGCATATCC+AGG 0.495431 5.4:+6211911 MS.gene015461:CDS
TTATGCGTTCAATGTCTCAT+GGG 0.496994 5.4:+6211841 MS.gene015461:CDS
TTTGGACAGTCTTAGCCAAT+CGG 0.504656 5.4:+6212038 MS.gene015461:CDS
GGCAAGAGGCATCAAGCCAA+GGG 0.526611 5.4:+6211972 MS.gene015461:CDS
TTCTGCAGTTCGATGGCTTG+AGG 0.534233 5.4:-6212283 None:intergenic
AATTGTTAAGGCTGCCATCA+AGG 0.538854 5.4:+6212200 MS.gene015461:CDS
TGCCTAACTCCCTAACCGAT+TGG 0.544285 5.4:-6212053 None:intergenic
AGGCAAGAGGCATCAAGCCA+AGG 0.545433 5.4:+6211971 MS.gene015461:CDS
TAAACATGGCGGCTAGAGCA+GGG 0.549343 5.4:+6211719 None:intergenic
GAGGACTTGATGAACTCTGA+TGG 0.549989 5.4:-6211793 None:intergenic
AGGACTTGATGAACTCTGAT+GGG 0.550827 5.4:-6211792 None:intergenic
AAGGAGTTTCTGCAGTTCGA+TGG 0.560457 5.4:-6212290 None:intergenic
CTGCAGTCACAAGGCTCATG+AGG 0.571475 5.4:-6211756 None:intergenic
ACAAGACTGCATAGAAAACA+TGG 0.577763 5.4:+6212008 MS.gene015461:CDS
CATGAACAACGTGCAGACTT+GGG 0.585314 5.4:+6212113 MS.gene015461:CDS
TATGCGTTCAATGTCTCATG+GGG 0.593117 5.4:+6211842 MS.gene015461:CDS
TTAACAATTCCATTCATGGA+AGG 0.596367 5.4:-6212186 None:intergenic
TAAGGCTGCCATCAAGGACA+GGG 0.619720 5.4:+6212206 MS.gene015461:CDS
TATTGGTCATGCTGTTGGAG+AGG 0.620267 5.4:+6212077 MS.gene015461:CDS
TAGAGGATTCTGCAGTCACA+AGG 0.636790 5.4:-6211765 None:intergenic
CAGAAGATATCAAAGGCAAG+AGG 0.641738 5.4:+6211958 MS.gene015461:CDS
GTTTGTACAGAAGATATCAA+AGG 0.649432 5.4:+6211951 MS.gene015461:CDS
AAACATGGCGGCTAGAGCAG+GGG 0.656730 5.4:+6211720 None:intergenic
ATAGCGAGTAGCTCTACATG+AGG 0.683240 5.4:-6211812 None:intergenic
GGATATGCTCACTGATAGAG+CGG 0.692375 5.4:-6211908 None:intergenic
GGACTTGATGAACTCTGATG+GGG 0.708124 5.4:-6211791 None:intergenic
CAAGACTGCATAGAAAACAT+GGG 0.713583 5.4:+6212009 MS.gene015461:CDS
CTGTTGGAGAGGACTTCGTG+TGG 0.729717 5.4:+6212088 MS.gene015461:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
GTTTGTACAGAAGATATCAA+AGG + chr5.4:6211951-6211970 MS.gene015461:CDS 30.0%
TTAACAATTCCATTCATGGA+AGG - chr5.4:6212189-6212208 None:intergenic 30.0%
TTCCATGAATGGAATTGTTA+AGG + chr5.4:6212188-6212207 MS.gene015461:CDS 30.0%
ACAAGACTGCATAGAAAACA+TGG + chr5.4:6212008-6212027 MS.gene015461:CDS 35.0%
AGACATTGAACGCATAAAAC+AGG - chr5.4:6211838-6211857 None:intergenic 35.0%
AGCCTTAACAATTCCATTCA+TGG - chr5.4:6212193-6212212 None:intergenic 35.0%
CAAGACTGCATAGAAAACAT+GGG + chr5.4:6212009-6212028 MS.gene015461:CDS 35.0%
GATGATAACACTTGTCTTGA+TGG + chr5.4:6212153-6212172 MS.gene015461:CDS 35.0%
TTATGCGTTCAATGTCTCAT+GGG + chr5.4:6211841-6211860 MS.gene015461:CDS 35.0%
TTTATGCGTTCAATGTCTCA+TGG + chr5.4:6211840-6211859 MS.gene015461:CDS 35.0%
!! GTTTTCTATGCAGTCTTGTA+CGG - chr5.4:6212007-6212026 None:intergenic 35.0%
AATTGTTAAGGCTGCCATCA+AGG + chr5.4:6212200-6212219 MS.gene015461:CDS 40.0%
AGAAAACATGGGTGACAGTT+TGG + chr5.4:6212020-6212039 MS.gene015461:CDS 40.0%
AGGACTTGATGAACTCTGAT+GGG - chr5.4:6211795-6211814 None:intergenic 40.0%
CAGAAGATATCAAAGGCAAG+AGG + chr5.4:6211958-6211977 MS.gene015461:CDS 40.0%
TATGCGTTCAATGTCTCATG+GGG + chr5.4:6211842-6211861 MS.gene015461:CDS 40.0%
TTTGGACAGTCTTAGCCAAT+CGG + chr5.4:6212038-6212057 MS.gene015461:CDS 40.0%
AACCAAAGTGAGTGTGTTGC+TGG - chr5.4:6212253-6212272 None:intergenic 45.0%
AAGGAGTTTCTGCAGTTCGA+TGG - chr5.4:6212293-6212312 None:intergenic 45.0%
ACAGTCTTAGCCAATCGGTT+AGG + chr5.4:6212043-6212062 MS.gene015461:CDS 45.0%
ACATGAACAACGTGCAGACT+TGG + chr5.4:6212112-6212131 MS.gene015461:CDS 45.0%
ATTGACAACCCTGTCCTTGA+TGG - chr5.4:6212217-6212236 None:intergenic 45.0%
CAGTCTTAGCCAATCGGTTA+GGG + chr5.4:6212044-6212063 MS.gene015461:CDS 45.0%
CATGAACAACGTGCAGACTT+GGG + chr5.4:6212113-6212132 MS.gene015461:CDS 45.0%
CTCTATCAGTGAGCATATCC+AGG + chr5.4:6211911-6211930 MS.gene015461:CDS 45.0%
GAACTCTGATGGGGTTATAG+AGG - chr5.4:6211785-6211804 None:intergenic 45.0%
GAGGACTTGATGAACTCTGA+TGG - chr5.4:6211796-6211815 None:intergenic 45.0%
GGACTTGATGAACTCTGATG+GGG - chr5.4:6211794-6211813 None:intergenic 45.0%
GGATATGCTCACTGATAGAG+CGG - chr5.4:6211911-6211930 None:intergenic 45.0%
GTTAGGGAGTTAGGCAGTAT+TGG + chr5.4:6212060-6212079 MS.gene015461:CDS 45.0%
TACCAGCAACACACTCACTT+TGG + chr5.4:6212248-6212267 MS.gene015461:CDS 45.0%
TAGAGCAGGGGTTTATTTGC+TGG + chr5.4:6211732-6211751 MS.gene015461:CDS 45.0%
TAGAGGATTCTGCAGTCACA+AGG - chr5.4:6211768-6211787 None:intergenic 45.0%
TATTGGTCATGCTGTTGGAG+AGG + chr5.4:6212077-6212096 MS.gene015461:CDS 45.0%
TTTGCTGGTCCTTCCATGAA+TGG + chr5.4:6212177-6212196 MS.gene015461:CDS 45.0%
! ACTTGTCTTGATGGCTTTGC+TGG + chr5.4:6212162-6212181 MS.gene015461:CDS 45.0%
! ATAGCGAGTAGCTCTACATG+AGG - chr5.4:6211815-6211834 None:intergenic 45.0%
AGCCAATCGGTTAGGGAGTT+AGG + chr5.4:6212051-6212070 MS.gene015461:CDS 50.0%
TAAGGCTGCCATCAAGGACA+GGG + chr5.4:6212206-6212225 MS.gene015461:CDS 50.0%
TCGTTAGTTGTCGCTCGCTT+TGG - chr5.4:6211885-6211904 None:intergenic 50.0%
TGCCTAACTCCCTAACCGAT+TGG - chr5.4:6212056-6212075 None:intergenic 50.0%
TTAAGGCTGCCATCAAGGAC+AGG + chr5.4:6212205-6212224 MS.gene015461:CDS 50.0%
TTCTGCAGTTCGATGGCTTG+AGG - chr5.4:6212286-6212305 None:intergenic 50.0%
!! GGCAGTATTGGTCATGCTGT+TGG + chr5.4:6212072-6212091 MS.gene015461:CDS 50.0%
ATGGGGTATGCGAGCGTGAT+TGG + chr5.4:6211859-6211878 MS.gene015461:CDS 55.0%
CTGCAGTCACAAGGCTCATG+AGG - chr5.4:6211759-6211778 None:intergenic 55.0%
CTGTTGGAGAGGACTTCGTG+TGG + chr5.4:6212088-6212107 MS.gene015461:CDS 55.0%
TGTACGGCTCTGTACTCCCT+TGG - chr5.4:6211991-6212010 None:intergenic 55.0%
!! AGGCAAGAGGCATCAAGCCA+AGG + chr5.4:6211971-6211990 MS.gene015461:CDS 55.0%
!! GGCAAGAGGCATCAAGCCAA+GGG + chr5.4:6211972-6211991 MS.gene015461:CDS 55.0%
CGATGCACTCGATCGTGTCC+TGG - chr5.4:6211932-6211951 None:intergenic 60.0%


Chromosome Type Strat End Strand Name
chr5.4 gene 6211724 6212314 6211724 ID=MS.gene015461
chr5.4 mRNA 6211724 6212314 6211724 ID=MS.gene015461.t1;Parent=MS.gene015461
chr5.4 exon 6211724 6212314 6211724 ID=MS.gene015461.t1.exon1;Parent=MS.gene015461.t1
chr5.4 CDS 6211724 6212314 6211724 ID=cds.MS.gene015461.t1;Parent=MS.gene015461.t1
Gene Sequence

>MS.gene015461

ATGGCGGCTAGAGCAGGGGTTTATTTGCTGGTCCTCATGAGCCTTGTGACTGCAGAATCCTCTATAACCCCATCAGAGTTCATCAAGTCCTCATGTAGAGCTACTCGCTATCCTGTTTTATGCGTTCAATGTCTCATGGGGTATGCGAGCGTGATTGGCCAAAGCGAGCGACAACTAACGATAACCGCTCTATCAGTGAGCATATCCAGGACACGATCGAGTGCATCGTTTGTACAGAAGATATCAAAGGCAAGAGGCATCAAGCCAAGGGAGTACAGAGCCGTACAAGACTGCATAGAAAACATGGGTGACAGTTTGGACAGTCTTAGCCAATCGGTTAGGGAGTTAGGCAGTATTGGTCATGCTGTTGGAGAGGACTTCGTGTGGCACATGAACAACGTGCAGACTTGGGTCAGTGCTGCACTTACTGATGATAACACTTGTCTTGATGGCTTTGCTGGTCCTTCCATGAATGGAATTGTTAAGGCTGCCATCAAGGACAGGGTTGTCAATGTTGCTCAAGTTACCAGCAACACACTCACTTTGGTTAATCACTTCGCCTCAAGCCATCGAACTGCAGAAACTCCTTAA
Protein sequence

>MS.gene015461.t1

MAARAGVYLLVLMSLVTAESSITPSEFIKSSCRATRYPVLCVQCLMGYASVIGQSERQLTITALSVSISRTRSSASFVQKISKARGIKPREYRAVQDCIENMGDSLDSLSQSVRELGSIGHAVGEDFVWHMNNVQTWVSAALTDDNTCLDGFAGPSMNGIVKAAIKDRVVNVAQVTSNTLTLVNHFASSHRTAETP