AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene025785

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene025785.t1 MTR_5g012000 96.429 196 7 0 1 196 22 217 1.47e-140 390
MS.gene025785.t1 MTR_4g101760 63.402 194 60 2 9 191 10 203 8.83e-85 249
MS.gene025785.t1 MTR_3g008840 53.571 168 77 1 23 190 21 187 2.17e-64 197
MS.gene025785.t1 MTR_3g008820 51.190 168 81 1 23 190 20 186 1.04e-61 190
MS.gene025785.t1 MTR_4g035905 43.030 165 91 1 27 191 36 197 1.87e-44 146
MS.gene025785.t1 MTR_4g035870 38.191 199 111 2 1 190 1 196 2.55e-41 138
MS.gene025785.t1 MTR_4g035880 42.073 164 92 1 27 190 36 196 8.75e-41 137
MS.gene025785.t1 MTR_4g025550 37.811 201 107 6 9 195 10 206 8.20e-38 130
MS.gene025785.t1 MTR_4g025610 36.735 196 116 4 7 195 12 206 6.36e-37 127
MS.gene025785.t1 MTR_4g025590 38.043 184 97 5 27 196 3 183 2.95e-36 125
MS.gene025785.t1 MTR_4g025620 35.567 194 113 4 7 191 12 202 2.34e-35 124
MS.gene025785.t1 MTR_8g104765 38.596 171 96 3 25 187 42 211 1.53e-33 119
MS.gene025785.t1 MTR_4g120825 38.596 171 96 3 25 187 33 202 2.31e-33 118
MS.gene025785.t1 MTR_4g120830 38.596 171 96 3 25 187 33 202 3.52e-33 118
MS.gene025785.t1 MTR_7g108790 35.802 162 99 2 28 189 34 190 1.11e-29 108
MS.gene025785.t1 MTR_3g008760 34.161 161 102 2 27 185 66 224 1.84e-27 103
MS.gene025785.t1 MTR_2g043560 35.912 181 95 6 16 189 23 189 1.26e-25 98.6
MS.gene025785.t1 MTR_4g124855 31.606 193 115 5 8 189 13 199 7.96e-24 94.0
MS.gene025785.t1 MTR_4g035855 31.056 161 110 1 27 187 43 202 2.05e-22 90.1
MS.gene025785.t1 MTR_1g088540 30.405 148 98 2 42 189 1 143 3.99e-19 80.1
MS.gene025785.t1 MTR_3g091380 30.247 162 108 2 24 182 74 233 1.80e-17 80.1
MS.gene025785.t1 MTR_1g008140 29.167 168 107 3 24 182 78 242 1.65e-16 77.4
MS.gene025785.t1 MTR_8g023310 25.478 157 113 2 28 182 68 222 1.87e-14 71.2
MS.gene025785.t1 MTR_8g023150 29.940 167 107 6 20 183 69 228 3.69e-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.gene025785.t1 AT1G62770 50.732 205 91 6 1 196 1 204 5.35e-61 189
MS.gene025785.t1 AT4G12390 56.805 169 69 2 27 192 39 206 1.55e-60 187
MS.gene025785.t1 AT5G62350 47.273 165 86 1 27 190 38 202 4.92e-55 174
MS.gene025785.t1 AT4G25260 46.409 181 96 1 11 190 21 201 7.06e-55 173
MS.gene025785.t1 AT3G47380 42.784 194 101 2 7 190 9 202 3.48e-52 166
MS.gene025785.t1 AT5G62360 41.818 165 92 2 26 190 42 202 9.45e-45 147
MS.gene025785.t1 AT1G62760 43.182 176 90 2 20 191 140 309 7.95e-42 143
MS.gene025785.t1 AT1G14890 41.566 166 90 2 26 189 57 217 3.52e-39 134
MS.gene025785.t1 AT2G01610 40.113 177 93 3 26 189 43 219 7.68e-37 128
MS.gene025785.t1 AT5G20740 40.361 166 90 3 26 186 32 193 1.41e-35 124
MS.gene025785.t1 AT5G20740 40.361 166 90 3 26 186 66 227 3.29e-35 124
MS.gene025785.t1 AT4G25250 34.969 163 104 2 27 188 37 198 2.95e-34 120
MS.gene025785.t1 AT4G00080 36.683 199 111 6 1 185 1 198 6.87e-34 120
MS.gene025785.t1 AT1G70720 34.254 181 110 3 12 187 18 194 3.54e-29 107
MS.gene025785.t1 AT1G70720 34.254 181 110 3 12 187 30 206 3.93e-29 107
MS.gene025785.t1 AT5G51520 33.929 168 101 2 27 186 37 202 1.65e-27 103
MS.gene025785.t1 AT1G23205 36.413 184 104 4 11 184 17 197 1.14e-25 98.6
MS.gene025785.t1 AT3G62820 32.258 186 116 5 8 188 11 191 1.49e-21 87.8
MS.gene025785.t1 AT3G14310 27.933 179 124 3 14 189 43 219 2.05e-20 88.6
MS.gene025785.t1 AT2G47670 30.061 163 110 2 25 187 46 204 8.95e-19 80.9
MS.gene025785.t1 AT1G53830 28.235 170 119 2 21 189 55 222 1.88e-17 80.1
MS.gene025785.t1 AT3G49220 32.184 174 92 7 24 190 128 282 1.99e-15 73.9
MS.gene025785.t1 AT3G49220 32.184 174 92 7 24 190 128 282 3.56e-15 73.6
MS.gene025785.t1 AT3G49220 32.184 174 92 7 24 190 83 237 4.35e-15 73.2
MS.gene025785.t1 AT3G14300 25.824 182 127 3 22 196 265 445 7.92e-13 66.6
MS.gene025785.t1 AT5G53370 27.500 160 108 4 24 182 107 259 9.77e-13 66.2
MS.gene025785.t1 AT5G53370 27.500 160 108 4 24 182 71 223 1.16e-12 66.2
MS.gene025785.t1 AT5G62340 24.623 199 127 5 9 190 14 206 5.08e-11 59.7

Find 54 sgRNAs with CRISPR-Local

Find 52 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GATGATAACACTTGTCTTGA+TGG 0.271370 5.3:+5315956 MS.gene025785:CDS
ACTTGTCTTGATGGCTTTGC+TGG 0.284433 5.3:+5315965 MS.gene025785:CDS
TAGAGCAGGGGTTTATTTGC+TGG 0.342763 5.3:+5315535 MS.gene025785:CDS
AGAAAACATGGGTGACAGTT+TGG 0.352972 5.3:+5315823 MS.gene025785:CDS
AGCCAATCGGTTAGGGAGTT+GGG 0.362673 5.3:+5315854 MS.gene025785:CDS
ATTGACAACCCTGTCCTTGA+TGG 0.385514 5.3:-5316017 None:intergenic
ACAGTCTTAGCCAATCGGTT+AGG 0.388918 5.3:+5315846 MS.gene025785:CDS
TACCAGCAACACACTCGCTT+TGG 0.400248 5.3:+5316051 MS.gene025785:CDS
ATGGGGTATGCGAGCGTGAT+TGG 0.403801 5.3:+5315662 MS.gene025785:CDS
TTTCATGAATGGAATTGTTA+AGG 0.406957 5.3:+5315991 MS.gene025785:CDS
AACCAAAGCGAGTGTGTTGC+TGG 0.408904 5.3:-5316053 None:intergenic
TCGTTAGTTGTCGCTCGCTT+TGG 0.415738 5.3:-5315685 None:intergenic
TTTGCTGGTCCTTTCATGAA+TGG 0.433096 5.3:+5315980 MS.gene025785:CDS
ACATGAACAACGTGCAGACT+TGG 0.438369 5.3:+5315915 MS.gene025785:CDS
GTAAACATGGCGGCTAGAGC+AGG 0.443562 5.3:+5315521 None:intergenic
CGATGCACTCGATCGTGTCC+TGG 0.450154 5.3:-5315732 None:intergenic
GGCAGTATTGGTCATGCTGT+TGG 0.452016 5.3:+5315875 MS.gene025785:CDS
CAGTCTTAGCCAATCGGTTA+GGG 0.452763 5.3:+5315847 MS.gene025785:CDS
AGACATTGAACGCATAAAAC+AGG 0.460054 5.3:-5315638 None:intergenic
TAGCCAATCGGTTAGGGAGT+TGG 0.460697 5.3:+5315853 MS.gene025785:CDS
TTTATGCGTTCAATGTCTCA+TGG 0.462904 5.3:+5315643 MS.gene025785:CDS
GTTAGGGAGTTGGGCAGTAT+TGG 0.474490 5.3:+5315863 MS.gene025785:CDS
GAACTCTGATGGGGTTATAG+AGG 0.476311 5.3:-5315585 None:intergenic
TTAAGGCTGCCATCAAGGAC+AGG 0.476862 5.3:+5316008 MS.gene025785:CDS
TGTACGGCTCTGTACTCCCT+TGG 0.486585 5.3:-5315791 None:intergenic
CTCTATCAGTGAGCATATCC+AGG 0.495431 5.3:+5315714 MS.gene025785:CDS
TTATGCGTTCAATGTCTCAT+GGG 0.496994 5.3:+5315644 MS.gene025785:CDS
TTTGGACAGTCTTAGCCAAT+CGG 0.504656 5.3:+5315841 MS.gene025785:CDS
GGCAAGAGGCATCAAGCCAA+GGG 0.526611 5.3:+5315775 MS.gene025785:CDS
TAAACATGGCGGCTAGAGCA+GGG 0.538519 5.3:+5315522 None:intergenic
AATTGTTAAGGCTGCCATCA+AGG 0.538854 5.3:+5316003 MS.gene025785:CDS
TGCCCAACTCCCTAACCGAT+TGG 0.544285 5.3:-5315856 None:intergenic
AGGCAAGAGGCATCAAGCCA+AGG 0.545433 5.3:+5315774 MS.gene025785:CDS
GAGGACTTGATGAACTCTGA+TGG 0.549989 5.3:-5315596 None:intergenic
AGGACTTGATGAACTCTGAT+GGG 0.550827 5.3:-5315595 None:intergenic
TTCCACAGTTCGATGGCTTG+AGG 0.557247 5.3:-5316086 None:intergenic
TTAACAATTCCATTCATGAA+AGG 0.566158 5.3:-5315989 None:intergenic
CTGCAGTCACAAGGCTCATG+AGG 0.571475 5.3:-5315559 None:intergenic
AAGGAGTTTCCACAGTTCGA+TGG 0.573626 5.3:-5316093 None:intergenic
ACAAGACTGCATAGAAAACA+TGG 0.577763 5.3:+5315811 MS.gene025785:CDS
CATGAACAACGTGCAGACTT+GGG 0.585314 5.3:+5315916 MS.gene025785:CDS
TATGCGTTCAATGTCTCATG+GGG 0.593117 5.3:+5315645 MS.gene025785:CDS
CGCCTCAAGCCATCGAACTG+TGG 0.599215 5.3:+5316084 MS.gene025785:CDS
TAAGGCTGCCATCAAGGACA+GGG 0.619720 5.3:+5316009 MS.gene025785:CDS
TATTGGTCATGCTGTTGGAG+AGG 0.620267 5.3:+5315880 MS.gene025785:CDS
TAGAGGATTCTGCAGTCACA+AGG 0.636790 5.3:-5315568 None:intergenic
CAGAAGATATCAAAGGCAAG+AGG 0.641738 5.3:+5315761 MS.gene025785:CDS
GTTTGTACAGAAGATATCAA+AGG 0.649432 5.3:+5315754 MS.gene025785:CDS
AAACATGGCGGCTAGAGCAG+GGG 0.661918 5.3:+5315523 None:intergenic
ATAGCGAGTAGCTCTACATG+AGG 0.683240 5.3:-5315615 None:intergenic
GGATATGCTCACTGATAGAG+CGG 0.692375 5.3:-5315711 None:intergenic
GGACTTGATGAACTCTGATG+GGG 0.708124 5.3:-5315594 None:intergenic
CAAGACTGCATAGAAAACAT+GGG 0.713583 5.3:+5315812 MS.gene025785:CDS
CTGTTGGAGAGGACTTCGTG+TGG 0.729717 5.3:+5315891 MS.gene025785:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
! TTAACAATTCCATTCATGAA+AGG - chr5.3:5315992-5316011 None:intergenic 25.0%
! TTTCATGAATGGAATTGTTA+AGG + chr5.3:5315991-5316010 MS.gene025785:CDS 25.0%
GTTTGTACAGAAGATATCAA+AGG + chr5.3:5315754-5315773 MS.gene025785:CDS 30.0%
ACAAGACTGCATAGAAAACA+TGG + chr5.3:5315811-5315830 MS.gene025785:CDS 35.0%
AGACATTGAACGCATAAAAC+AGG - chr5.3:5315641-5315660 None:intergenic 35.0%
CAAGACTGCATAGAAAACAT+GGG + chr5.3:5315812-5315831 MS.gene025785:CDS 35.0%
GATGATAACACTTGTCTTGA+TGG + chr5.3:5315956-5315975 MS.gene025785:CDS 35.0%
TTATGCGTTCAATGTCTCAT+GGG + chr5.3:5315644-5315663 MS.gene025785:CDS 35.0%
TTTATGCGTTCAATGTCTCA+TGG + chr5.3:5315643-5315662 MS.gene025785:CDS 35.0%
!! GTTTTCTATGCAGTCTTGTA+CGG - chr5.3:5315810-5315829 None:intergenic 35.0%
AATTGTTAAGGCTGCCATCA+AGG + chr5.3:5316003-5316022 MS.gene025785:CDS 40.0%
AGAAAACATGGGTGACAGTT+TGG + chr5.3:5315823-5315842 MS.gene025785:CDS 40.0%
AGGACTTGATGAACTCTGAT+GGG - chr5.3:5315598-5315617 None:intergenic 40.0%
CAGAAGATATCAAAGGCAAG+AGG + chr5.3:5315761-5315780 MS.gene025785:CDS 40.0%
TATGCGTTCAATGTCTCATG+GGG + chr5.3:5315645-5315664 MS.gene025785:CDS 40.0%
TTTGCTGGTCCTTTCATGAA+TGG + chr5.3:5315980-5315999 MS.gene025785:CDS 40.0%
TTTGGACAGTCTTAGCCAAT+CGG + chr5.3:5315841-5315860 MS.gene025785:CDS 40.0%
AAGGAGTTTCCACAGTTCGA+TGG - chr5.3:5316096-5316115 None:intergenic 45.0%
ACAGTCTTAGCCAATCGGTT+AGG + chr5.3:5315846-5315865 MS.gene025785:CDS 45.0%
ACATGAACAACGTGCAGACT+TGG + chr5.3:5315915-5315934 MS.gene025785:CDS 45.0%
ATTGACAACCCTGTCCTTGA+TGG - chr5.3:5316020-5316039 None:intergenic 45.0%
CAGTCTTAGCCAATCGGTTA+GGG + chr5.3:5315847-5315866 MS.gene025785:CDS 45.0%
CATGAACAACGTGCAGACTT+GGG + chr5.3:5315916-5315935 MS.gene025785:CDS 45.0%
CTCTATCAGTGAGCATATCC+AGG + chr5.3:5315714-5315733 MS.gene025785:CDS 45.0%
GAACTCTGATGGGGTTATAG+AGG - chr5.3:5315588-5315607 None:intergenic 45.0%
GAGGACTTGATGAACTCTGA+TGG - chr5.3:5315599-5315618 None:intergenic 45.0%
GGACTTGATGAACTCTGATG+GGG - chr5.3:5315597-5315616 None:intergenic 45.0%
GGATATGCTCACTGATAGAG+CGG - chr5.3:5315714-5315733 None:intergenic 45.0%
TAGAGCAGGGGTTTATTTGC+TGG + chr5.3:5315535-5315554 MS.gene025785:CDS 45.0%
TAGAGGATTCTGCAGTCACA+AGG - chr5.3:5315571-5315590 None:intergenic 45.0%
TATTGGTCATGCTGTTGGAG+AGG + chr5.3:5315880-5315899 MS.gene025785:CDS 45.0%
! ACTTGTCTTGATGGCTTTGC+TGG + chr5.3:5315965-5315984 MS.gene025785:CDS 45.0%
! ATAGCGAGTAGCTCTACATG+AGG - chr5.3:5315618-5315637 None:intergenic 45.0%
AACCAAAGCGAGTGTGTTGC+TGG - chr5.3:5316056-5316075 None:intergenic 50.0%
AGCCAATCGGTTAGGGAGTT+GGG + chr5.3:5315854-5315873 MS.gene025785:CDS 50.0%
GTTAGGGAGTTGGGCAGTAT+TGG + chr5.3:5315863-5315882 MS.gene025785:CDS 50.0%
TAAGGCTGCCATCAAGGACA+GGG + chr5.3:5316009-5316028 MS.gene025785:CDS 50.0%
TACCAGCAACACACTCGCTT+TGG + chr5.3:5316051-5316070 MS.gene025785:CDS 50.0%
TAGCCAATCGGTTAGGGAGT+TGG + chr5.3:5315853-5315872 MS.gene025785:CDS 50.0%
TCGTTAGTTGTCGCTCGCTT+TGG - chr5.3:5315688-5315707 None:intergenic 50.0%
TTAAGGCTGCCATCAAGGAC+AGG + chr5.3:5316008-5316027 MS.gene025785:CDS 50.0%
TTCCACAGTTCGATGGCTTG+AGG - chr5.3:5316089-5316108 None:intergenic 50.0%
!! GGCAGTATTGGTCATGCTGT+TGG + chr5.3:5315875-5315894 MS.gene025785:CDS 50.0%
ATGGGGTATGCGAGCGTGAT+TGG + chr5.3:5315662-5315681 MS.gene025785:CDS 55.0%
CTGCAGTCACAAGGCTCATG+AGG - chr5.3:5315562-5315581 None:intergenic 55.0%
CTGTTGGAGAGGACTTCGTG+TGG + chr5.3:5315891-5315910 MS.gene025785:CDS 55.0%
TGCCCAACTCCCTAACCGAT+TGG - chr5.3:5315859-5315878 None:intergenic 55.0%
TGTACGGCTCTGTACTCCCT+TGG - chr5.3:5315794-5315813 None:intergenic 55.0%
!! AGGCAAGAGGCATCAAGCCA+AGG + chr5.3:5315774-5315793 MS.gene025785:CDS 55.0%
!! GGCAAGAGGCATCAAGCCAA+GGG + chr5.3:5315775-5315794 MS.gene025785:CDS 55.0%
CGATGCACTCGATCGTGTCC+TGG - chr5.3:5315735-5315754 None:intergenic 60.0%
CGCCTCAAGCCATCGAACTG+TGG + chr5.3:5316084-5316103 MS.gene025785:CDS 60.0%


Chromosome Type Strat End Strand Name
chr5.3 gene 5315527 5316117 5315527 ID=MS.gene025785
chr5.3 mRNA 5315527 5316117 5315527 ID=MS.gene025785.t1;Parent=MS.gene025785
chr5.3 exon 5315527 5316117 5315527 ID=MS.gene025785.t1.exon1;Parent=MS.gene025785.t1
chr5.3 CDS 5315527 5316117 5315527 ID=cds.MS.gene025785.t1;Parent=MS.gene025785.t1
Gene Sequence

>MS.gene025785

ATGGCGGCTAGAGCAGGGGTTTATTTGCTGGTCCTCATGAGCCTTGTGACTGCAGAATCCTCTATAACCCCATCAGAGTTCATCAAGTCCTCATGTAGAGCTACTCGCTATCCTGTTTTATGCGTTCAATGTCTCATGGGGTATGCGAGCGTGATTGGCCAAAGCGAGCGACAACTAACGATAACCGCTCTATCAGTGAGCATATCCAGGACACGATCGAGTGCATCGTTTGTACAGAAGATATCAAAGGCAAGAGGCATCAAGCCAAGGGAGTACAGAGCCGTACAAGACTGCATAGAAAACATGGGTGACAGTTTGGACAGTCTTAGCCAATCGGTTAGGGAGTTGGGCAGTATTGGTCATGCTGTTGGAGAGGACTTCGTGTGGCACATGAACAACGTGCAGACTTGGGTCAGTGCTGCACTTACTGATGATAACACTTGTCTTGATGGCTTTGCTGGTCCTTTCATGAATGGAATTGTTAAGGCTGCCATCAAGGACAGGGTTGTCAATGTTGCTCAAGTTACCAGCAACACACTCGCTTTGGTTAATCACTTCGCCTCAAGCCATCGAACTGTGGAAACTCCTTAA
Protein sequence

>MS.gene025785.t1

MAARAGVYLLVLMSLVTAESSITPSEFIKSSCRATRYPVLCVQCLMGYASVIGQSERQLTITALSVSISRTRSSASFVQKISKARGIKPREYRAVQDCIENMGDSLDSLSQSVRELGSIGHAVGEDFVWHMNNVQTWVSAALTDDNTCLDGFAGPFMNGIVKAAIKDRVVNVAQVTSNTLALVNHFASSHRTVETP