AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene20736

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene20736.t1 MTR_1g088540 94.000 150 9 0 48 197 2 151 2.15e-100 286
MS.gene20736.t1 MTR_7g108790 68.927 177 53 1 22 196 21 197 6.24e-88 257
MS.gene20736.t1 MTR_4g120825 35.437 206 118 4 1 191 1 206 5.81e-36 125
MS.gene20736.t1 MTR_4g120830 35.437 206 118 4 1 191 1 206 8.94e-36 124
MS.gene20736.t1 MTR_4g035880 35.789 190 105 3 11 189 12 195 5.15e-34 120
MS.gene20736.t1 MTR_8g104765 34.419 215 117 5 1 191 1 215 1.17e-33 119
MS.gene20736.t1 MTR_4g035905 34.715 193 109 3 8 189 9 195 1.30e-33 119
MS.gene20736.t1 MTR_4g035870 34.715 193 109 3 8 189 9 195 1.32e-32 116
MS.gene20736.t1 MTR_3g008840 32.500 160 104 2 33 188 26 185 3.21e-29 107
MS.gene20736.t1 MTR_2g043560 39.181 171 92 4 27 192 29 192 1.22e-28 106
MS.gene20736.t1 MTR_5g012000 31.351 185 119 3 10 189 29 210 9.13e-28 104
MS.gene20736.t1 MTR_3g008820 30.625 160 107 2 33 188 25 184 2.09e-27 102
MS.gene20736.t1 MTR_4g124855 30.159 189 120 5 7 186 11 196 4.61e-22 89.4
MS.gene20736.t1 MTR_4g101760 26.000 200 136 4 1 188 1 200 1.10e-20 85.5
MS.gene20736.t1 MTR_4g025590 32.558 172 95 5 33 188 4 170 1.19e-19 82.4
MS.gene20736.t1 MTR_4g025610 30.178 169 103 4 33 188 33 199 1.20e-19 83.2
MS.gene20736.t1 MTR_4g025550 31.156 199 113 7 8 188 7 199 2.48e-19 82.4
MS.gene20736.t1 MTR_4g025620 29.000 200 119 6 5 188 7 199 8.30e-18 78.2
MS.gene20736.t1 MTR_3g008760 26.415 159 110 4 33 185 67 224 1.62e-16 75.1
MS.gene20736.t1 MTR_0036s0140 28.652 178 115 5 8 183 54 221 1.43e-14 69.7
MS.gene20736.t1 MTR_4g035855 28.750 160 108 3 33 187 44 202 4.12e-14 68.2
MS.gene20736.t1 MTR_8g023150 28.571 161 104 3 32 186 76 231 1.08e-13 68.9
MS.gene20736.t1 MTR_7g112580 26.943 193 124 5 8 186 5 194 2.01e-13 68.2
MS.gene20736.t1 MTR_4g120290 26.875 160 113 2 28 187 54 209 2.43e-13 68.2
MS.gene20736.t1 MTR_8g023310 30.818 159 105 3 33 186 68 226 2.73e-13 67.8
MS.gene20736.t1 MTR_1g008140 27.746 173 112 3 22 182 71 242 1.48e-12 65.9
MS.gene20736.t1 MTR_1g083470 27.950 161 108 3 33 189 58 214 1.51e-12 65.9
MS.gene20736.t1 MTR_1g083500 27.950 161 108 3 33 189 58 214 1.51e-12 65.9
MS.gene20736.t1 MTR_4g124550 36.170 94 58 1 95 188 142 233 1.02e-11 63.5
MS.gene20736.t1 MTR_7g112590 24.204 157 117 2 33 189 59 213 1.88e-11 62.8
MS.gene20736.t1 MTR_4g120280 26.875 160 113 1 28 187 54 209 2.66e-11 62.0
MS.gene20736.t1 MTR_8g042900 26.667 165 110 4 33 189 76 237 3.06e-11 62.0
MS.gene20736.t1 MTR_4g005170 25.581 172 120 3 19 189 55 219 4.16e-11 61.6
MS.gene20736.t1 MTR_2g436040 25.301 166 108 4 28 186 38 194 6.44e-11 61.2
MS.gene20736.t1 MTR_4g005180 26.543 162 109 4 33 189 45 201 8.23e-11 60.8
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene20736.t1 AT3G62820 47.619 189 95 2 6 191 7 194 2.10e-56 177
MS.gene20736.t1 AT2G47670 47.826 161 81 2 33 191 49 208 6.11e-38 130
MS.gene20736.t1 AT5G20740 35.979 189 112 3 10 189 8 196 6.82e-31 112
MS.gene20736.t1 AT4G12390 38.365 159 91 2 36 187 43 201 1.29e-30 111
MS.gene20736.t1 AT5G20740 35.979 189 112 3 10 189 42 230 2.03e-30 112
MS.gene20736.t1 AT5G62350 34.969 163 100 2 33 189 39 201 2.58e-30 110
MS.gene20736.t1 AT5G62360 36.076 158 98 2 33 188 44 200 3.21e-30 110
MS.gene20736.t1 AT1G62760 33.951 162 104 1 31 189 146 307 3.90e-29 110
MS.gene20736.t1 AT1G14890 32.990 194 112 4 10 190 30 218 2.48e-28 105
MS.gene20736.t1 AT4G25260 30.769 195 119 5 10 188 5 199 8.07e-28 104
MS.gene20736.t1 AT2G01610 35.000 180 95 4 31 190 43 220 1.87e-27 103
MS.gene20736.t1 AT3G47380 35.404 161 98 2 33 187 39 199 4.47e-27 102
MS.gene20736.t1 AT1G70720 33.505 194 115 4 8 191 9 198 4.91e-25 97.1
MS.gene20736.t1 AT1G70720 33.505 194 115 4 8 191 21 210 5.17e-25 97.4
MS.gene20736.t1 AT1G23205 34.737 190 111 4 8 185 10 198 1.95e-24 95.5
MS.gene20736.t1 AT1G62770 31.875 160 101 4 36 187 37 196 2.08e-24 95.5
MS.gene20736.t1 AT4G25250 31.013 158 100 4 33 183 38 193 8.45e-19 80.5
MS.gene20736.t1 AT3G14310 33.333 168 106 4 33 195 59 225 7.77e-18 81.3
MS.gene20736.t1 AT5G51520 24.752 202 132 5 5 186 1 202 1.79e-16 74.7
MS.gene20736.t1 AT4G00080 30.120 166 104 5 30 184 33 197 6.26e-15 70.5
MS.gene20736.t1 AT1G53840 28.571 175 110 5 32 196 72 241 4.59e-14 70.1
MS.gene20736.t1 AT3G05610 26.452 155 112 2 33 187 58 210 7.94e-14 69.7
MS.gene20736.t1 AT1G53830 29.940 167 113 3 33 195 62 228 9.56e-14 69.3
MS.gene20736.t1 AT5G04960 30.120 166 99 4 32 196 67 216 1.82e-13 68.6
MS.gene20736.t1 AT4G15980 27.152 151 106 2 37 186 52 199 7.44e-13 66.6
MS.gene20736.t1 AT4G15980 27.152 151 106 2 37 186 62 209 8.61e-13 66.6
MS.gene20736.t1 AT5G27870 26.061 165 119 3 33 197 57 218 1.73e-12 65.9
MS.gene20736.t1 AT3G49220 33.077 130 80 3 28 156 127 250 1.10e-11 63.2
MS.gene20736.t1 AT3G14300 26.347 167 111 4 32 187 270 435 1.17e-11 63.5
MS.gene20736.t1 AT5G49180 27.564 156 111 2 33 187 55 209 2.27e-11 62.4
MS.gene20736.t1 AT3G49220 33.077 130 80 3 28 156 127 250 2.36e-11 62.4
MS.gene20736.t1 AT3G49220 33.077 130 80 3 28 156 82 205 3.52e-11 62.0
MS.gene20736.t1 AT3G05620 25.434 173 112 4 30 186 30 201 5.66e-11 61.2

Find 38 sgRNAs with CRISPR-Local

Find 45 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AACAAGAGCTAGAGCGTTAC+TGG 0.280918 1.2:+66238507 None:intergenic
GATCAAGATACTTGCCTTGA+TGG 0.282001 1.2:-66238598 MS.gene20736:CDS
CCAGCCCTTGCCCACTTGCT+AGG 0.314770 1.2:+66238853 None:intergenic
CTGCACTTATCCATGTATTA+AGG 0.338152 1.2:+66238629 None:intergenic
AGCGTTACTGGTTATATAAT+AGG 0.353010 1.2:+66238519 None:intergenic
ACTTGCCTTGATGGATTTCA+AGG 0.400968 1.2:-66238589 MS.gene20736:CDS
CAGCCCTTGCCCACTTGCTA+GGG 0.415413 1.2:+66238854 None:intergenic
AGTCAGTTGGTATTTGCAAA+AGG 0.416317 1.2:-66238970 MS.gene20736:CDS
ACTAGACACGGGCATTTAAG+AGG 0.436602 1.2:-66238775 MS.gene20736:CDS
CCTAGCAAGTGGGCAAGGGC+TGG 0.454457 1.2:-66238853 MS.gene20736:CDS
GTTAATAAACTTGCCACTAC+AGG 0.455754 1.2:-66238487 MS.gene20736:CDS
ACCAACTGACTTGCAAGGTA+TGG 0.470021 1.2:+66238982 None:intergenic
TTAAGTTTGCGAGATATGCT+TGG 0.470762 1.2:+66238797 None:intergenic
AGGCTAAGTAGAACGACATT+TGG 0.472627 1.2:-66238667 MS.gene20736:CDS
ACGACATTTGGTACCCAGAT+GGG 0.493858 1.2:-66238655 MS.gene20736:CDS
GAAGCCCTAGCAAGTGGGCA+AGG 0.500888 1.2:-66238858 MS.gene20736:CDS
GTCAGTTGGTATTTGCAAAA+GGG 0.511286 1.2:-66238969 MS.gene20736:CDS
CTCGCAAACTTAACTAGACA+CGG 0.515036 1.2:-66238787 MS.gene20736:CDS
GAGAAGCTTGCAAAGTAACT+AGG 0.515953 1.2:-66238933 MS.gene20736:CDS
TCCATACCTTGCAAGTCAGT+TGG 0.518339 1.2:-66238983 MS.gene20736:CDS
AAACTTGCCACTACAGGTCT+AGG 0.519005 1.2:-66238481 MS.gene20736:CDS
GCACCGTTCTCTAACAGTGC+TGG 0.521547 1.2:-66238883 MS.gene20736:CDS
GTGATCTATGAAGCTCATCA+AGG 0.523992 1.2:+66238704 None:intergenic
GATCACTGAATGTGCTCAGA+AGG 0.546424 1.2:-66238687 MS.gene20736:CDS
GCTGGAGTGTCAGTGACAAT+CGG 0.557488 1.2:-66238835 MS.gene20736:CDS
CAAATACCAACTGACTTGCA+AGG 0.559475 1.2:+66238977 None:intergenic
AACGACATTTGGTACCCAGA+TGG 0.584170 1.2:-66238656 MS.gene20736:CDS
CGACATTTGGTACCCAGATG+GGG 0.585386 1.2:-66238654 MS.gene20736:CDS
TGATCTATGAAGCTCATCAA+GGG 0.595202 1.2:+66238705 None:intergenic
CTGGAAGAAGCCCTAGCAAG+TGG 0.599584 1.2:-66238864 MS.gene20736:CDS
CTTCCAGCACTGTTAGAGAA+CGG 0.607318 1.2:+66238880 None:intergenic
AAGCCCTAGCAAGTGGGCAA+GGG 0.611205 1.2:-66238857 MS.gene20736:CDS
GATGCTTCCTAGACCTGTAG+TGG 0.614161 1.2:+66238474 None:intergenic
GTGCTAGCGAGCGCGTACAA+AGG 0.625584 1.2:+66238902 None:intergenic
TAAATGCAAGCAGAAAGGTA+AGG 0.639842 1.2:+66239013 None:intergenic
GACATTTGGTACCCAGATGG+GGG 0.662357 1.2:-66238653 MS.gene20736:CDS
TGGAAGAAGCCCTAGCAAGT+GGG 0.667217 1.2:-66238863 MS.gene20736:CDS
TCGCAAACTTAACTAGACAC+GGG 0.670532 1.2:-66238786 MS.gene20736:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
! AAAAATAAATGCAAGCAGAA+AGG + chr1.2:66238490-66238509 None:intergenic 25.0%
! AGCGTTACTGGTTATATAAT+AGG + chr1.2:66238979-66238998 None:intergenic 30.0%
CTGCACTTATCCATGTATTA+AGG + chr1.2:66238869-66238888 None:intergenic 35.0%
GTTAATAAACTTGCCACTAC+AGG - chr1.2:66239008-66239027 MS.gene20736:CDS 35.0%
TAAATGCAAGCAGAAAGGTA+AGG + chr1.2:66238485-66238504 None:intergenic 35.0%
TGATCTATGAAGCTCATCAA+GGG + chr1.2:66238793-66238812 None:intergenic 35.0%
TTAAGTTTGCGAGATATGCT+TGG + chr1.2:66238701-66238720 None:intergenic 35.0%
! AGTCAGTTGGTATTTGCAAA+AGG - chr1.2:66238525-66238544 MS.gene20736:CDS 35.0%
! GATGGATTTCAAGGCAAAAA+CGG - chr1.2:66238915-66238934 MS.gene20736:CDS 35.0%
! GTCAGTTGGTATTTGCAAAA+GGG - chr1.2:66238526-66238545 MS.gene20736:CDS 35.0%
! TTTTGCCTTGAAATCCATCA+AGG + chr1.2:66238914-66238933 None:intergenic 35.0%
AGGCTAAGTAGAACGACATT+TGG - chr1.2:66238828-66238847 MS.gene20736:CDS 40.0%
CTCGCAAACTTAACTAGACA+CGG - chr1.2:66238708-66238727 MS.gene20736:CDS 40.0%
GAGAAGCTTGCAAAGTAACT+AGG - chr1.2:66238562-66238581 MS.gene20736:CDS 40.0%
GATCAAGATACTTGCCTTGA+TGG - chr1.2:66238897-66238916 MS.gene20736:CDS 40.0%
GATTTCAAGGCAAAAACGGT+AGG - chr1.2:66238919-66238938 MS.gene20736:CDS 40.0%
GTGATCTATGAAGCTCATCA+AGG + chr1.2:66238794-66238813 None:intergenic 40.0%
TCGCAAACTTAACTAGACAC+GGG - chr1.2:66238709-66238728 MS.gene20736:CDS 40.0%
!! ACTTGCCTTGATGGATTTCA+AGG - chr1.2:66238906-66238925 MS.gene20736:CDS 40.0%
!! CAAATACCAACTGACTTGCA+AGG + chr1.2:66238521-66238540 None:intergenic 40.0%
AAACTTGCCACTACAGGTCT+AGG - chr1.2:66239014-66239033 MS.gene20736:CDS 45.0%
AACGACATTTGGTACCCAGA+TGG - chr1.2:66238839-66238858 MS.gene20736:CDS 45.0%
ACGACATTTGGTACCCAGAT+GGG - chr1.2:66238840-66238859 MS.gene20736:CDS 45.0%
ACTAGACACGGGCATTTAAG+AGG - chr1.2:66238720-66238739 MS.gene20736:CDS 45.0%
AGATGGGGGACCTTAATACA+TGG - chr1.2:66238856-66238875 MS.gene20736:CDS 45.0%
ATGTATTAAGGTCCCCCATC+TGG + chr1.2:66238857-66238876 None:intergenic 45.0%
CTTCCAGCACTGTTAGAGAA+CGG + chr1.2:66238618-66238637 None:intergenic 45.0%
GATCACTGAATGTGCTCAGA+AGG - chr1.2:66238808-66238827 MS.gene20736:CDS 45.0%
TCCATACCTTGCAAGTCAGT+TGG - chr1.2:66238512-66238531 MS.gene20736:CDS 45.0%
TGTATTAAGGTCCCCCATCT+GGG + chr1.2:66238856-66238875 None:intergenic 45.0%
! AACAAGAGCTAGAGCGTTAC+TGG + chr1.2:66238991-66239010 None:intergenic 45.0%
!! ACCAACTGACTTGCAAGGTA+TGG + chr1.2:66238516-66238535 None:intergenic 45.0%
CGACATTTGGTACCCAGATG+GGG - chr1.2:66238841-66238860 MS.gene20736:CDS 50.0%
GACATTTGGTACCCAGATGG+GGG - chr1.2:66238842-66238861 MS.gene20736:CDS 50.0%
GATGCTTCCTAGACCTGTAG+TGG + chr1.2:66239024-66239043 None:intergenic 50.0%
TGGAAGAAGCCCTAGCAAGT+GGG - chr1.2:66238632-66238651 MS.gene20736:CDS 50.0%
! GCTGGAGTGTCAGTGACAAT+CGG - chr1.2:66238660-66238679 MS.gene20736:CDS 50.0%
AAGCCCTAGCAAGTGGGCAA+GGG - chr1.2:66238638-66238657 MS.gene20736:CDS 55.0%
CTGGAAGAAGCCCTAGCAAG+TGG - chr1.2:66238631-66238650 MS.gene20736:CDS 55.0%
GCACCGTTCTCTAACAGTGC+TGG - chr1.2:66238612-66238631 MS.gene20736:CDS 55.0%
GAAGCCCTAGCAAGTGGGCA+AGG - chr1.2:66238637-66238656 MS.gene20736:CDS 60.0%
GTGCTAGCGAGCGCGTACAA+AGG + chr1.2:66238596-66238615 None:intergenic 60.0%
! CAGCCCTTGCCCACTTGCTA+GGG + chr1.2:66238644-66238663 None:intergenic 60.0%
CCAGCCCTTGCCCACTTGCT+AGG + chr1.2:66238645-66238664 None:intergenic 65.0%
CCTAGCAAGTGGGCAAGGGC+TGG - chr1.2:66238642-66238661 MS.gene20736:CDS 65.0%


Chromosome Type Strat End Strand Name
chr1.2 gene 66238462 66239055 66238462 ID=MS.gene20736
chr1.2 mRNA 66238462 66239055 66238462 ID=MS.gene20736.t1;Parent=MS.gene20736
chr1.2 exon 66238462 66239055 66238462 ID=MS.gene20736.t1.exon1;Parent=MS.gene20736.t1
chr1.2 CDS 66238462 66239055 66238462 ID=cds.MS.gene20736.t1;Parent=MS.gene20736.t1
Gene Sequence

>MS.gene20736

ATGGTCAGAAGAATATCACACCTTACCTTTCTGCTTGCATTTATTTTTATTCCATACCTTGCAAGTCAGTTGGTATTTGCAAAAGGGAAAGACAATGTTAGAGAAGCTTGCAAAGTAACTAGGTATCAAAACCTTTGTACGCGCTCGCTAGCACCGTTCTCTAACAGTGCTGGAAGAAGCCCTAGCAAGTGGGCAAGGGCTGGAGTGTCAGTGACAATCGGTGAAGTTAAGAATGTCCAAGCATATCTCGCAAACTTAACTAGACACGGGCATTTAAGAGGAAGAAATAAAGTTGCATTATTAGATTGTGTCGAGACTATTGCAGATGCCCTTGATGAGCTTCATAGATCACTGAATGTGCTCAGAAGGCTAAGTAGAACGACATTTGGTACCCAGATGGGGGACCTTAATACATGGATAAGTGCAGCACTCACAGATCAAGATACTTGCCTTGATGGATTTCAAGGCAAAAACGGTAGGACAATTCAATTGCTGCAAAAGAGAGTTCTCAAAGCCTATTATATAACCAGTAACGCTCTAGCTCTTGTTAATAAACTTGCCACTACAGGTCTAGGAAGCATCTCTGATCCATAG
Protein sequence

>MS.gene20736.t1

MVRRISHLTFLLAFIFIPYLASQLVFAKGKDNVREACKVTRYQNLCTRSLAPFSNSAGRSPSKWARAGVSVTIGEVKNVQAYLANLTRHGHLRGRNKVALLDCVETIADALDELHRSLNVLRRLSRTTFGTQMGDLNTWISAALTDQDTCLDGFQGKNGRTIQLLQKRVLKAYYITSNALALVNKLATTGLGSISDP