AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG005246

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG005246 MtrunA17_Chr1g0205821 92.486 173 13 0 1 173 1 173 3.40e-112 316
MsaG005246 MtrunA17_Chr1g0205821 55.172 87 39 0 5 91 91 177 8.87e-25 94.7
MsaG005246 MtrunA17_Chr1g0205821 54.023 87 40 0 89 175 3 89 7.52e-23 89.7
MsaG005246 MtrunA17_Chr1g0205831 67.925 159 36 1 17 175 6 149 5.28e-70 209
MsaG005246 MtrunA17_Chr1g0205831 57.895 76 32 0 17 92 77 152 6.73e-22 87.4
MsaG005246 MtrunA17_Chr1g0205831 57.353 68 29 0 101 168 4 71 7.02e-19 79.3
MsaG005246 MtrunA17_Chr4g0075861 48.428 159 79 1 13 171 89 244 1.38e-40 140
MsaG005246 MtrunA17_Chr4g0075861 42.857 175 90 3 1 175 1 165 5.83e-32 117
MsaG005246 MtrunA17_Chr4g0075971 48.750 160 77 3 13 171 89 244 1.10e-38 139
MsaG005246 MtrunA17_Chr4g0075971 41.714 175 92 3 1 175 1 165 1.50e-29 113
MsaG005246 MtrunA17_Chr3g0077891 48.684 152 73 3 27 173 23 174 4.05e-36 123
MsaG005246 MtrunA17_Chr3g0077881 48.322 149 71 4 27 170 23 170 2.24e-35 121
MsaG005246 MtrunA17_Chr3g0077881 42.105 76 43 1 100 174 9 84 5.99e-11 58.2
MsaG005246 MtrunA17_Chr3g0077911 47.651 149 76 2 21 168 13 160 2.27e-35 121
MsaG005246 MtrunA17_Chr3g0077911 45.946 74 37 1 100 173 9 79 6.52e-14 65.9
MsaG005246 MtrunA17_Chr3g0077941 46.154 169 84 4 11 173 6 173 6.10e-35 120
MsaG005246 MtrunA17_Chr1g0206771 39.759 166 93 1 2 167 5 163 1.07e-33 117
MsaG005246 MtrunA17_Chr1g0206771 43.243 74 42 0 98 171 15 88 7.20e-15 68.9
MsaG005246 MtrunA17_Chr1g0205801 63.441 93 34 0 6 98 5 97 2.17e-33 114
MsaG005246 MtrunA17_Chr1g0205801 59.211 76 31 0 100 175 13 88 3.18e-25 94.0
MsaG005246 MtrunA17_Chr3g0077861 46.259 147 77 2 23 168 15 160 6.87e-33 115
MsaG005246 MtrunA17_Chr5g0415031 39.869 153 92 0 11 163 41 193 1.35e-31 119
MsaG005246 MtrunA17_Chr5g0415031 48.000 75 39 0 100 174 44 118 1.18e-18 82.4
MsaG005246 MtrunA17_Chr1g0205811 65.000 80 28 0 13 92 14 93 3.48e-30 107
MsaG005246 MtrunA17_Chr1g0205811 56.962 79 34 0 97 175 12 90 3.03e-26 96.7
MsaG005246 MtrunA17_Chr8g0364231 38.816 152 93 0 11 162 40 191 2.34e-26 104
MsaG005246 MtrunA17_Chr8g0364231 49.333 75 38 0 100 174 43 117 1.72e-19 85.1
MsaG005246 MtrunA17_Chr6g0452021 37.748 151 92 2 13 163 43 191 1.83e-25 101
MsaG005246 MtrunA17_Chr6g0452021 45.333 75 39 1 100 174 44 116 4.10e-15 72.0
MsaG005246 MtrunA17_Chr7g0218891 32.402 179 115 3 1 175 1 177 3.14e-25 98.2
MsaG005246 MtrunA17_Chr7g0218891 34.940 166 102 3 13 174 99 262 9.66e-25 97.1
MsaG005246 MtrunA17_Chr6g0452001 35.948 153 98 0 11 163 61 213 8.98e-24 97.4
MsaG005246 MtrunA17_Chr6g0452001 44.000 75 42 0 100 174 64 138 1.26e-15 73.9
MsaG005246 MtrunA17_Chr1g0206781 50.000 76 38 0 100 175 12 87 3.59e-21 83.6
MsaG005246 MtrunA17_Chr1g0206781 37.190 121 50 1 14 134 12 106 1.64e-17 74.3
MsaG005246 MtrunA17_Chr1g0209201 39.394 132 66 4 3 134 10 127 1.20e-17 75.1
MsaG005246 MtrunA17_Chr1g0209201 46.154 65 34 1 102 166 19 82 2.71e-13 63.9
MsaG005246 MtrunA17_Chr1g0205861 51.429 70 34 0 98 167 15 84 6.77e-17 72.8
MsaG005246 MtrunA17_Chr1g0205861 49.231 65 33 0 11 75 14 78 6.35e-13 62.4
MsaG005246 MtrunA17_Chr2g0328701 41.525 118 59 3 1 118 18 125 1.91e-16 71.6
MsaG005246 MtrunA17_Chr2g0328701 40.230 87 49 1 88 174 18 101 1.15e-13 64.3
MsaG005246 MtrunA17_Chr8g0364021 40.659 91 52 1 12 102 43 131 1.59e-14 68.9
MsaG005246 MtrunA17_Chr8g0364021 42.500 80 46 0 89 168 34 113 6.49e-14 67.4
MsaG005246 MtrunA17_Chr3g0077811 55.172 58 26 0 27 84 28 85 1.26e-13 63.9
MsaG005246 MtrunA17_Chr7g0256011 47.761 67 35 0 11 77 14 80 1.07e-11 59.3
MsaG005246 MtrunA17_Chr7g0256011 39.189 74 44 1 90 163 8 80 2.00e-11 58.5
MsaG005246 MtrunA17_Chr7g0218911 44.776 67 37 0 103 169 2 68 4.07e-11 57.4
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG005246 AT5G15020.1 37.662 154 92 2 11 163 50 200 4.80e-25 101
MsaG005246 AT5G15020.1 42.105 76 44 0 93 168 46 121 8.50e-14 68.9
MsaG005246 AT5G15020.2 37.662 154 92 2 11 163 50 200 4.94e-25 101
MsaG005246 AT5G15020.2 42.105 76 44 0 93 168 46 121 8.42e-14 68.9
MsaG005246 AT1G70060.2 37.908 153 94 1 11 162 12 164 1.40e-23 97.1
MsaG005246 AT1G70060.2 46.667 75 40 0 100 174 15 89 6.31e-16 75.1
MsaG005246 AT1G70060.1 37.908 153 94 1 11 162 12 164 1.40e-23 97.1
MsaG005246 AT1G70060.1 46.667 75 40 0 100 174 15 89 6.31e-16 75.1
MsaG005246 AT3G01320.2 36.905 168 99 3 4 169 46 208 2.10e-23 96.7
MsaG005246 AT3G01320.2 45.946 74 40 0 100 173 58 131 7.52e-16 74.7
MsaG005246 AT3G01320.1 36.905 168 99 3 4 169 46 208 2.36e-23 96.7
MsaG005246 AT3G01320.1 45.946 74 40 0 100 173 58 131 7.59e-16 74.7
MsaG005246 AT1G24190.2 36.184 152 97 0 11 162 12 163 3.30e-23 95.9
MsaG005246 AT1G24190.2 42.667 75 43 0 100 174 15 89 1.05e-14 71.6
MsaG005246 AT1G24190.1 36.184 152 97 0 11 162 12 163 3.43e-23 95.9
MsaG005246 AT1G24190.1 42.667 75 43 0 100 174 15 89 1.10e-14 71.6
MsaG005246 AT1G24190.3 36.184 152 97 0 11 162 12 163 3.47e-23 95.9
MsaG005246 AT1G24190.3 42.667 75 43 0 100 174 15 89 1.05e-14 71.6
MsaG005246 AT1G24230.1 34.568 162 90 3 11 171 12 158 3.79e-23 92.4
MsaG005246 AT1G27260.1 37.419 155 91 4 11 160 1 154 4.82e-23 91.7
MsaG005246 AT1G27260.1 43.662 71 40 0 98 168 2 72 6.08e-12 62.0
MsaG005246 AT1G27260.1 32.203 118 79 1 11 128 91 207 6.22e-11 59.3
MsaG005246 AT1G24200.1 36.601 153 94 2 9 161 10 159 6.47e-22 88.2
MsaG005246 AT1G24200.1 45.588 68 37 0 100 167 15 82 3.53e-14 67.8
MsaG005246 AT1G10450.3 35.948 153 96 2 9 161 80 230 1.11e-21 91.7
MsaG005246 AT1G10450.3 47.826 69 36 0 100 168 85 153 8.07e-14 68.9
MsaG005246 AT1G10450.2 35.948 153 96 2 9 161 29 179 1.23e-21 91.7
MsaG005246 AT1G10450.2 47.826 69 36 0 100 168 34 102 7.58e-14 68.9
MsaG005246 AT1G10450.1 35.948 153 96 2 9 161 29 179 1.23e-21 91.7
MsaG005246 AT1G10450.1 47.826 69 36 0 100 168 34 102 7.58e-14 68.9
MsaG005246 AT1G24250.1 32.164 171 94 4 11 160 12 181 1.60e-21 88.2
MsaG005246 AT1G23810.1 30.178 169 107 4 2 160 3 170 3.15e-20 84.7
MsaG005246 AT1G70030.1 36.242 149 93 2 13 161 11 157 3.25e-20 82.8
MsaG005246 AT1G70030.1 44.000 75 40 1 100 174 12 84 1.38e-11 60.1
MsaG005246 AT1G59890.4 34.641 153 92 2 13 162 45 192 6.51e-19 83.6
MsaG005246 AT1G59890.4 44.595 74 41 0 100 173 46 119 2.81e-14 70.5
MsaG005246 AT1G59890.1 34.641 153 92 2 13 162 45 192 6.70e-19 83.6
MsaG005246 AT1G59890.1 44.595 74 41 0 100 173 46 119 2.95e-14 70.1
MsaG005246 AT1G59890.3 34.641 153 92 2 13 162 45 192 6.96e-19 83.6
MsaG005246 AT1G59890.3 44.595 74 41 0 100 173 46 119 2.95e-14 70.1
MsaG005246 AT1G59890.2 34.641 153 92 2 13 162 45 192 7.04e-19 83.6
MsaG005246 AT1G59890.2 44.595 74 41 0 100 173 46 119 3.06e-14 70.1
MsaG005246 AT1G27280.1 33.566 143 93 1 21 161 1 143 5.65e-17 75.9
MsaG005246 AT1G27220.1 45.070 71 39 0 11 81 12 82 1.04e-15 71.6
MsaG005246 AT1G27220.1 36.986 73 46 0 95 167 10 82 9.14e-11 58.2
MsaG005246 AT5G15040.1 47.222 72 36 1 102 173 6 75 2.28e-14 65.5
MsaG005246 AT5G15040.1 42.857 77 42 1 13 89 3 77 1.91e-13 63.2
MsaG005246 AT5G15040.3 47.222 72 36 1 102 173 6 75 2.28e-14 65.5
MsaG005246 AT5G15040.3 42.857 77 42 1 13 89 3 77 1.91e-13 63.2
MsaG005246 AT5G15040.2 47.222 72 36 1 102 173 6 75 2.28e-14 65.5
MsaG005246 AT5G15040.2 42.857 77 42 1 13 89 3 77 1.91e-13 63.2
MsaG005246 AT1G27250.1 47.826 69 36 0 12 80 20 88 1.43e-13 64.7
MsaG005246 AT5G15025.1 41.975 81 47 0 2 82 36 116 2.46e-13 63.9
MsaG005246 AT5G15025.1 41.558 77 44 1 98 174 46 121 1.84e-12 61.6
MsaG005246 AT1G70030.2 38.261 115 65 2 13 122 22 135 3.06e-13 63.9
MsaG005246 AT1G70030.2 44.000 75 40 1 100 174 23 95 1.19e-11 59.7
MsaG005246 AT1G70030.3 40.206 97 57 1 13 109 22 117 9.72e-13 62.4
MsaG005246 AT1G70030.3 44.000 75 40 1 100 174 23 95 6.06e-12 60.1
MsaG005246 AT1G27270.1 32.716 162 96 2 12 160 13 174 9.98e-13 64.7
MsaG005246 AT1G24210.1 31.724 145 87 3 4 146 3 137 1.17e-12 62.8
MsaG005246 AT5G35610.1 40.230 87 49 1 1 87 1 84 3.71e-11 58.9

Find 29 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GTGAAACTCCTACAAGATTT+TGG 0.194654 1:+79413563 MsaT005246.1:CDS
AACTATTACATCAATTCTTT+TGG 0.283341 1:-79413846 None:intergenic
GACTCTTCTATCAATTCTTT+TGG 0.310378 1:-79413588 None:intergenic
GGTTACATTTGAAGATAAGA+TGG 0.406022 1:+79413781 MsaT005246.1:CDS
AAGCTGTGTTTCAAGATAAG+AGG 0.447897 1:+79413522 MsaT005246.1:CDS
CACCCTTGCATCGTCAATCA+AGG 0.459246 1:-79413483 None:intergenic
ATGAACAGCTCAAGAAGAAC+AGG 0.465556 1:+79413458 MsaT005246.1:CDS
AGTCGTCAAAGAAGGAGTTA+TGG 0.477577 1:+79413607 MsaT005246.1:CDS
ACATGAAATCCCACTTCCAT+TGG 0.486277 1:+79413688 MsaT005246.1:CDS
AGTTGTCAAAGAAGGAATGA+TGG 0.509750 1:+79413865 MsaT005246.1:CDS
GATAGAAGAGTCGTCAAAGA+AGG 0.515587 1:+79413599 MsaT005246.1:CDS
AAATCATCATCCAATGGAAG+TGG 0.515740 1:-79413698 None:intergenic
TTCAACATCTTCTTGCCACC+AGG 0.516818 1:+79413665 MsaT005246.1:CDS
ACACAAAATCTCACTTCCAT+TGG 0.521284 1:+79413946 MsaT005246.1:CDS
GATGTAATAGTTGTCAAAGA+AGG 0.535547 1:+79413857 MsaT005246.1:CDS
GTCCCTTGATTGACGATGCA+AGG 0.537025 1:+79413480 MsaT005246.1:CDS
AGCTGTGTTTCAAGATAAGA+GGG 0.537554 1:+79413523 MsaT005246.1:CDS
CGATGCAAGGGTGTTTGTAA+AGG 0.542038 1:+79413493 MsaT005246.1:CDS
TTTGTGTCCCTCTGGCAAGA+AGG 0.563533 1:-79413930 None:intergenic
TATTGTTCATCATCATCCAA+TGG 0.580727 1:-79413962 None:intergenic
GGAAGTGGGATTTCATGTCC+TGG 0.588837 1:-79413683 None:intergenic
TTCAACACCTTCTTGCCAGA+GGG 0.592249 1:+79413923 MsaT005246.1:CDS
TCCCTTGATTGACGATGCAA+GGG 0.593982 1:+79413481 MsaT005246.1:CDS
TGTTGTAAATCATCATCCAA+TGG 0.600709 1:-79413704 None:intergenic
AATCATCATCCAATGGAAGT+GGG 0.616288 1:-79413697 None:intergenic
ACCCTTGCATCGTCAATCAA+GGG 0.616892 1:-79413482 None:intergenic
ATTCAACACCTTCTTGCCAG+AGG 0.655191 1:+79413922 MsaT005246.1:CDS
AGCGCTCGAAGATCGAGCAA+TGG 0.658283 1:+79413739 MsaT005246.1:CDS
AGTGGGATTTCATGTCCTGG+TGG 0.734772 1:-79413680 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr1 gene 79413458 79413985 79413458 ID=MsaG005246
Chr1 mRNA 79413458 79413985 79413458 ID=MsaT005246.1;Parent=MsaG005246
Chr1 exon 79413458 79413985 79413458 ID=MsaT005246.1.exon1;Parent=MsaT005246.1
Chr1 CDS 79413458 79413985 79413458 ID=cds.MsaT005246.1;Parent=MsaT005246.1
Gene Sequence

>MsaT005246.1

ATGAACAGCTCAAGAAGAACAGGTCCCTTGATTGACGATGCAAGGGTGTTTGTAAAGGATGTAGAAGCTGTGTTTCAAGATAAGAGGGAGAAGTATGATGAATTCGTGAAACTCCTACAAGATTTTGGCGCCAAAAGAATTGATAGAAGAGTCGTCAAAGAAGGAGTTATGGAGTTGTTGAAAGAGCATCAAGATTTAATTTCAAGATTCAACATCTTCTTGCCACCAGGACATGAAATCCCACTTCCATTGGATGATGATTTACAACAACGTGATCAATCAGCGCTCGAAGATCGAGCAATGGCATTTTTAACAACAGTTAAGGTTACATTTGAAGATAAGATGGAAAAGTTCAATGAATTCTTGAAACTCCTAGCTGATTACCGTGCCAAAAGAATTGATGTAATAGTTGTCAAAGAAGGAATGATGGAGTTGTTTAAAGACCATAAAAATTTACTTTTGGGATTCAACACCTTCTTGCCAGAGGGACACAAAATCTCACTTCCATTGGATGATGATGAACAATAA
Protein sequence

>MsaT005246.1

MNSSRRTGPLIDDARVFVKDVEAVFQDKREKYDEFVKLLQDFGAKRIDRRVVKEGVMELLKEHQDLISRFNIFLPPGHEIPLPLDDDLQQRDQSALEDRAMAFLTTVKVTFEDKMEKFNEFLKLLADYRAKRIDVIVVKEGMMELFKDHKNLLLGFNTFLPEGHKISLPLDDDEQ*