AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene045671

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene045671.t1 MTR_4g035870 95.455 132 6 0 1 132 66 197 3.73e-88 254
MS.gene045671.t1 MTR_4g035880 93.182 132 9 0 1 132 66 197 2.74e-86 250
MS.gene045671.t1 MTR_4g035905 83.206 131 22 0 1 131 66 196 4.05e-74 219
MS.gene045671.t1 MTR_5g012000 43.939 132 71 1 3 131 80 211 6.05e-35 120
MS.gene045671.t1 MTR_3g008820 42.748 131 73 1 3 131 56 186 1.13e-32 114
MS.gene045671.t1 MTR_3g008840 42.748 131 73 1 3 131 57 187 1.98e-32 113
MS.gene045671.t1 MTR_4g101760 41.406 128 72 1 7 131 75 202 1.26e-30 108
MS.gene045671.t1 MTR_1g088540 39.683 126 70 2 7 130 22 143 4.98e-28 100
MS.gene045671.t1 MTR_2g043560 44.961 129 58 3 7 130 69 189 9.70e-27 99.0
MS.gene045671.t1 MTR_7g108790 37.903 124 75 1 7 130 69 190 3.88e-26 97.4
MS.gene045671.t1 MTR_4g120825 38.806 134 70 3 3 125 67 199 2.30e-23 90.5
MS.gene045671.t1 MTR_4g120830 38.060 134 71 3 3 125 67 199 4.96e-23 89.7
MS.gene045671.t1 MTR_8g104765 38.060 134 71 3 3 125 76 208 1.94e-22 88.2
MS.gene045671.t1 MTR_4g035855 36.641 131 79 2 1 128 73 202 2.26e-19 80.1
MS.gene045671.t1 MTR_4g124855 37.273 110 69 0 21 130 90 199 6.45e-19 79.0
MS.gene045671.t1 MTR_3g008760 32.540 126 82 2 3 125 98 223 4.49e-16 72.0
MS.gene045671.t1 MTR_1g008140 38.095 105 51 2 32 124 141 243 2.07e-15 71.6
MS.gene045671.t1 MTR_7g112580 38.235 102 54 3 31 128 99 195 5.01e-15 70.5
MS.gene045671.t1 MTR_4g025590 34.307 137 79 3 3 129 35 170 8.36e-15 67.8
MS.gene045671.t1 MTR_3g091380 37.500 128 72 3 3 124 109 234 1.33e-14 69.3
MS.gene045671.t1 MTR_4g025610 33.577 137 80 3 3 129 64 199 2.12e-14 67.0
MS.gene045671.t1 MTR_4g025550 34.307 137 79 3 3 129 64 199 2.43e-14 67.0
MS.gene045671.t1 MTR_4g025620 37.500 104 58 2 32 129 97 199 5.98e-14 65.9
MS.gene045671.t1 MTR_1g083470 30.693 101 64 2 32 130 118 214 7.63e-13 64.3
MS.gene045671.t1 MTR_1g083500 30.693 101 64 2 32 130 118 214 7.63e-13 64.3
MS.gene045671.t1 MTR_7g112590 29.008 131 84 4 3 130 89 213 4.58e-12 62.0
MS.gene045671.t1 MTR_8g023310 28.814 118 83 1 7 123 105 222 6.42e-12 61.6
MS.gene045671.t1 MTR_4g124550 31.579 95 61 1 35 129 143 233 3.20e-11 59.7
MS.gene045671.t1 MTR_2g044660 30.851 94 61 1 35 128 141 230 3.23e-11 59.7
MS.gene045671.t1 MTR_1g083510 31.633 98 61 2 33 128 115 208 3.73e-11 59.7
MS.gene045671.t1 MTR_4g120290 33.333 108 66 2 23 128 106 209 5.39e-11 58.9
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene045671.t1 AT5G62360 57.252 131 55 1 2 132 74 203 1.22e-47 152
MS.gene045671.t1 AT1G62770 47.328 131 64 2 3 128 66 196 2.03e-34 119
MS.gene045671.t1 AT1G62760 49.219 128 60 2 7 131 183 308 1.09e-32 117
MS.gene045671.t1 AT5G62350 43.846 130 69 1 3 128 70 199 2.49e-30 108
MS.gene045671.t1 AT4G25260 40.602 133 75 1 3 131 69 201 9.16e-28 101
MS.gene045671.t1 AT5G20740 40.000 135 75 2 3 132 65 198 2.83e-27 100
MS.gene045671.t1 AT5G20740 40.000 135 75 2 3 132 99 232 6.96e-27 100
MS.gene045671.t1 AT3G47380 43.077 130 70 1 3 128 70 199 8.25e-27 99.4
MS.gene045671.t1 AT2G01610 41.912 136 61 3 7 125 80 214 1.26e-26 99.4
MS.gene045671.t1 AT1G14890 42.188 128 64 3 3 125 90 212 3.00e-23 90.5
MS.gene045671.t1 AT4G25250 38.400 125 74 2 3 124 69 193 1.07e-22 88.6
MS.gene045671.t1 AT1G23205 37.500 136 73 3 2 126 64 198 1.55e-22 88.2
MS.gene045671.t1 AT4G12390 41.791 134 73 1 3 131 71 204 1.82e-22 88.2
MS.gene045671.t1 AT1G70720 42.000 100 53 1 34 128 107 206 2.99e-22 87.8
MS.gene045671.t1 AT1G70720 42.000 100 53 1 34 128 95 194 3.72e-22 87.4
MS.gene045671.t1 AT5G51520 38.806 134 73 2 3 127 69 202 4.96e-22 87.0
MS.gene045671.t1 AT3G62820 43.299 97 52 2 34 128 95 190 9.92e-20 80.9
MS.gene045671.t1 AT2G47670 42.553 94 54 0 35 128 111 204 1.56e-17 75.5
MS.gene045671.t1 AT1G53830 30.645 124 84 2 7 128 97 220 1.82e-16 74.7
MS.gene045671.t1 AT3G14310 31.429 105 71 1 25 128 113 217 5.78e-16 73.6
MS.gene045671.t1 AT5G53370 36.585 123 73 3 3 124 142 260 1.25e-15 72.4
MS.gene045671.t1 AT5G53370 36.585 123 73 3 3 124 106 224 1.41e-15 72.4
MS.gene045671.t1 AT4G00080 32.308 130 79 3 3 124 68 196 3.14e-14 66.6
MS.gene045671.t1 AT5G27870 28.030 132 88 3 3 132 87 213 1.85e-13 66.2
MS.gene045671.t1 AT3G05610 31.159 138 80 5 1 132 86 214 1.18e-12 63.9
MS.gene045671.t1 AT3G49220 38.298 94 52 2 31 124 191 278 8.29e-12 61.2
MS.gene045671.t1 AT3G49220 38.298 94 52 2 31 124 146 233 8.67e-12 61.6
MS.gene045671.t1 AT3G49220 37.895 95 53 2 31 125 191 279 3.56e-11 59.7

Find 30 sgRNAs with CRISPR-Local

Find 30 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TTCATAGCTGCAGCCTCTCT+TGG 0.298648 4.3:-64388220 None:intergenic
CCGAAGGTCTATCGATGAAA+TGG 0.365879 4.3:+64388282 MS.gene045671:CDS
GTCAACTCTCTCAAAAGGTC+AGG 0.407740 4.3:+64388189 MS.gene045671:CDS
CAATGAGTGATGTACAAACT+TGG 0.414535 4.3:+64388335 MS.gene045671:CDS
TCATAGCTGCAGCCTCTCTT+GGG 0.426216 4.3:-64388219 None:intergenic
TTGGGTTAGTGCTGCTTTGA+CGG 0.427334 4.3:+64388354 MS.gene045671:CDS
AAGAGAGGCTGCAGCTATGA+AGG 0.471251 4.3:+64388222 MS.gene045671:CDS
TTGATGTCAACTCTCTCAAA+AGG 0.498369 4.3:+64388184 MS.gene045671:CDS
CGAAGGTCTATCGATGAAAT+GGG 0.502061 4.3:+64388283 MS.gene045671:CDS
CCATTTCATCGATAGACCTT+CGG 0.513898 4.3:-64388282 None:intergenic
CGATGCAAGAGTCACGTTGA+GGG 0.540531 4.3:-64388143 None:intergenic
ATGTTAAGACAGTGGTGAGA+GGG 0.549785 4.3:+64388425 MS.gene045671:CDS
AATGTTAAGACAGTGGTGAG+AGG 0.559999 4.3:+64388424 MS.gene045671:CDS
ATTTCAAGAGATTAGTGCTA+CGG 0.561546 4.3:+64388399 MS.gene045671:CDS
TCAACTCTCTCAAAAGGTCA+GGG 0.566267 4.3:+64388190 MS.gene045671:CDS
CAAAATTTGATGTACTAAGA+CGG 0.571253 4.3:-64388306 None:intergenic
ATTCCGTCGACGAACTCCGA+AGG 0.582091 4.3:+64388266 MS.gene045671:CDS
AGACCTTCGGAGTTCGTCGA+CGG 0.582602 4.3:-64388269 None:intergenic
AATGAGTGATGTACAAACTT+GGG 0.584779 4.3:+64388336 MS.gene045671:CDS
AATAAACTTTCCACTTCACA+AGG 0.605086 4.3:+64388496 MS.gene045671:CDS
TGCATCGGCAAAATCAACCT+CGG 0.611496 4.3:+64388159 MS.gene045671:CDS
ACTAATCTCTTGAAATCCGT+CGG 0.615355 4.3:-64388392 None:intergenic
CCGATGCAAGAGTCACGTTG+AGG 0.618537 4.3:-64388144 None:intergenic
GATCAAAACACTTGTACCGA+CGG 0.623780 4.3:+64388376 MS.gene045671:CDS
GAGAGTTGACATCAAAGCCG+AGG 0.641012 4.3:-64388176 None:intergenic
CCTCAACGTGACTCTTGCAT+CGG 0.643902 4.3:+64388144 MS.gene045671:CDS
CAACTCTCTCAAAAGGTCAG+GGG 0.648709 4.3:+64388191 MS.gene045671:CDS
TCAGGGGATGAACCCAAGAG+AGG 0.650942 4.3:+64388207 MS.gene045671:CDS
AGCTATGAAGGATTGCGTCG+AGG 0.696363 4.3:+64388234 MS.gene045671:CDS
TACGGAGAATGTTAAGACAG+TGG 0.702949 4.3:+64388417 MS.gene045671:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
! CAAAATTTGATGTACTAAGA+CGG - chr4.3:64388309-64388328 None:intergenic 25.0%
AATAAACTTTCCACTTCACA+AGG + chr4.3:64388496-64388515 MS.gene045671:CDS 30.0%
AATGAGTGATGTACAAACTT+GGG + chr4.3:64388336-64388355 MS.gene045671:CDS 30.0%
ATTTCAAGAGATTAGTGCTA+CGG + chr4.3:64388399-64388418 MS.gene045671:CDS 30.0%
ACTAATCTCTTGAAATCCGT+CGG - chr4.3:64388395-64388414 None:intergenic 35.0%
CAATGAGTGATGTACAAACT+TGG + chr4.3:64388335-64388354 MS.gene045671:CDS 35.0%
TTGATGTCAACTCTCTCAAA+AGG + chr4.3:64388184-64388203 MS.gene045671:CDS 35.0%
AATGTTAAGACAGTGGTGAG+AGG + chr4.3:64388424-64388443 MS.gene045671:CDS 40.0%
ATGTTAAGACAGTGGTGAGA+GGG + chr4.3:64388425-64388444 MS.gene045671:CDS 40.0%
CCATTTCATCGATAGACCTT+CGG - chr4.3:64388285-64388304 None:intergenic 40.0%
CGAAGGTCTATCGATGAAAT+GGG + chr4.3:64388283-64388302 MS.gene045671:CDS 40.0%
GATCAAAACACTTGTACCGA+CGG + chr4.3:64388376-64388395 MS.gene045671:CDS 40.0%
TACGGAGAATGTTAAGACAG+TGG + chr4.3:64388417-64388436 MS.gene045671:CDS 40.0%
TCAACTCTCTCAAAAGGTCA+GGG + chr4.3:64388190-64388209 MS.gene045671:CDS 40.0%
CAACTCTCTCAAAAGGTCAG+GGG + chr4.3:64388191-64388210 MS.gene045671:CDS 45.0%
CCGAAGGTCTATCGATGAAA+TGG + chr4.3:64388282-64388301 MS.gene045671:CDS 45.0%
GTCAACTCTCTCAAAAGGTC+AGG + chr4.3:64388189-64388208 MS.gene045671:CDS 45.0%
! TGCATCGGCAAAATCAACCT+CGG + chr4.3:64388159-64388178 MS.gene045671:CDS 45.0%
!! TTGGGTTAGTGCTGCTTTGA+CGG + chr4.3:64388354-64388373 MS.gene045671:CDS 45.0%
AAGAGAGGCTGCAGCTATGA+AGG + chr4.3:64388222-64388241 MS.gene045671:CDS 50.0%
AGCTATGAAGGATTGCGTCG+AGG + chr4.3:64388234-64388253 MS.gene045671:CDS 50.0%
CCTCAACGTGACTCTTGCAT+CGG + chr4.3:64388144-64388163 MS.gene045671:CDS 50.0%
CGATGCAAGAGTCACGTTGA+GGG - chr4.3:64388146-64388165 None:intergenic 50.0%
GAGAGTTGACATCAAAGCCG+AGG - chr4.3:64388179-64388198 None:intergenic 50.0%
TCATAGCTGCAGCCTCTCTT+GGG - chr4.3:64388222-64388241 None:intergenic 50.0%
TTCATAGCTGCAGCCTCTCT+TGG - chr4.3:64388223-64388242 None:intergenic 50.0%
AGACCTTCGGAGTTCGTCGA+CGG - chr4.3:64388272-64388291 None:intergenic 55.0%
ATTCCGTCGACGAACTCCGA+AGG + chr4.3:64388266-64388285 MS.gene045671:CDS 55.0%
CCGATGCAAGAGTCACGTTG+AGG - chr4.3:64388147-64388166 None:intergenic 55.0%
TCAGGGGATGAACCCAAGAG+AGG + chr4.3:64388207-64388226 MS.gene045671:CDS 55.0%


Chromosome Type Strat End Strand Name
chr4.3 gene 64388124 64388522 64388124 ID=MS.gene045671
chr4.3 mRNA 64388124 64388522 64388124 ID=MS.gene045671.t1;Parent=MS.gene045671
chr4.3 exon 64388124 64388522 64388124 ID=MS.gene045671.t1.exon1;Parent=MS.gene045671.t1
chr4.3 CDS 64388124 64388522 64388124 ID=cds.MS.gene045671.t1;Parent=MS.gene045671.t1
Gene Sequence

>MS.gene045671

ATGCTTTTAACAGGAACGGCCCTCAACGTGACTCTTGCATCGGCAAAATCAACCTCGGCTTTGATGTCAACTCTCTCAAAAGGTCAGGGGATGAACCCAAGAGAGGCTGCAGCTATGAAGGATTGCGTCGAGGTGCTAAGTGATTCCGTCGACGAACTCCGAAGGTCTATCGATGAAATGGGCCGTCTTAGTACATCAAATTTTGAACTAACAATGAGTGATGTACAAACTTGGGTTAGTGCTGCTTTGACGGATCAAAACACTTGTACCGACGGATTTCAAGAGATTAGTGCTACGGAGAATGTTAAGACAGTGGTGAGAGGGAGCATTGTGCAAGTTGCTCAATTGACTAGCAATGCTTTAGCTTTGATAAATAAACTTTCCACTTCACAAGGTTAA
Protein sequence

>MS.gene045671.t1

MLLTGTALNVTLASAKSTSALMSTLSKGQGMNPREAAAMKDCVEVLSDSVDELRRSIDEMGRLSTSNFELTMSDVQTWVSAALTDQNTCTDGFQEISATENVKTVVRGSIVQVAQLTSNALALINKLSTSQG