AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene85454

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene85454.t1 MTR_8g102520 75.576 217 52 1 1 216 106 322 9.55e-115 330
MS.gene85454.t1 MTR_7g079400 64.253 221 74 2 1 216 117 337 4.58e-93 276
MS.gene85454.t1 MTR_8g098830 72.781 169 46 0 22 190 32 200 1.11e-85 253
MS.gene85454.t1 MTR_7g079370 56.221 217 90 4 2 214 139 354 7.53e-71 220
MS.gene85454.t1 MTR_7g079450 72.143 140 34 2 78 216 2 137 6.87e-65 197
MS.gene85454.t1 MTR_2g048580 53.731 201 80 6 19 216 152 342 6.99e-58 186
MS.gene85454.t1 MTR_7g079420 58.791 182 64 5 42 216 967 1144 5.76e-57 194
MS.gene85454.t1 MTR_4g117720 44.843 223 100 9 2 212 162 373 3.17e-49 165
MS.gene85454.t1 MTR_6g060650 44.934 227 94 10 2 215 164 372 6.64e-49 164
MS.gene85454.t1 MTR_1g055175 44.162 197 101 6 25 216 9 201 1.26e-45 150
MS.gene85454.t1 MTR_4g109280 43.878 196 100 6 25 216 170 359 6.72e-41 142
MS.gene85454.t1 MTR_8g433030 43.056 216 106 11 4 212 133 338 3.24e-40 140
MS.gene85454.t1 MTR_8g032390 43.056 216 106 11 4 212 166 371 8.86e-40 140
MS.gene85454.t1 MTR_4g094365 42.342 222 109 10 2 216 155 364 2.90e-39 138
MS.gene85454.t1 MTR_4g118400 43.299 194 84 8 22 210 122 294 3.46e-39 136
MS.gene85454.t1 MTR_4g118380 43.655 197 92 8 2 186 166 355 6.66e-39 137
MS.gene85454.t1 MTR_5g070130 39.111 225 115 9 2 212 156 372 1.90e-38 137
MS.gene85454.t1 MTR_1g055195 40.991 222 112 5 2 216 269 478 2.17e-38 138
MS.gene85454.t1 MTR_4g023130 40.183 219 109 7 2 215 111 312 4.12e-38 134
MS.gene85454.t1 MTR_4g116330 42.009 219 112 8 4 216 171 380 1.10e-37 134
MS.gene85454.t1 MTR_5g097210 40.092 217 115 8 2 211 150 358 3.51e-37 133
MS.gene85454.t1 MTR_4g023080 39.726 219 110 7 2 215 152 353 3.59e-37 133
MS.gene85454.t1 MTR_4g109270 42.273 220 108 9 3 216 158 364 6.41e-37 132
MS.gene85454.t1 MTR_1g055135 39.910 223 123 5 2 216 156 375 6.93e-37 132
MS.gene85454.t1 MTR_8g433040 41.818 220 105 9 2 216 163 364 1.07e-36 132
MS.gene85454.t1 MTR_8g032380 41.818 220 105 9 2 216 163 364 1.07e-36 132
MS.gene85454.t1 MTR_3g034180 39.738 229 113 8 2 215 270 488 1.72e-36 133
MS.gene85454.t1 MTR_8g040935 40.000 200 107 8 25 216 14 208 4.46e-36 126
MS.gene85454.t1 MTR_5g070088 38.813 219 119 8 2 212 170 381 7.07e-36 130
MS.gene85454.t1 MTR_3g103020 40.807 223 114 9 3 216 165 378 9.96e-36 129
MS.gene85454.t1 MTR_1g055165 44.242 165 83 6 57 216 158 318 1.73e-35 127
MS.gene85454.t1 MTR_4g122850 40.724 221 119 9 2 216 150 364 2.53e-35 128
MS.gene85454.t1 MTR_5g070080 38.462 221 122 8 2 216 174 386 2.58e-35 129
MS.gene85454.t1 MTR_4g023070 39.831 236 108 13 2 215 146 369 3.18e-34 125
MS.gene85454.t1 MTR_4g117530 37.327 217 88 8 3 216 82 253 4.60e-34 122
MS.gene85454.t1 MTR_4g117770 42.727 220 111 9 3 216 157 367 1.33e-33 124
MS.gene85454.t1 MTR_4g117810 42.727 220 111 9 3 216 157 367 1.33e-33 124
MS.gene85454.t1 MTR_6g463430 37.321 209 115 9 15 216 3 202 4.33e-33 118
MS.gene85454.t1 MTR_4g117780 41.364 220 114 9 3 216 157 367 4.39e-33 122
MS.gene85454.t1 MTR_4g023120 38.819 237 111 13 2 216 146 370 6.31e-33 122
MS.gene85454.t1 MTR_4g117850 38.813 219 120 8 3 212 163 376 1.31e-32 121
MS.gene85454.t1 MTR_4g117750 39.381 226 119 7 2 215 139 358 2.32e-32 122
MS.gene85454.t1 MTR_4g117750 40.566 106 57 4 110 210 373 477 1.61e-11 63.2
MS.gene85454.t1 MTR_4g021785 38.914 221 112 10 2 216 152 355 4.08e-32 119
MS.gene85454.t1 MTR_4g118370 38.532 218 104 7 2 213 64 257 5.20e-32 117
MS.gene85454.t1 MTR_4g116320 40.933 193 98 8 25 210 69 252 5.32e-32 117
MS.gene85454.t1 MTR_3g034160 38.596 228 113 10 4 215 158 374 3.82e-30 114
MS.gene85454.t1 MTR_1g055250 39.906 213 102 11 2 203 56 253 4.43e-30 114
MS.gene85454.t1 MTR_3g034130 38.000 200 99 8 2 185 156 346 4.45e-30 114
MS.gene85454.t1 MTR_4g023190 36.818 220 116 7 2 214 154 357 1.57e-28 110
MS.gene85454.t1 MTR_4g023090 34.071 226 117 9 4 210 166 378 3.66e-28 109
MS.gene85454.t1 MTR_4g118360 45.833 120 63 2 93 210 1 120 4.68e-28 103
MS.gene85454.t1 MTR_4g023150 35.909 220 119 8 2 214 154 358 1.22e-27 107
MS.gene85454.t1 MTR_4g023380 34.272 213 103 8 25 210 169 371 1.77e-25 102
MS.gene85454.t1 MTR_4g023200 34.545 220 122 8 2 214 154 358 1.96e-25 102
MS.gene85454.t1 MTR_4g116330 35.616 219 87 8 4 216 171 341 1.76e-23 96.3
MS.gene85454.t1 MTR_4g023440 33.028 218 95 8 2 216 163 332 3.12e-23 95.5
MS.gene85454.t1 MTR_4g117870 34.404 218 98 9 2 216 92 267 2.30e-22 92.0
MS.gene85454.t1 MTR_5g023000 43.617 94 49 3 126 216 7 99 5.98e-19 79.0
MS.gene85454.t1 MTR_4g117430 43.878 98 43 4 2 99 49 134 2.85e-17 75.9
MS.gene85454.t1 MTR_4g121580 34.762 210 96 12 2 205 164 338 8.77e-16 75.5
MS.gene85454.t1 MTR_8g013010 42.017 119 56 6 2 119 203 309 1.11e-15 74.7
MS.gene85454.t1 MTR_6g021880 30.047 213 136 8 3 208 175 381 2.41e-14 71.2
MS.gene85454.t1 MTR_7g117720 38.017 121 66 5 100 211 152 272 3.07e-13 67.4
MS.gene85454.t1 MTR_2g024110 25.926 162 100 5 24 173 170 323 1.41e-11 63.2
MS.gene85454.t1 MTR_4g114700 40.385 104 54 4 111 206 114 217 1.51e-11 62.0
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene85454.t1 AT3G06240 29.032 155 96 7 23 173 238 382 2.13e-11 62.8

Find 43 sgRNAs with CRISPR-Local

Find 50 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TTGATTCTCATTTGCCTTAT+AGG 0.110040 7.2:+26746340 MS.gene85454:CDS
TATTATTGCCTTTGATTTAA+AGG 0.116438 7.2:+26746458 MS.gene85454:CDS
CGATGATTACATAGTAGTTT+TGG 0.217212 7.2:+26746230 MS.gene85454:CDS
GATATTGTTGGACTAGATTT+TGG 0.260572 7.2:+26746714 MS.gene85454:CDS
GGCAATAATAACATCACTTT+TGG 0.276181 7.2:-26746445 None:intergenic
CACCATTTGTAAAGCATAAT+GGG 0.285559 7.2:-26746689 None:intergenic
CCACCATTTGTAAAGCATAA+TGG 0.287499 7.2:-26746690 None:intergenic
CTCTGTATACACTGCCATTT+GGG 0.310621 7.2:-26746811 None:intergenic
GAGCTTACAGTGTTCCTATA+AGG 0.323996 7.2:-26746354 None:intergenic
GTACCATAGTCGGGTTGTTC+TGG 0.325765 7.2:+26746385 MS.gene85454:CDS
CAGCTACAGTATTACGTCTT+TGG 0.327619 7.2:+26746768 MS.gene85454:CDS
TCTGGAATGGTTCTATTCAT+TGG 0.351860 7.2:+26746403 MS.gene85454:CDS
ACTCTGTATACACTGCCATT+TGG 0.376388 7.2:-26746812 None:intergenic
GAATGGTTCTATTCATTGGC+TGG 0.400515 7.2:+26746407 MS.gene85454:CDS
ATTCCAGAACAACCCGACTA+TGG 0.405686 7.2:-26746388 None:intergenic
AGATGTCTACAATTAAGATA+TGG 0.409901 7.2:+26746589 MS.gene85454:CDS
TAAGCTTGCTCAGTGCCATC+AGG 0.411509 7.2:-26746849 None:intergenic
TACCATAGGATTGAATTTGT+TGG 0.431002 7.2:-26746256 None:intergenic
AGTACGCATTGCATTCATCT+TGG 0.444073 7.2:+26746622 MS.gene85454:CDS
TGTCATTTCCTTTAAATCAA+AGG 0.465778 7.2:-26746466 None:intergenic
GGTACCTTGTTCAATTGACT+TGG 0.466649 7.2:+26746275 MS.gene85454:CDS
TCCCCATTATGCTTTACAAA+TGG 0.468448 7.2:+26746687 MS.gene85454:CDS
ACAAATGGTGGTGATATTGT+TGG 0.469208 7.2:+26746702 MS.gene85454:CDS
TATGATTTGTTGGTATTTCG+CGG 0.474638 7.2:+26746543 MS.gene85454:CDS
CCATTATGCTTTACAAATGG+TGG 0.484675 7.2:+26746690 MS.gene85454:CDS
GTCCAACAAATTCAATCCTA+TGG 0.488916 7.2:+26746254 MS.gene85454:CDS
GATGTCTACAATTAAGATAT+GGG 0.511105 7.2:+26746590 MS.gene85454:CDS
CAAAGACGTAATACTGTAGC+TGG 0.513580 7.2:-26746767 None:intergenic
TTACTTTGCAAGATCCCAAA+TGG 0.518915 7.2:+26746797 MS.gene85454:CDS
AGGAACACTGTAAGCTCTGA+AGG 0.524954 7.2:+26746360 MS.gene85454:CDS
TCTTTGCTTTCACTCCCTGA+TGG 0.527790 7.2:+26746834 MS.gene85454:CDS
TCAATTGAACAAGGTACCAT+AGG 0.544500 7.2:-26746270 None:intergenic
TCTGAAGGTAGTACCATAGT+CGG 0.554172 7.2:+26746375 MS.gene85454:CDS
CTCATTGAGAGCTAATGAGT+GGG 0.557112 7.2:+26746305 MS.gene85454:CDS
CTGAAGGTAGTACCATAGTC+GGG 0.569945 7.2:+26746376 MS.gene85454:CDS
ATAGTCGGGTTGTTCTGGAA+TGG 0.578150 7.2:+26746390 MS.gene85454:CDS
TTAGCGAAGTTTGATCAAGA+AGG 0.588209 7.2:+26746741 MS.gene85454:CDS
TCTCATTGAGAGCTAATGAG+TGG 0.598081 7.2:+26746304 MS.gene85454:CDS
AAGCTTGCTCAGTGCCATCA+GGG 0.607041 7.2:-26746848 None:intergenic
TTCGCGGACTTATCAGTGTG+TGG 0.608569 7.2:+26746559 MS.gene85454:CDS
ACTTATCAGTGTGTGGAATG+TGG 0.624016 7.2:+26746566 MS.gene85454:CDS
ATTTCCAAGTCAATTGAACA+AGG 0.641535 7.2:-26746279 None:intergenic
ACCATTTGTAAAGCATAATG+GGG 0.644715 7.2:-26746688 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! TTTTAGAATTTATGATTTGT+TGG + chr7.2:26746533-26746552 MS.gene85454:CDS 15.0%
!! TAATCACTATAAAAATCATC+TGG - chr7.2:26746510-26746529 None:intergenic 20.0%
!!! TATTATTGCCTTTGATTTAA+AGG + chr7.2:26746458-26746477 MS.gene85454:CDS 20.0%
! AGATGTCTACAATTAAGATA+TGG + chr7.2:26746589-26746608 MS.gene85454:CDS 25.0%
! GATGTCTACAATTAAGATAT+GGG + chr7.2:26746590-26746609 MS.gene85454:CDS 25.0%
!! GATGATTACATAGTAGTTTT+GGG + chr7.2:26746231-26746250 MS.gene85454:CDS 25.0%
!! TGTCATTTCCTTTAAATCAA+AGG - chr7.2:26746469-26746488 None:intergenic 25.0%
!!! ATGATTACATAGTAGTTTTG+GGG + chr7.2:26746232-26746251 MS.gene85454:CDS 25.0%
ACCATTTGTAAAGCATAATG+GGG - chr7.2:26746691-26746710 None:intergenic 30.0%
ATTTCCAAGTCAATTGAACA+AGG - chr7.2:26746282-26746301 None:intergenic 30.0%
CACCATTTGTAAAGCATAAT+GGG - chr7.2:26746692-26746711 None:intergenic 30.0%
TAATGGGGAAAAATTCAGAT+CGG - chr7.2:26746676-26746695 None:intergenic 30.0%
TACCATAGGATTGAATTTGT+TGG - chr7.2:26746259-26746278 None:intergenic 30.0%
TTGATTCTCATTTGCCTTAT+AGG + chr7.2:26746340-26746359 MS.gene85454:CDS 30.0%
! CGATGATTACATAGTAGTTT+TGG + chr7.2:26746230-26746249 MS.gene85454:CDS 30.0%
! GGCAATAATAACATCACTTT+TGG - chr7.2:26746448-26746467 None:intergenic 30.0%
!! GATATTGTTGGACTAGATTT+TGG + chr7.2:26746714-26746733 MS.gene85454:CDS 30.0%
!! TATGATTTGTTGGTATTTCG+CGG + chr7.2:26746543-26746562 MS.gene85454:CDS 30.0%
AATGGGGAAAAATTCAGATC+GGG - chr7.2:26746675-26746694 None:intergenic 35.0%
CCACCATTTGTAAAGCATAA+TGG - chr7.2:26746693-26746712 None:intergenic 35.0%
CCATTATGCTTTACAAATGG+TGG + chr7.2:26746690-26746709 MS.gene85454:CDS 35.0%
GTCCAACAAATTCAATCCTA+TGG + chr7.2:26746254-26746273 MS.gene85454:CDS 35.0%
TCCCCATTATGCTTTACAAA+TGG + chr7.2:26746687-26746706 MS.gene85454:CDS 35.0%
TTACTTTGCAAGATCCCAAA+TGG + chr7.2:26746797-26746816 MS.gene85454:CDS 35.0%
TTAGCGAAGTTTGATCAAGA+AGG + chr7.2:26746741-26746760 MS.gene85454:CDS 35.0%
! ACAAATGGTGGTGATATTGT+TGG + chr7.2:26746702-26746721 MS.gene85454:CDS 35.0%
! TCAATTGAACAAGGTACCAT+AGG - chr7.2:26746273-26746292 None:intergenic 35.0%
! TCTGGAATGGTTCTATTCAT+TGG + chr7.2:26746403-26746422 MS.gene85454:CDS 35.0%
!! ATTGTTGGACTAGATTTTGG+TGG + chr7.2:26746717-26746736 MS.gene85454:CDS 35.0%
ACTCTGTATACACTGCCATT+TGG - chr7.2:26746815-26746834 None:intergenic 40.0%
ACTTATCAGTGTGTGGAATG+TGG + chr7.2:26746566-26746585 MS.gene85454:CDS 40.0%
AGTACGCATTGCATTCATCT+TGG + chr7.2:26746622-26746641 MS.gene85454:CDS 40.0%
CAAAGACGTAATACTGTAGC+TGG - chr7.2:26746770-26746789 None:intergenic 40.0%
CAGCTACAGTATTACGTCTT+TGG + chr7.2:26746768-26746787 MS.gene85454:CDS 40.0%
CTCATTGAGAGCTAATGAGT+GGG + chr7.2:26746305-26746324 MS.gene85454:CDS 40.0%
GAGCTTACAGTGTTCCTATA+AGG - chr7.2:26746357-26746376 None:intergenic 40.0%
GGTACCTTGTTCAATTGACT+TGG + chr7.2:26746275-26746294 MS.gene85454:CDS 40.0%
TCTCATTGAGAGCTAATGAG+TGG + chr7.2:26746304-26746323 MS.gene85454:CDS 40.0%
TCTGAAGGTAGTACCATAGT+CGG + chr7.2:26746375-26746394 MS.gene85454:CDS 40.0%
! CTCTGTATACACTGCCATTT+GGG - chr7.2:26746814-26746833 None:intergenic 40.0%
! GAATGGTTCTATTCATTGGC+TGG + chr7.2:26746407-26746426 MS.gene85454:CDS 40.0%
ATTCCAGAACAACCCGACTA+TGG - chr7.2:26746391-26746410 None:intergenic 45.0%
CTGAAGGTAGTACCATAGTC+GGG + chr7.2:26746376-26746395 MS.gene85454:CDS 45.0%
TCTTTGCTTTCACTCCCTGA+TGG + chr7.2:26746834-26746853 MS.gene85454:CDS 45.0%
! AGGAACACTGTAAGCTCTGA+AGG + chr7.2:26746360-26746379 MS.gene85454:CDS 45.0%
!! ATAGTCGGGTTGTTCTGGAA+TGG + chr7.2:26746390-26746409 MS.gene85454:CDS 45.0%
TTCGCGGACTTATCAGTGTG+TGG + chr7.2:26746559-26746578 MS.gene85454:CDS 50.0%
! AAGCTTGCTCAGTGCCATCA+GGG - chr7.2:26746851-26746870 None:intergenic 50.0%
! GTACCATAGTCGGGTTGTTC+TGG + chr7.2:26746385-26746404 MS.gene85454:CDS 50.0%
! TAAGCTTGCTCAGTGCCATC+AGG - chr7.2:26746852-26746871 None:intergenic 50.0%


Chromosome Type Strat End Strand Name
chr7.2 gene 26746222 26746872 26746222 ID=MS.gene85454
chr7.2 mRNA 26746222 26746872 26746222 ID=MS.gene85454.t1;Parent=MS.gene85454
chr7.2 exon 26746222 26746872 26746222 ID=MS.gene85454.t1.exon1;Parent=MS.gene85454.t1
chr7.2 CDS 26746222 26746872 26746222 ID=cds.MS.gene85454.t1;Parent=MS.gene85454.t1
Gene Sequence

>MS.gene85454

ATGTCAAGCGATGATTACATAGTAGTTTTGGGGTCCAACAAATTCAATCCTATGGTACCTTGTTCAATTGACTTGGAAATTTTCTCATTGAGAGCTAATGAGTGGGAACAAATTGAGTTTGATTCTCATTTGCCTTATAGGAACACTGTAAGCTCTGAAGGTAGTACCATAGTCGGGTTGTTCTGGAATGGTTCTATTCATTGGCTGGTTTACAATTATGAGACCAAAAGTGATGTTATTATTGCCTTTGATTTAAAGGAAATGACAATGTCAGAGATTGCTCTTCCAGATGATTTTTATAGTGATTACTCTTTTAGAATTTATGATTTGTTGGTATTTCGCGGACTTATCAGTGTGTGGAATGTGGAGATGTCTACAATTAAGATATGGGTAATGCAAGAGTACGCATTGCATTCATCTTGGACTAAGACTTTTGATTTCTCTTTTGATCCCGATCTGAATTTTTCCCCATTATGCTTTACAAATGGTGGTGATATTGTTGGACTAGATTTTGGTGGATTAGCGAAGTTTGATCAAGAAGGACACCAGCTACAGTATTACGTCTTTGGTGACTGTTACTTTGCAAGATCCCAAATGGCAGTGTATACAGAGTCTTTGCTTTCACTCCCTGATGGCACTGAGCAAGCTTAA
Protein sequence

>MS.gene85454.t1

MSSDDYIVVLGSNKFNPMVPCSIDLEIFSLRANEWEQIEFDSHLPYRNTVSSEGSTIVGLFWNGSIHWLVYNYETKSDVIIAFDLKEMTMSEIALPDDFYSDYSFRIYDLLVFRGLISVWNVEMSTIKIWVMQEYALHSSWTKTFDFSFDPDLNFSPLCFTNGGDIVGLDFGGLAKFDQEGHQLQYYVFGDCYFARSQMAVYTESLLSLPDGTEQA