AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene058669

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene058669.t1 MTR_8g102520 75.115 217 53 1 1 216 106 322 1.66e-113 327
MS.gene058669.t1 MTR_7g079400 62.896 221 77 2 1 216 117 337 1.06e-90 270
MS.gene058669.t1 MTR_8g098830 71.006 169 49 0 22 190 32 200 2.06e-83 247
MS.gene058669.t1 MTR_7g079370 58.986 217 84 4 2 214 139 354 5.80e-75 230
MS.gene058669.t1 MTR_7g079450 70.714 140 36 2 78 216 2 137 5.26e-63 192
MS.gene058669.t1 MTR_2g048580 54.229 201 79 6 19 216 152 342 6.05e-59 189
MS.gene058669.t1 MTR_7g079420 59.890 182 62 5 42 216 967 1144 9.49e-59 199
MS.gene058669.t1 MTR_6g060650 45.815 227 92 10 2 215 164 372 6.71e-49 164
MS.gene058669.t1 MTR_4g117720 45.205 219 105 8 2 212 162 373 7.68e-49 164
MS.gene058669.t1 MTR_1g055175 45.685 197 98 6 25 216 9 201 3.36e-47 154
MS.gene058669.t1 MTR_8g433030 43.519 216 105 11 4 212 133 338 1.91e-40 141
MS.gene058669.t1 MTR_8g032390 43.519 216 105 11 4 212 166 371 4.70e-40 140
MS.gene058669.t1 MTR_1g055135 41.364 220 124 4 2 216 156 375 3.20e-39 139
MS.gene058669.t1 MTR_4g109280 43.367 196 101 6 25 216 170 359 3.76e-39 138
MS.gene058669.t1 MTR_4g118400 43.299 194 84 8 22 210 122 294 5.04e-38 134
MS.gene058669.t1 MTR_4g118380 43.590 195 95 7 2 186 166 355 6.39e-38 135
MS.gene058669.t1 MTR_4g023130 41.315 213 103 7 2 209 111 306 7.63e-38 134
MS.gene058669.t1 MTR_4g094365 40.889 225 108 10 2 216 155 364 9.94e-38 134
MS.gene058669.t1 MTR_1g055165 46.667 165 79 6 57 216 158 318 1.34e-37 133
MS.gene058669.t1 MTR_5g070130 39.111 225 115 9 2 212 156 372 2.08e-37 134
MS.gene058669.t1 MTR_4g023080 40.845 213 104 7 2 209 152 347 7.12e-37 132
MS.gene058669.t1 MTR_1g055195 41.256 223 110 6 2 216 269 478 5.42e-36 132
MS.gene058669.t1 MTR_4g116330 42.009 219 112 8 4 216 171 380 6.93e-36 130
MS.gene058669.t1 MTR_8g433040 41.364 220 106 9 2 216 163 364 9.27e-36 129
MS.gene058669.t1 MTR_8g032380 41.364 220 106 9 2 216 163 364 9.27e-36 129
MS.gene058669.t1 MTR_4g109270 41.704 223 105 9 3 216 158 364 1.63e-35 129
MS.gene058669.t1 MTR_5g070088 39.189 222 114 9 2 212 170 381 2.12e-35 129
MS.gene058669.t1 MTR_8g040935 40.000 200 107 8 25 216 14 208 4.50e-35 123
MS.gene058669.t1 MTR_3g034180 39.301 229 114 8 2 215 270 488 8.37e-35 129
MS.gene058669.t1 MTR_5g070080 38.249 217 119 8 2 212 174 381 3.70e-34 125
MS.gene058669.t1 MTR_5g097210 38.785 214 122 7 2 211 150 358 8.02e-34 124
MS.gene058669.t1 MTR_6g463430 39.901 203 106 9 15 210 3 196 8.29e-34 120
MS.gene058669.t1 MTR_3g103020 39.910 223 116 9 3 216 165 378 9.91e-34 124
MS.gene058669.t1 MTR_4g122850 39.732 224 117 11 2 216 150 364 1.60e-33 124
MS.gene058669.t1 MTR_4g023070 40.171 234 98 14 2 209 146 363 1.01e-32 121
MS.gene058669.t1 MTR_4g116320 40.278 216 112 9 3 210 46 252 4.99e-32 117
MS.gene058669.t1 MTR_4g117770 42.273 220 112 9 3 216 157 367 7.25e-32 119
MS.gene058669.t1 MTR_4g117810 42.273 220 112 9 3 216 157 367 7.25e-32 119
MS.gene058669.t1 MTR_4g117530 36.866 217 89 8 3 216 82 253 8.79e-32 116
MS.gene058669.t1 MTR_4g023120 38.865 229 108 12 2 209 146 363 1.42e-31 118
MS.gene058669.t1 MTR_4g117780 40.909 220 115 9 3 216 157 367 1.77e-31 118
MS.gene058669.t1 MTR_4g117750 38.739 222 126 5 2 215 139 358 2.03e-31 119
MS.gene058669.t1 MTR_4g021785 38.914 221 112 10 2 216 152 355 7.98e-31 116
MS.gene058669.t1 MTR_4g117850 37.557 221 120 9 3 212 163 376 4.17e-30 114
MS.gene058669.t1 MTR_4g118370 37.963 216 104 7 2 211 64 255 6.38e-30 111
MS.gene058669.t1 MTR_3g034130 37.500 200 100 8 2 185 156 346 1.56e-29 113
MS.gene058669.t1 MTR_3g034160 38.117 223 111 10 4 210 158 369 2.60e-28 109
MS.gene058669.t1 MTR_4g023090 34.513 226 116 9 4 210 166 378 2.63e-28 110
MS.gene058669.t1 MTR_1g055250 40.404 198 103 9 2 192 56 245 1.85e-27 106
MS.gene058669.t1 MTR_4g023190 37.037 216 113 7 2 210 154 353 4.95e-27 106
MS.gene058669.t1 MTR_4g118360 45.000 120 64 2 93 210 1 120 8.81e-27 99.8
MS.gene058669.t1 MTR_4g023150 36.574 216 115 8 2 210 154 354 1.19e-26 105
MS.gene058669.t1 MTR_4g023380 34.742 213 102 8 25 210 169 371 1.98e-25 102
MS.gene058669.t1 MTR_4g023200 35.185 216 118 8 2 210 154 354 2.08e-24 99.0
MS.gene058669.t1 MTR_4g117870 35.321 218 96 9 2 216 92 267 6.41e-23 93.6
MS.gene058669.t1 MTR_4g023440 33.486 218 94 8 1 215 162 331 8.76e-23 94.4
MS.gene058669.t1 MTR_4g116330 35.616 219 87 8 4 216 171 341 9.45e-22 91.7
MS.gene058669.t1 MTR_4g117430 43.564 101 39 4 2 99 49 134 1.12e-17 77.0
MS.gene058669.t1 MTR_5g023000 43.617 94 49 3 126 216 7 99 3.36e-17 74.3
MS.gene058669.t1 MTR_4g122860 31.980 197 91 10 29 215 156 319 6.18e-16 75.5
MS.gene058669.t1 MTR_4g121580 34.762 210 96 12 2 205 164 338 1.44e-15 74.7
MS.gene058669.t1 MTR_8g013010 41.176 119 57 6 2 119 203 309 1.60e-15 74.3
MS.gene058669.t1 MTR_6g021880 30.093 216 132 8 3 208 175 381 4.25e-14 70.5
MS.gene058669.t1 MTR_4g114700 41.346 104 53 4 111 206 114 217 4.29e-11 60.8
MS.gene058669.t1 MTR_6g034720 44.444 90 45 4 1 89 79 164 9.51e-11 59.7
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score

Find 41 sgRNAs with CRISPR-Local

Find 48 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TTGATTCTCATTTGCCTTAT+AGG 0.110040 7.4:+26952160 MS.gene058669:CDS
TATTATTGCCTTTGATTTAA+AGG 0.116438 7.4:+26952278 MS.gene058669:CDS
CGATGATTACATAGTAGTTT+TGG 0.217212 7.4:+26952050 MS.gene058669:CDS
GATATTGTTGGACTAGATTT+TGG 0.260572 7.4:+26952534 MS.gene058669:CDS
GGCAATAATAACATCACTTT+TGG 0.276181 7.4:-26952265 None:intergenic
CTCTGTATACACTGCCATTT+GGG 0.310621 7.4:-26952631 None:intergenic
GAGCTTACAGTGTTCCTATA+AGG 0.323996 7.4:-26952174 None:intergenic
GTACCATAGTCGGGTTGTTC+TGG 0.325765 7.4:+26952205 MS.gene058669:CDS
CAGCTACAGTATTACGTCTT+TGG 0.327619 7.4:+26952588 MS.gene058669:CDS
TCTGGAATGGTTCTATTCAT+TGG 0.351860 7.4:+26952223 MS.gene058669:CDS
ACTCTGTATACACTGCCATT+TGG 0.376388 7.4:-26952632 None:intergenic
CACCATTTGTAAAGCATACT+AGG 0.382313 7.4:-26952509 None:intergenic
GAATGGTTCTATTCATTGGC+TGG 0.400515 7.4:+26952227 MS.gene058669:CDS
ATTCCAGAACAACCCGACTA+TGG 0.405686 7.4:-26952208 None:intergenic
ATATGTCTACAATTAAGATA+TGG 0.406048 7.4:+26952409 MS.gene058669:CDS
TAAGCTTGCTCAATGCCATC+AGG 0.418945 7.4:-26952669 None:intergenic
TACCATAGGATTGAATTTGT+TGG 0.431002 7.4:-26952076 None:intergenic
GTCCAACAAATTCAATCCTA+TGG 0.452915 7.4:+26952074 MS.gene058669:CDS
TGTCATTTCCTTTAAATCAA+AGG 0.465778 7.4:-26952286 None:intergenic
TCCCTAGTATGCTTTACAAA+TGG 0.465965 7.4:+26952507 MS.gene058669:CDS
ACAAATGGTGGTGATATTGT+TGG 0.469208 7.4:+26952522 MS.gene058669:CDS
TATGATTTGTTGGTATTTCG+CGG 0.474638 7.4:+26952363 MS.gene058669:CDS
GGTATCTTGTTCAATTGACT+TGG 0.479657 7.4:+26952095 MS.gene058669:CDS
TTACTTTACAAGATCCCAAA+TGG 0.496241 7.4:+26952617 MS.gene058669:CDS
TATGTCTACAATTAAGATAT+GGG 0.507454 7.4:+26952410 MS.gene058669:CDS
CTAGTATGCTTTACAAATGG+TGG 0.509686 7.4:+26952510 MS.gene058669:CDS
CAAAGACGTAATACTGTAGC+TGG 0.513580 7.4:-26952587 None:intergenic
AGTACGCAGTGCATTCGTCT+TGG 0.521419 7.4:+26952442 MS.gene058669:CDS
TCTTTGCTTTCACTCCCTGA+TGG 0.523281 7.4:+26952654 MS.gene058669:CDS
AGGAACACTGTAAGCTCTGA+AGG 0.524954 7.4:+26952180 MS.gene058669:CDS
CTCATTGAGAACTAATGAGT+GGG 0.529972 7.4:+26952125 MS.gene058669:CDS
TCTGAAGGTAGTACCATAGT+CGG 0.554172 7.4:+26952195 MS.gene058669:CDS
CTGAAGGTAGTACCATAGTC+GGG 0.569945 7.4:+26952196 MS.gene058669:CDS
ATAGTCGGGTTGTTCTGGAA+TGG 0.578150 7.4:+26952210 MS.gene058669:CDS
TTAGCGAAGTTTGATCAAGA+AGG 0.588209 7.4:+26952561 MS.gene058669:CDS
ACCATTTGTAAAGCATACTA+GGG 0.591219 7.4:-26952508 None:intergenic
TCAATTGAACAAGATACCAT+AGG 0.592821 7.4:-26952090 None:intergenic
TTCGCGGACTTATCAGTGTG+TGG 0.608569 7.4:+26952379 MS.gene058669:CDS
TCTCATTGAGAACTAATGAG+TGG 0.610483 7.4:+26952124 MS.gene058669:CDS
AAGCTTGCTCAATGCCATCA+GGG 0.614477 7.4:-26952668 None:intergenic
ACTTATCAGTGTGTGGAATG+TGG 0.620365 7.4:+26952386 MS.gene058669:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! TTTTAGAATTTATGATTTGT+TGG + chr7.4:26952353-26952372 MS.gene058669:CDS 15.0%
!! ATATGTCTACAATTAAGATA+TGG + chr7.4:26952409-26952428 MS.gene058669:CDS 20.0%
!! TAATCACTATAAAAATCATC+TGG - chr7.4:26952330-26952349 None:intergenic 20.0%
!! TATGTCTACAATTAAGATAT+GGG + chr7.4:26952410-26952429 MS.gene058669:CDS 20.0%
!!! TATTATTGCCTTTGATTTAA+AGG + chr7.4:26952278-26952297 MS.gene058669:CDS 20.0%
!! GATGATTACATAGTAGTTTT+GGG + chr7.4:26952051-26952070 MS.gene058669:CDS 25.0%
!! TGTCATTTCCTTTAAATCAA+AGG - chr7.4:26952289-26952308 None:intergenic 25.0%
!!! ATGATTACATAGTAGTTTTG+GGG + chr7.4:26952052-26952071 MS.gene058669:CDS 25.0%
ACCATTTGTAAAGCATACTA+GGG - chr7.4:26952511-26952530 None:intergenic 30.0%
TACCATAGGATTGAATTTGT+TGG - chr7.4:26952079-26952098 None:intergenic 30.0%
TACTAGGGAAAAATTCAGAT+CGG - chr7.4:26952496-26952515 None:intergenic 30.0%
TCAATTGAACAAGATACCAT+AGG - chr7.4:26952093-26952112 None:intergenic 30.0%
TTACTTTACAAGATCCCAAA+TGG + chr7.4:26952617-26952636 MS.gene058669:CDS 30.0%
TTGATTCTCATTTGCCTTAT+AGG + chr7.4:26952160-26952179 MS.gene058669:CDS 30.0%
! CGATGATTACATAGTAGTTT+TGG + chr7.4:26952050-26952069 MS.gene058669:CDS 30.0%
! GGCAATAATAACATCACTTT+TGG - chr7.4:26952268-26952287 None:intergenic 30.0%
!! GATATTGTTGGACTAGATTT+TGG + chr7.4:26952534-26952553 MS.gene058669:CDS 30.0%
!! TATGATTTGTTGGTATTTCG+CGG + chr7.4:26952363-26952382 MS.gene058669:CDS 30.0%
ACTAGGGAAAAATTCAGATC+GGG - chr7.4:26952495-26952514 None:intergenic 35.0%
CACCATTTGTAAAGCATACT+AGG - chr7.4:26952512-26952531 None:intergenic 35.0%
CTAGTATGCTTTACAAATGG+TGG + chr7.4:26952510-26952529 MS.gene058669:CDS 35.0%
CTCATTGAGAACTAATGAGT+GGG + chr7.4:26952125-26952144 MS.gene058669:CDS 35.0%
GGTATCTTGTTCAATTGACT+TGG + chr7.4:26952095-26952114 MS.gene058669:CDS 35.0%
GTCCAACAAATTCAATCCTA+TGG + chr7.4:26952074-26952093 MS.gene058669:CDS 35.0%
TCCCTAGTATGCTTTACAAA+TGG + chr7.4:26952507-26952526 MS.gene058669:CDS 35.0%
TCTCATTGAGAACTAATGAG+TGG + chr7.4:26952124-26952143 MS.gene058669:CDS 35.0%
TTAGCGAAGTTTGATCAAGA+AGG + chr7.4:26952561-26952580 MS.gene058669:CDS 35.0%
! ACAAATGGTGGTGATATTGT+TGG + chr7.4:26952522-26952541 MS.gene058669:CDS 35.0%
! TCTGGAATGGTTCTATTCAT+TGG + chr7.4:26952223-26952242 MS.gene058669:CDS 35.0%
!! ATTGTTGGACTAGATTTTGG+TGG + chr7.4:26952537-26952556 MS.gene058669:CDS 35.0%
ACTCTGTATACACTGCCATT+TGG - chr7.4:26952635-26952654 None:intergenic 40.0%
ACTTATCAGTGTGTGGAATG+TGG + chr7.4:26952386-26952405 MS.gene058669:CDS 40.0%
CAAAGACGTAATACTGTAGC+TGG - chr7.4:26952590-26952609 None:intergenic 40.0%
CAGCTACAGTATTACGTCTT+TGG + chr7.4:26952588-26952607 MS.gene058669:CDS 40.0%
GAGCTTACAGTGTTCCTATA+AGG - chr7.4:26952177-26952196 None:intergenic 40.0%
TCTGAAGGTAGTACCATAGT+CGG + chr7.4:26952195-26952214 MS.gene058669:CDS 40.0%
! CTCTGTATACACTGCCATTT+GGG - chr7.4:26952634-26952653 None:intergenic 40.0%
! GAATGGTTCTATTCATTGGC+TGG + chr7.4:26952227-26952246 MS.gene058669:CDS 40.0%
ATTCCAGAACAACCCGACTA+TGG - chr7.4:26952211-26952230 None:intergenic 45.0%
CTGAAGGTAGTACCATAGTC+GGG + chr7.4:26952196-26952215 MS.gene058669:CDS 45.0%
TCTTTGCTTTCACTCCCTGA+TGG + chr7.4:26952654-26952673 MS.gene058669:CDS 45.0%
! AAGCTTGCTCAATGCCATCA+GGG - chr7.4:26952671-26952690 None:intergenic 45.0%
! AGGAACACTGTAAGCTCTGA+AGG + chr7.4:26952180-26952199 MS.gene058669:CDS 45.0%
! TAAGCTTGCTCAATGCCATC+AGG - chr7.4:26952672-26952691 None:intergenic 45.0%
!! ATAGTCGGGTTGTTCTGGAA+TGG + chr7.4:26952210-26952229 MS.gene058669:CDS 45.0%
AGTACGCAGTGCATTCGTCT+TGG + chr7.4:26952442-26952461 MS.gene058669:CDS 50.0%
TTCGCGGACTTATCAGTGTG+TGG + chr7.4:26952379-26952398 MS.gene058669:CDS 50.0%
! GTACCATAGTCGGGTTGTTC+TGG + chr7.4:26952205-26952224 MS.gene058669:CDS 50.0%


Chromosome Type Strat End Strand Name
chr7.4 gene 26952042 26952692 26952042 ID=MS.gene058669
chr7.4 mRNA 26952042 26952692 26952042 ID=MS.gene058669.t1;Parent=MS.gene058669
chr7.4 exon 26952042 26952692 26952042 ID=MS.gene058669.t1.exon1;Parent=MS.gene058669.t1
chr7.4 CDS 26952042 26952692 26952042 ID=cds.MS.gene058669.t1;Parent=MS.gene058669.t1
Gene Sequence

>MS.gene058669

ATGTCAAGCGATGATTACATAGTAGTTTTGGGGTCCAACAAATTCAATCCTATGGTATCTTGTTCAATTGACTTGGAAATTTTCTCATTGAGAACTAATGAGTGGGAACAAATTGAGTTTGATTCTCATTTGCCTTATAGGAACACTGTAAGCTCTGAAGGTAGTACCATAGTCGGGTTGTTCTGGAATGGTTCTATTCATTGGCTGGTTTACAATTATGAGACCAAAAGTGATGTTATTATTGCCTTTGATTTAAAGGAAATGACAATGTCAGAGATTGCTCTTCCAGATGATTTTTATAGTGATTACTCTTTTAGAATTTATGATTTGTTGGTATTTCGCGGACTTATCAGTGTGTGGAATGTGGATATGTCTACAATTAAGATATGGGTGATGCAAGAGTACGCAGTGCATTCGTCTTGGACTAAGACTTTTGATTTCTCTTTTGATCCCGATCTGAATTTTTCCCTAGTATGCTTTACAAATGGTGGTGATATTGTTGGACTAGATTTTGGTGGATTAGCGAAGTTTGATCAAGAAGGACACCAGCTACAGTATTACGTCTTTGGTGACTGTTACTTTACAAGATCCCAAATGGCAGTGTATACAGAGTCTTTGCTTTCACTCCCTGATGGCATTGAGCAAGCTTAA
Protein sequence

>MS.gene058669.t1

MSSDDYIVVLGSNKFNPMVSCSIDLEIFSLRTNEWEQIEFDSHLPYRNTVSSEGSTIVGLFWNGSIHWLVYNYETKSDVIIAFDLKEMTMSEIALPDDFYSDYSFRIYDLLVFRGLISVWNVDMSTIKIWVMQEYAVHSSWTKTFDFSFDPDLNFSLVCFTNGGDIVGLDFGGLAKFDQEGHQLQYYVFGDCYFTRSQMAVYTESLLSLPDGIEQA