AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene059128


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene059128.t1 MTR_1g008500 81.667 300 21 3 1 266 86 385 2.45e-171 478
MS.gene059128.t1 MTR_1g008590 75.096 261 55 3 6 266 75 325 3.28e-140 397
MS.gene059128.t1 MTR_0312s0030 74.060 266 59 3 1 266 70 325 9.47e-140 396
MS.gene059128.t1 MTR_1g007520 74.060 266 59 3 1 266 70 325 9.47e-140 396
MS.gene059128.t1 MTR_1g008510 73.978 269 55 4 3 266 68 326 1.38e-137 390
MS.gene059128.t1 MTR_1g008560 72.388 268 67 3 3 266 66 330 5.89e-135 384
MS.gene059128.t1 MTR_1g008530 78.995 219 45 1 49 266 6 224 1.68e-128 363
MS.gene059128.t1 MTR_1g008470 73.617 235 59 3 32 266 69 300 2.92e-124 356
MS.gene059128.t1 MTR_1g008450 73.504 234 59 3 33 266 83 313 2.95e-121 348
MS.gene059128.t1 MTR_1g008460 64.259 263 85 4 4 266 44 297 1.09e-115 334
MS.gene059128.t1 MTR_3g109490 57.407 270 102 5 2 264 57 320 1.46e-106 311
MS.gene059128.t1 MTR_1g008580 81.871 171 31 0 95 265 1 171 1.04e-103 299
MS.gene059128.t1 MTR_4g069680 43.304 224 122 4 47 266 65 287 3.12e-61 195
MS.gene059128.t1 MTR_3g116410 42.857 224 123 4 47 266 54 276 1.68e-58 188
MS.gene059128.t1 MTR_3g107830 42.411 224 124 3 47 266 34 256 9.28e-58 185
MS.gene059128.t1 MTR_3g116380 42.342 222 122 4 47 264 82 301 3.77e-57 185
MS.gene059128.t1 MTR_3g116320 41.284 218 118 5 52 264 474 686 3.51e-46 164
MS.gene059128.t1 MTR_4g069570 37.900 219 126 6 52 264 120 334 1.53e-45 156
MS.gene059128.t1 MTR_3g116270 38.991 218 123 5 52 264 292 504 1.93e-45 159
MS.gene059128.t1 MTR_4g069040 36.287 237 140 7 34 264 277 508 2.35e-44 157
MS.gene059128.t1 MTR_4g069550 37.443 219 127 6 52 264 247 461 1.68e-41 148
MS.gene059128.t1 MTR_4g069520 36.986 219 128 6 52 264 507 721 3.07e-40 148
MS.gene059128.t1 MTR_4g069520 36.986 219 128 6 52 264 493 707 3.20e-40 147
MS.gene059128.t1 MTR_8g064500 35.616 219 131 5 52 265 159 372 3.71e-39 140
MS.gene059128.t1 MTR_8g064560 34.703 219 133 5 52 265 412 625 1.21e-35 134
MS.gene059128.t1 MTR_6g086530 34.359 195 120 6 79 266 13 206 2.11e-34 123
MS.gene059128.t1 MTR_5g034320 32.719 217 138 5 52 264 415 627 5.98e-34 129
MS.gene059128.t1 MTR_8g064530 34.247 219 134 6 52 265 429 642 6.67e-34 129
MS.gene059128.t1 MTR_8g445170 40.667 150 82 3 115 264 240 382 7.49e-33 124
MS.gene059128.t1 MTR_3g078090 35.602 191 116 4 79 265 439 626 2.20e-32 125
MS.gene059128.t1 MTR_8g445140 30.859 256 119 7 53 264 60 301 3.30e-32 120
MS.gene059128.t1 MTR_8g046000 35.455 220 108 9 51 264 30 221 5.23e-32 118
MS.gene059128.t1 MTR_8g045890 43.750 144 74 4 121 264 294 430 2.56e-31 120
MS.gene059128.t1 MTR_8g045890 43.750 144 74 4 121 264 335 471 4.58e-31 120
MS.gene059128.t1 MTR_2g081610 35.047 214 110 7 52 264 73 258 5.00e-31 116
MS.gene059128.t1 MTR_8g045890 43.750 144 74 4 121 264 372 508 5.59e-31 120
MS.gene059128.t1 MTR_1g008420 74.390 82 19 2 38 118 119 199 6.50e-31 114
MS.gene059128.t1 MTR_8g045880 41.781 146 78 3 119 264 175 313 9.13e-30 114
MS.gene059128.t1 MTR_2g081770 33.023 215 118 7 52 264 79 269 9.55e-30 113
MS.gene059128.t1 MTR_8g045880 41.781 146 78 3 119 264 210 348 1.49e-29 114
MS.gene059128.t1 MTR_8g045880 41.781 146 78 3 119 264 212 350 1.67e-29 114
MS.gene059128.t1 MTR_4g133840 32.979 188 107 4 79 263 15 186 3.16e-29 109
MS.gene059128.t1 MTR_2g081590 31.925 213 118 6 52 264 73 258 6.61e-28 108
MS.gene059128.t1 MTR_5g033340 30.000 220 146 5 50 265 164 379 3.15e-25 103
MS.gene059128.t1 MTR_5g033340 32.394 142 90 3 102 240 8 146 2.47e-15 75.5
MS.gene059128.t1 MTR_1g045860 38.095 147 79 4 121 264 121 258 2.14e-24 99.0
MS.gene059128.t1 MTR_5g033350 30.729 192 126 4 78 265 12 200 7.74e-24 95.9
MS.gene059128.t1 MTR_8g044290 44.545 110 55 3 121 230 229 332 2.78e-23 98.6
MS.gene059128.t1 MTR_5g033330 29.817 218 145 5 50 263 403 616 1.07e-22 97.4
MS.gene059128.t1 MTR_5g033330 30.256 195 128 5 50 240 195 385 1.10e-19 88.6
MS.gene059128.t1 MTR_5g033330 31.138 167 108 4 78 240 14 177 6.07e-17 80.5
MS.gene059128.t1 MTR_4g068420 35.294 136 68 5 132 264 1 119 5.14e-20 83.6
MS.gene059128.t1 MTR_5g033360 27.854 219 134 6 50 265 25 222 5.38e-19 83.6
MS.gene059128.t1 MTR_8g075930 39.241 79 44 2 179 254 10 87 1.40e-16 73.2
MS.gene059128.t1 MTR_5g033430 32.184 87 57 2 181 265 24 110 1.78e-11 60.5
MS.gene059128.t1 MTR_5g033440 30.682 88 59 2 181 266 24 111 5.46e-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.gene059128.t1 AT5G25610 57.937 252 97 5 22 265 141 391 4.56e-98 293
MS.gene059128.t1 AT1G49320 37.662 231 134 5 45 266 51 280 7.42e-49 163
MS.gene059128.t1 AT1G60390 34.862 218 130 6 52 263 409 620 2.38e-35 133
MS.gene059128.t1 AT1G70370 33.953 215 138 3 52 264 411 623 2.86e-34 130
MS.gene059128.t1 AT1G70370 33.953 215 138 3 52 264 411 623 2.86e-34 130
MS.gene059128.t1 AT1G23760 33.180 217 137 5 52 264 407 619 6.16e-32 124

Find 39 sgRNAs with CRISPR-Local

Find 45 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TTCTTCTGTTCCTTCCTTGA+TGG 0.248730 1.2:+11266446 None:intergenic
TCAACTTTGCTTGAAGAAAA+AGG 0.265366 1.2:+11266489 None:intergenic
GGCAAAAGGGGTGAAGAAAT+TGG 0.280969 1.2:-11266241 MS.gene059128:CDS
TTCCACAGGATCATGTTGTT+TGG 0.285326 1.2:-11265987 MS.gene059128:CDS
ATTGAATTAGCAACATCTTT+AGG 0.293417 1.2:+11266513 None:intergenic
ACTTGAAAAGCCAAATGTTT+AGG 0.303666 1.2:+11266051 None:intergenic
TCCACAGGATCATGTTGTTT+GGG 0.305699 1.2:-11265986 MS.gene059128:CDS
GTGCCTTTGGAAGGTGTTGA+TGG 0.355685 1.2:-11266126 MS.gene059128:CDS
CAAGAATATGTAATGGCAAA+AGG 0.365260 1.2:-11266255 MS.gene059128:CDS
AAGAAGAAAAGTGCTACATT+TGG 0.370145 1.2:+11266615 None:intergenic
ACAATGGAATCCTAAACATT+TGG 0.370419 1.2:-11266061 MS.gene059128:CDS
AAAAGTTTACTCTGTGCCTT+TGG 0.385131 1.2:-11266139 MS.gene059128:CDS
ATAAGCGAGTGTGAAGAAAA+TGG 0.404164 1.2:-11266402 MS.gene059128:CDS
AAAGCTTTGTGTGACATCAT+TGG 0.404983 1.2:-11266364 MS.gene059128:CDS
GCAAAAGGGGTGAAGAAATT+GGG 0.440256 1.2:-11266240 MS.gene059128:CDS
AAGAATATGTAATGGCAAAA+GGG 0.442085 1.2:-11266254 MS.gene059128:CDS
CCTTGATGGAGAACATGTTA+AGG 0.448883 1.2:+11266460 None:intergenic
TGTGGAAGGAAGTGACAAAC+TGG 0.450964 1.2:+11266003 None:intergenic
GATTTCACTACTTCGAAACT+TGG 0.458312 1.2:-11266330 MS.gene059128:CDS
TGTGACATCATTGGAATCAA+TGG 0.466709 1.2:-11266355 MS.gene059128:CDS
TTAGAAAAGGATTTACATCA+AGG 0.470233 1.2:-11266594 MS.gene059128:CDS
AACTATATGAATGTTGATGC+AGG 0.499341 1.2:-11266759 None:intergenic
AGTTTGTCACTTCCTTCCAC+AGG 0.501409 1.2:-11266001 MS.gene059128:CDS
ATTAAAGGACAACCAGGAAA+AGG 0.504978 1.2:-11266693 MS.gene059128:CDS
TGTGAAGAAAATGGTATCAA+AGG 0.518996 1.2:-11266393 MS.gene059128:CDS
GTTTACTCTGTGCCTTTGGA+AGG 0.525793 1.2:-11266135 MS.gene059128:CDS
CCTTAACATGTTCTCCATCA+AGG 0.536982 1.2:-11266460 MS.gene059128:CDS
TGACTTGCAAGAATATGTAA+TGG 0.566257 1.2:-11266262 MS.gene059128:CDS
CAAGTGCTCAAAGTTAAACG+TGG 0.570854 1.2:-11266033 MS.gene059128:CDS
GCAGCATAATTGTAAAACAT+AGG 0.586082 1.2:+11266663 None:intergenic
AAAGGACAACCAGGAAAAGG+TGG 0.597740 1.2:-11266690 MS.gene059128:CDS
AACATGTTCTCCATCAAGGA+AGG 0.601008 1.2:-11266456 MS.gene059128:CDS
AGAATATGTAATGGCAAAAG+GGG 0.603055 1.2:-11266253 MS.gene059128:CDS
AGAAAATGGTATCAAAGGAG+AGG 0.637281 1.2:-11266388 MS.gene059128:CDS
AAACAACATGATCCTGTGGA+AGG 0.641220 1.2:+11265989 None:intergenic
AAAGATATTAAAGGACAACC+AGG 0.645079 1.2:-11266699 MS.gene059128:CDS
ACCCAAACAACATGATCCTG+TGG 0.647573 1.2:+11265985 None:intergenic
CTTCCATCAACACCTTCCAA+AGG 0.662188 1.2:+11266123 None:intergenic
GTCACACTGATACTTCACAA+TGG 0.703629 1.2:-11266077 MS.gene059128:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AACATAGAAAAAGATATTAA+AGG - chr1.2:11266020-11266039 MS.gene059128:CDS 15.0%
! AAGAATATGTAATGGCAAAA+GGG - chr1.2:11266474-11266493 MS.gene059128:CDS 25.0%
! ATTGAATTAGCAACATCTTT+AGG + chr1.2:11266218-11266237 None:intergenic 25.0%
! TTAGAAAAGGATTTACATCA+AGG - chr1.2:11266134-11266153 MS.gene059128:CDS 25.0%
AAAGATATTAAAGGACAACC+AGG - chr1.2:11266029-11266048 MS.gene059128:CDS 30.0%
ACAATGGAATCCTAAACATT+TGG - chr1.2:11266667-11266686 MS.gene059128:CDS 30.0%
ACTTGAAAAGCCAAATGTTT+AGG + chr1.2:11266680-11266699 None:intergenic 30.0%
AGAATATGTAATGGCAAAAG+GGG - chr1.2:11266475-11266494 MS.gene059128:CDS 30.0%
CAAGAATATGTAATGGCAAA+AGG - chr1.2:11266473-11266492 MS.gene059128:CDS 30.0%
GACAGTAAAAAACTGCATAA+GGG + chr1.2:11266553-11266572 None:intergenic 30.0%
GCAGCATAATTGTAAAACAT+AGG + chr1.2:11266068-11266087 None:intergenic 30.0%
TCAACTTTGCTTGAAGAAAA+AGG + chr1.2:11266242-11266261 None:intergenic 30.0%
TGACAGTAAAAAACTGCATA+AGG + chr1.2:11266554-11266573 None:intergenic 30.0%
TGTGAAGAAAATGGTATCAA+AGG - chr1.2:11266335-11266354 MS.gene059128:CDS 30.0%
! AGCACTTTTCTTCTTAGAAA+AGG - chr1.2:11266121-11266140 MS.gene059128:CDS 30.0%
! TGACTTGCAAGAATATGTAA+TGG - chr1.2:11266466-11266485 MS.gene059128:CDS 30.0%
!! AAGAAGAAAAGTGCTACATT+TGG + chr1.2:11266116-11266135 None:intergenic 30.0%
AAAAGTTTACTCTGTGCCTT+TGG - chr1.2:11266589-11266608 MS.gene059128:CDS 35.0%
AGAAAATGGTATCAAAGGAG+AGG - chr1.2:11266340-11266359 MS.gene059128:CDS 35.0%
ATAAGCGAGTGTGAAGAAAA+TGG - chr1.2:11266326-11266345 MS.gene059128:CDS 35.0%
ATTAAAGGACAACCAGGAAA+AGG - chr1.2:11266035-11266054 MS.gene059128:CDS 35.0%
GATTTCACTACTTCGAAACT+TGG - chr1.2:11266398-11266417 MS.gene059128:CDS 35.0%
TGTGACATCATTGGAATCAA+TGG - chr1.2:11266373-11266392 MS.gene059128:CDS 35.0%
! AAAGCTTTGTGTGACATCAT+TGG - chr1.2:11266364-11266383 MS.gene059128:CDS 35.0%
! TTTTGCATCATCGTTTGAGT+TGG + chr1.2:11266189-11266208 None:intergenic 35.0%
AAACAACATGATCCTGTGGA+AGG + chr1.2:11266742-11266761 None:intergenic 40.0%
AACATGTTCTCCATCAAGGA+AGG - chr1.2:11266272-11266291 MS.gene059128:CDS 40.0%
CAAGTGCTCAAAGTTAAACG+TGG - chr1.2:11266695-11266714 MS.gene059128:CDS 40.0%
CCTTAACATGTTCTCCATCA+AGG - chr1.2:11266268-11266287 MS.gene059128:CDS 40.0%
CCTTGATGGAGAACATGTTA+AGG + chr1.2:11266271-11266290 None:intergenic 40.0%
GCAAAAGGGGTGAAGAAATT+GGG - chr1.2:11266488-11266507 MS.gene059128:CDS 40.0%
GCAGGAAAAACAAAGTCAAG+TGG - chr1.2:11265987-11266006 MS.gene059128:CDS 40.0%
GTCACACTGATACTTCACAA+TGG - chr1.2:11266651-11266670 MS.gene059128:CDS 40.0%
TTCCACAGGATCATGTTGTT+TGG - chr1.2:11266741-11266760 MS.gene059128:CDS 40.0%
TTCTTCTGTTCCTTCCTTGA+TGG + chr1.2:11266285-11266304 None:intergenic 40.0%
! ATAGGAAAACCACCTTTTCC+TGG + chr1.2:11266050-11266069 None:intergenic 40.0%
! TCCACAGGATCATGTTGTTT+GGG - chr1.2:11266742-11266761 MS.gene059128:CDS 40.0%
AAAGGACAACCAGGAAAAGG+TGG - chr1.2:11266038-11266057 MS.gene059128:CDS 45.0%
ACCCAAACAACATGATCCTG+TGG + chr1.2:11266746-11266765 None:intergenic 45.0%
CTTCCATCAACACCTTCCAA+AGG + chr1.2:11266608-11266627 None:intergenic 45.0%
GGCAAAAGGGGTGAAGAAAT+TGG - chr1.2:11266487-11266506 MS.gene059128:CDS 45.0%
GTTTACTCTGTGCCTTTGGA+AGG - chr1.2:11266593-11266612 MS.gene059128:CDS 45.0%
TGTGGAAGGAAGTGACAAAC+TGG + chr1.2:11266728-11266747 None:intergenic 45.0%
! AGTTTGTCACTTCCTTCCAC+AGG - chr1.2:11266727-11266746 MS.gene059128:CDS 45.0%
!! GTGCCTTTGGAAGGTGTTGA+TGG - chr1.2:11266602-11266621 MS.gene059128:CDS 50.0%


Chromosome Type Strat End Strand Name
chr1.2 gene 11265975 11266775 11265975 ID=MS.gene059128
chr1.2 mRNA 11265975 11266775 11265975 ID=MS.gene059128.t1;Parent=MS.gene059128
chr1.2 exon 11265975 11266775 11265975 ID=MS.gene059128.t1.exon1;Parent=MS.gene059128.t1
chr1.2 CDS 11265975 11266775 11265975 ID=cds.MS.gene059128.t1;Parent=MS.gene059128.t1
Gene Sequence

>MS.gene059128

ATGAATGTTGATGCAGGAAAAACAAAGTCAAGTGGAACATCAGTCAACATAGAAAAAGATATTAAAGGACAACCAGGAAAAGGTGGTTTTCCTATGTTTTACAATTATGCTGCAAGTGAGACACAATTACATGATAAACCAAATGTAGCACTTTTCTTCTTAGAAAAGGATTTACATCAAGGAACAAAGTTGAACTTGCAATTCACAAAAACCAACTCAAACGATGATGCAAAATTCTTGCCTAAAGATGTTGCTAATTCAATACCTTTTTCTTCAAGCAAAGTTGAAAACATCCTTAACATGTTCTCCATCAAGGAAGGAACAGAAGAATCTGAAATTGTGAAGAAAACAATAAGCGAGTGTGAAGAAAATGGTATCAAAGGAGAGGAAAAGCTTTGTGTGACATCATTGGAATCAATGGTTGATTTCACTACTTCGAAACTTGGAAACAATGTCGAAGCTGTTTCAACAGAAGTGAAAAAAGAAAGTAGTGACTTGCAAGAATATGTAATGGCAAAAGGGGTGAAGAAATTGGGAGAGAAGAATAAAGCTGTAGTGTGTCACAAAGAGCATTACCCTTATGCAGTTTTTTACTGTCATAAAACTGATTCAACAAAAGTTTACTCTGTGCCTTTGGAAGGTGTTGATGGAAGTAGAGTTAAAGCTGTTGTTGTGTGTCACACTGATACTTCACAATGGAATCCTAAACATTTGGCTTTTCAAGTGCTCAAAGTTAAACGTGGAACTGTTCCAGTTTGTCACTTCCTTCCACAGGATCATGTTGTTTGGGTTTCCAAGTAA

Protein sequence

>MS.gene059128.t1

MNVDAGKTKSSGTSVNIEKDIKGQPGKGGFPMFYNYAASETQLHDKPNVALFFLEKDLHQGTKLNLQFTKTNSNDDAKFLPKDVANSIPFSSSKVENILNMFSIKEGTEESEIVKKTISECEENGIKGEEKLCVTSLESMVDFTTSKLGNNVEAVSTEVKKESSDLQEYVMAKGVKKLGEKNKAVVCHKEHYPYAVFYCHKTDSTKVYSVPLEGVDGSRVKAVVVCHTDTSQWNPKHLAFQVLKVKRGTVPVCHFLPQDHVVWVSK