AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene76967


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene76967.t1 MTR_7g008040 98.754 321 4 0 1 321 169 489 0.0 654
MS.gene76967.t1 MTR_4g107370 63.253 332 112 2 1 322 174 505 3.64e-147 425
MS.gene76967.t1 MTR_6g009540 71.331 293 77 3 1 292 173 459 2.83e-146 422
MS.gene76967.t1 MTR_6g009520 71.233 292 77 3 2 292 176 461 3.63e-144 417
MS.gene76967.t1 MTR_6g042290 68.259 293 74 4 1 292 177 451 1.65e-139 404
MS.gene76967.t1 MTR_1g022250 64.780 318 89 6 1 317 172 467 1.95e-139 403
MS.gene76967.t1 MTR_6g009553 67.219 302 85 4 1 292 151 448 1.12e-137 399
MS.gene76967.t1 MTR_6g009770 67.333 300 86 3 1 292 152 447 1.65e-135 394
MS.gene76967.t1 MTR_2g030420 63.430 309 95 4 1 309 175 465 2.55e-135 392
MS.gene76967.t1 MTR_6g009720 66.890 299 87 3 1 291 174 468 3.67e-134 392
MS.gene76967.t1 MTR_6g009510 58.333 336 87 5 1 321 152 449 8.21e-126 368
MS.gene76967.t1 MTR_1g022245 61.017 295 110 2 1 291 167 460 3.37e-125 368
MS.gene76967.t1 MTR_6g009660 62.545 275 84 4 21 292 153 411 7.83e-109 325
MS.gene76967.t1 MTR_4g128260 48.665 337 134 9 2 327 169 477 1.59e-97 298
MS.gene76967.t1 MTR_2g061820 48.475 295 141 4 3 296 164 448 7.14e-97 296
MS.gene76967.t1 MTR_5g020980 49.662 296 116 6 4 297 187 451 4.78e-96 293
MS.gene76967.t1 MTR_8g076920 45.161 310 139 3 18 323 206 488 9.94e-89 275
MS.gene76967.t1 MTR_2g076710 48.611 288 115 7 18 302 192 449 3.02e-88 272
MS.gene76967.t1 MTR_2g076690 49.135 289 116 7 23 307 191 452 1.21e-87 270
MS.gene76967.t1 MTR_2g076920 47.987 298 121 6 10 304 176 442 7.36e-87 269
MS.gene76967.t1 MTR_2g076970 46.980 298 121 6 25 314 186 454 1.24e-86 268
MS.gene76967.t1 MTR_2g076990 46.780 295 126 6 25 313 129 398 2.25e-83 259
MS.gene76967.t1 MTR_2g076840 50.190 263 105 3 30 292 467 703 1.87e-82 264
MS.gene76967.t1 MTR_2g076840 44.884 303 131 6 7 309 177 443 1.75e-81 262
MS.gene76967.t1 MTR_2g076900 44.040 302 132 5 24 323 190 456 1.09e-81 255
MS.gene76967.t1 MTR_3g103150 44.128 281 131 4 22 300 28 284 2.46e-80 246
MS.gene76967.t1 MTR_5g020990 43.599 289 146 3 18 304 209 482 5.48e-79 249
MS.gene76967.t1 MTR_7g117950 38.144 291 133 7 3 292 161 405 5.72e-61 202
MS.gene76967.t1 MTR_3g092060 34.014 294 148 5 2 292 164 414 5.07e-56 189
MS.gene76967.t1 MTR_1g011680 64.885 131 43 1 164 291 3 133 4.23e-52 170
MS.gene76967.t1 MTR_5g021020 36.299 281 135 7 22 300 175 413 8.69e-47 163
MS.gene76967.t1 MTR_8g027200 31.481 324 140 9 24 326 179 441 2.05e-45 160
MS.gene76967.t1 MTR_5g021000 50.926 108 48 2 187 292 1 105 5.01e-31 115
MS.gene76967.t1 MTR_5g020720 36.364 187 92 5 94 278 25 186 3.70e-28 108
MS.gene76967.t1 MTR_1g113750 67.143 70 23 0 220 289 16 85 1.04e-24 97.4
MS.gene76967.t1 MTR_5g021010 43.243 111 51 4 192 293 15 122 1.73e-17 77.8
MS.gene76967.t1 MTR_2g076820 55.769 52 23 0 220 271 1 52 4.77e-11 58.5
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene76967.t1 AT5G40010 69.966 293 78 4 1 288 173 460 2.97e-140 407
MS.gene76967.t1 AT3G28610 61.514 317 109 3 2 317 168 472 7.91e-135 392
MS.gene76967.t1 AT3G28580 67.820 289 85 4 2 288 173 455 1.43e-134 392
MS.gene76967.t1 AT3G28600 62.418 306 101 2 2 306 130 422 4.65e-134 389
MS.gene76967.t1 AT3G28600 62.418 306 101 2 2 306 169 461 2.57e-133 388
MS.gene76967.t1 AT3G28510 63.051 295 103 1 1 295 173 461 2.10e-130 382
MS.gene76967.t1 AT3G28540 62.069 290 107 1 1 290 169 455 4.93e-127 373
MS.gene76967.t1 AT3G28540 62.069 290 107 1 1 290 169 455 6.95e-127 373
MS.gene76967.t1 AT5G40000 59.807 311 104 6 1 308 172 464 7.93e-126 369
MS.gene76967.t1 AT3G28520 59.450 291 111 2 1 291 158 441 3.45e-118 349
MS.gene76967.t1 AT3G28580 61.938 289 80 5 2 288 173 433 8.86e-118 348
MS.gene76967.t1 AT3G28570 57.756 303 103 3 2 303 167 445 3.63e-117 346
MS.gene76967.t1 AT3G28570 57.756 303 103 3 2 303 174 452 5.86e-117 345
MS.gene76967.t1 AT3G50930 49.660 294 126 4 7 300 236 507 1.04e-96 297
MS.gene76967.t1 AT3G50940 49.632 272 110 3 24 295 200 444 1.32e-94 288
MS.gene76967.t1 AT5G57480 47.557 307 135 6 2 294 169 463 2.35e-93 287
MS.gene76967.t1 AT4G25835 48.495 299 138 7 3 297 170 456 8.33e-93 285
MS.gene76967.t1 AT4G05380 46.667 300 141 3 7 304 177 459 2.36e-91 280
MS.gene76967.t1 AT4G30250 47.811 297 139 5 8 300 183 467 7.48e-89 276
MS.gene76967.t1 AT4G30250 47.811 297 139 5 8 300 185 469 8.78e-89 275
MS.gene76967.t1 AT2G18193 43.849 317 146 5 5 319 180 466 9.81e-89 275
MS.gene76967.t1 AT5G17760 45.907 281 124 3 24 300 206 462 7.11e-88 273
MS.gene76967.t1 AT5G17740 43.537 294 140 4 18 306 192 464 3.25e-85 266
MS.gene76967.t1 AT5G17730 43.571 280 129 3 24 300 198 451 5.11e-85 264
MS.gene76967.t1 AT1G43910 49.470 283 128 5 18 298 184 453 1.41e-83 261
MS.gene76967.t1 AT2G18190 43.902 287 135 4 19 303 192 454 9.24e-82 256
MS.gene76967.t1 AT5G17750 45.417 240 105 2 24 258 173 391 2.53e-74 234
MS.gene76967.t1 AT2G46620 39.781 274 125 5 21 292 181 416 1.33e-64 212
MS.gene76967.t1 AT5G17760 50.388 129 64 0 24 152 206 334 8.42e-45 156
MS.gene76967.t1 AT3G29800 31.769 277 139 6 18 289 146 377 2.83e-41 149
MS.gene76967.t1 AT4G05340 50.000 92 39 1 160 244 2 93 1.08e-20 85.5

Find 45 sgRNAs with CRISPR-Local

Find 60 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AAACGCGGTTATTTACTTTA+TGG 0.206027 7.2:-89771349 MS.gene76967:CDS
AATAGTAAGGTAACTTTATC+TGG 0.207637 7.2:-89771037 MS.gene76967:CDS
GGTTCTTGTTAAGAATTATT+TGG 0.226983 7.2:-89770855 MS.gene76967:CDS
CATGATTTGTTTGATGAAAT+TGG 0.246773 7.2:-89770821 MS.gene76967:CDS
AAGAAATTGCAATGAGAAAT+AGG 0.272071 7.2:-89771570 None:intergenic
AACTTGATCCGGCTCTTATT+AGG 0.290902 7.2:-89770934 MS.gene76967:CDS
GAAAACAATGTGACTCCATT+TGG 0.322099 7.2:+89771492 None:intergenic
ATAGTAGATTTACCTGTTCC+TGG 0.352380 7.2:+89771322 None:intergenic
GTGGAAGATGTGAAGGAAAA+TGG 0.364356 7.2:-89770626 MS.gene76967:CDS
TCTTGAATTAACCGCGGTTA+AGG 0.395319 7.2:-89771257 MS.gene76967:CDS
CTTTATGGTCCTCCAGGAAC+AGG 0.413204 7.2:-89771334 MS.gene76967:CDS
TAGCCATACCAACCACTACT+TGG 0.433604 7.2:+89771523 None:intergenic
TAAGGAAGAAGACTCATTCA+TGG 0.461057 7.2:-89771113 MS.gene76967:CDS
GCAAGTGTCTCAAAAGTTGC+AGG 0.465004 7.2:+89771463 None:intergenic
TTTGAAGTTTAGAAATGGTA+AGG 0.467899 7.2:-89771401 MS.gene76967:CDS
TGATGAAATTGGTGATTTGT+TGG 0.479236 7.2:-89770810 MS.gene76967:CDS
TATTTACTTTATGGTCCTCC+AGG 0.495610 7.2:-89771340 MS.gene76967:CDS
AATCCAAGTAGTGGTTGGTA+TGG 0.510050 7.2:-89771526 MS.gene76967:CDS
ATGGCTACAAACAATCCAAA+TGG 0.513174 7.2:-89771507 MS.gene76967:CDS
AAATTCTCAGCAACATCAGC+AGG 0.526229 7.2:+89770770 None:intergenic
AAATGGTTACATTGTGAGAG+TGG 0.530013 7.2:-89770609 MS.gene76967:CDS
CAAATAATCCAAGTAGTGGT+TGG 0.539028 7.2:-89771531 MS.gene76967:CDS
ATCTACTATGATAGCCGCTA+TGG 0.541351 7.2:-89771308 MS.gene76967:CDS
ATCGGTAAGGCTTGGAAACG+CGG 0.549524 7.2:-89771364 MS.gene76967:CDS
ACATCTTCATTCACAGACTT+AGG 0.556783 7.2:+89770743 None:intergenic
CTTCCTGTCCTAATAAGAGC+CGG 0.561724 7.2:+89770926 None:intergenic
GATCCGGCTCTTATTAGGAC+AGG 0.564849 7.2:-89770929 MS.gene76967:CDS
TATACAAATAATCCAAGTAG+TGG 0.565102 7.2:-89771535 MS.gene76967:CDS
TCTTATTAGGACAGGAAGGA+TGG 0.580005 7.2:-89770921 MS.gene76967:CDS
GGTCCGCGTGTGGAGGAGAG+AGG 0.586140 7.2:-89770988 MS.gene76967:CDS
ATTTGATTCAAGCACTTGAG+AGG 0.587639 7.2:-89770703 MS.gene76967:CDS
GAAGACAAGGAAGATAGTGT+AGG 0.600054 7.2:-89770653 MS.gene76967:CDS
TCAAGCACTTGAGAGGAAGA+AGG 0.600486 7.2:-89770696 MS.gene76967:CDS
AGGAACTGTGGAAGATGTGA+AGG 0.615776 7.2:-89770633 MS.gene76967:CDS
CGGCTCTTATTAGGACAGGA+AGG 0.621448 7.2:-89770925 MS.gene76967:CDS
TTGCAATGAGAAATAGGCAA+AGG 0.621519 7.2:-89771564 None:intergenic
GGAAGATAGTGTAGGAACTG+TGG 0.624422 7.2:-89770645 MS.gene76967:CDS
GATGGAATTTGGTCCGCGTG+TGG 0.633363 7.2:-89770998 MS.gene76967:CDS
CTCAGTATTATCCTTAACCG+CGG 0.645496 7.2:+89771246 None:intergenic
GGAATTTGGTCCGCGTGTGG+AGG 0.645589 7.2:-89770995 MS.gene76967:CDS
AGCACTTGAGAGGAAGAAGG+TGG 0.649097 7.2:-89770693 MS.gene76967:CDS
AATCCTCTCTCCTCCACACG+CGG 0.650999 7.2:+89770985 None:intergenic
GTTCATGAAATTCGCCATAG+CGG 0.682175 7.2:+89771294 None:intergenic
GTAGATTTACCTGTTCCTGG+AGG 0.701492 7.2:+89771325 None:intergenic
TTATGATCTTGAATTAACCG+CGG 0.736452 7.2:-89771263 MS.gene76967:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AACAAAAAGATTATTATCAT+AGG - chr7.2:89771058-89771077 MS.gene76967:CDS 15.0%
!! GAATAATAGTAAAAATAGTA+AGG - chr7.2:89771098-89771117 MS.gene76967:CDS 15.0%
!! TTATTATCATAGGAAAAAAG+AGG - chr7.2:89771068-89771087 MS.gene76967:CDS 20.0%
!!! CATTTTTATTAATCTTCCTT+TGG + chr7.2:89771008-89771027 None:intergenic 20.0%
!!! GGTTTATTGAATTTTATTGA+TGG - chr7.2:89771132-89771151 MS.gene76967:CDS 20.0%
!!! TGAATTTTATTGATGGAATT+TGG - chr7.2:89771139-89771158 MS.gene76967:CDS 20.0%
! AAGGACTATTATGCAAAAAT+CGG - chr7.2:89770766-89770785 MS.gene76967:CDS 25.0%
! AATAGTAAGGTAACTTTATC+TGG - chr7.2:89771111-89771130 MS.gene76967:CDS 25.0%
! GGTTCTTGTTAAGAATTATT+TGG - chr7.2:89771293-89771312 MS.gene76967:CDS 25.0%
! TATACAAATAATCCAAGTAG+TGG - chr7.2:89770613-89770632 MS.gene76967:CDS 25.0%
!! TTTGAAGTTTAGAAATGGTA+AGG - chr7.2:89770747-89770766 MS.gene76967:CDS 25.0%
!!! CATGATTTGTTTGATGAAAT+TGG - chr7.2:89771327-89771346 MS.gene76967:CDS 25.0%
!!! GATCTTTTGAAGTTTAGAAA+TGG - chr7.2:89770742-89770761 MS.gene76967:CDS 25.0%
!!! TTGTTGTTTTGAAGCTTTTA+AGG - chr7.2:89771272-89771291 MS.gene76967:CDS 25.0%
AAACGCGGTTATTTACTTTA+TGG - chr7.2:89770799-89770818 MS.gene76967:CDS 30.0%
ACAAAAAGTAGAAGAAGACA+AGG - chr7.2:89771482-89771501 MS.gene76967:CDS 30.0%
CTATTATGCAAAAATCGGTA+AGG - chr7.2:89770771-89770790 MS.gene76967:CDS 30.0%
TTATGATCTTGAATTAACCG+CGG - chr7.2:89770885-89770904 MS.gene76967:CDS 30.0%
! AATTTTCACGACGAATTTTG+TGG - chr7.2:89771188-89771207 MS.gene76967:CDS 30.0%
! TGATGAAATTGGTGATTTGT+TGG - chr7.2:89771338-89771357 MS.gene76967:CDS 30.0%
AAATGGTTACATTGTGAGAG+TGG - chr7.2:89771539-89771558 MS.gene76967:CDS 35.0%
ACATCTTCATTCACAGACTT+AGG + chr7.2:89771408-89771427 None:intergenic 35.0%
ATAGTAGATTTACCTGTTCC+TGG + chr7.2:89770829-89770848 None:intergenic 35.0%
ATGGCTACAAACAATCCAAA+TGG - chr7.2:89770641-89770660 MS.gene76967:CDS 35.0%
ATTTGATTCAAGCACTTGAG+AGG - chr7.2:89771445-89771464 MS.gene76967:CDS 35.0%
CAAATAATCCAAGTAGTGGT+TGG - chr7.2:89770617-89770636 MS.gene76967:CDS 35.0%
GAAAACAATGTGACTCCATT+TGG + chr7.2:89770659-89770678 None:intergenic 35.0%
TAAGGAAGAAGACTCATTCA+TGG - chr7.2:89771035-89771054 MS.gene76967:CDS 35.0%
TATTTACTTTATGGTCCTCC+AGG - chr7.2:89770808-89770827 MS.gene76967:CDS 35.0%
! CACTTGATTTTACTAGCCAA+AGG - chr7.2:89770989-89771008 MS.gene76967:CDS 35.0%
! TTTTGTGGAGAAACTTGATC+CGG - chr7.2:89771203-89771222 MS.gene76967:CDS 35.0%
!!! AACTTTTGAGACACTTGCAT+TGG - chr7.2:89770690-89770709 MS.gene76967:CDS 35.0%
AAATTCTCAGCAACATCAGC+AGG + chr7.2:89771381-89771400 None:intergenic 40.0%
AACTTGATCCGGCTCTTATT+AGG - chr7.2:89771214-89771233 MS.gene76967:CDS 40.0%
ATCTACTATGATAGCCGCTA+TGG - chr7.2:89770840-89770859 MS.gene76967:CDS 40.0%
ATGCAAAAATCGGTAAGGCT+TGG - chr7.2:89770776-89770795 MS.gene76967:CDS 40.0%
CTCAGTATTATCCTTAACCG+CGG + chr7.2:89770905-89770924 None:intergenic 40.0%
GAAGACAAGGAAGATAGTGT+AGG - chr7.2:89771495-89771514 MS.gene76967:CDS 40.0%
GTGGAAGATGTGAAGGAAAA+TGG - chr7.2:89771522-89771541 MS.gene76967:CDS 40.0%
GTTCATGAAATTCGCCATAG+CGG + chr7.2:89770857-89770876 None:intergenic 40.0%
TCTTATTAGGACAGGAAGGA+TGG - chr7.2:89771227-89771246 MS.gene76967:CDS 40.0%
TCTTGAATTAACCGCGGTTA+AGG - chr7.2:89770891-89770910 MS.gene76967:CDS 40.0%
! AATCCAAGTAGTGGTTGGTA+TGG - chr7.2:89770622-89770641 MS.gene76967:CDS 40.0%
AGGAACTGTGGAAGATGTGA+AGG - chr7.2:89771515-89771534 MS.gene76967:CDS 45.0%
CTTCCTGTCCTAATAAGAGC+CGG + chr7.2:89771225-89771244 None:intergenic 45.0%
GCAAGTGTCTCAAAAGTTGC+AGG + chr7.2:89770688-89770707 None:intergenic 45.0%
GGAAGATAGTGTAGGAACTG+TGG - chr7.2:89771503-89771522 MS.gene76967:CDS 45.0%
GTAGATTTACCTGTTCCTGG+AGG + chr7.2:89770826-89770845 None:intergenic 45.0%
TAGCCATACCAACCACTACT+TGG + chr7.2:89770628-89770647 None:intergenic 45.0%
TCAAGCACTTGAGAGGAAGA+AGG - chr7.2:89771452-89771471 MS.gene76967:CDS 45.0%
!! TAATAAAAATGAAAAAAATA+AGG - chr7.2:89771017-89771036 MS.gene76967:CDS 5.0%
AGCACTTGAGAGGAAGAAGG+TGG - chr7.2:89771455-89771474 MS.gene76967:CDS 50.0%
ATCGGTAAGGCTTGGAAACG+CGG - chr7.2:89770784-89770803 MS.gene76967:CDS 50.0%
CGGCTCTTATTAGGACAGGA+AGG - chr7.2:89771223-89771242 MS.gene76967:CDS 50.0%
CTTTATGGTCCTCCAGGAAC+AGG - chr7.2:89770814-89770833 MS.gene76967:CDS 50.0%
GATCCGGCTCTTATTAGGAC+AGG - chr7.2:89771219-89771238 MS.gene76967:CDS 50.0%
AATCCTCTCTCCTCCACACG+CGG + chr7.2:89771166-89771185 None:intergenic 55.0%
GATGGAATTTGGTCCGCGTG+TGG - chr7.2:89771150-89771169 MS.gene76967:CDS 55.0%
GGAATTTGGTCCGCGTGTGG+AGG - chr7.2:89771153-89771172 MS.gene76967:CDS 60.0%
GGTCCGCGTGTGGAGGAGAG+AGG - chr7.2:89771160-89771179 MS.gene76967:CDS 70.0%


Chromosome Type Strat End Strand Name
chr7.2 gene 89770589 89771581 89770589 ID=MS.gene76967
chr7.2 mRNA 89770589 89771581 89770589 ID=MS.gene76967.t1;Parent=MS.gene76967
chr7.2 exon 89770589 89771581 89770589 ID=MS.gene76967.t1.exon1;Parent=MS.gene76967.t1
chr7.2 CDS 89770589 89771581 89770589 ID=cds.MS.gene76967.t1;Parent=MS.gene76967.t1
Gene Sequence

>MS.gene76967

ATGAGAAATAGGCAAAGGAAGCTTTATACAAATAATCCAAGTAGTGGTTGGTATGGCTACAAACAATCCAAATGGAGTCACATTGTTTTCGAACATCCTGCAACTTTTGAGACACTTGCATTGGAGAAGAAGAAAAAAGATGAAGTTATTAAAGATCTTTTGAAGTTTAGAAATGGTAAGGACTATTATGCAAAAATCGGTAAGGCTTGGAAACGCGGTTATTTACTTTATGGTCCTCCAGGAACAGGTAAATCTACTATGATAGCCGCTATGGCGAATTTCATGAACTATGATGTTTATGATCTTGAATTAACCGCGGTTAAGGATAATACTGAGTTAAGAAAGTTGTTAATTGAGACTTCTAGTAAAGCTATTATAGTTGTTGAAGATATTGATTGTTCACTTGATTTTACTAGCCAAAGGAAGATTAATAAAAATGAAAAAAATAAGGAAGAAGACTCATTCATGGAACAAAAAGATTATTATCATAGGAAAAAAGAGGAAGAAGAGAATAATAGTAAAAATAGTAAGGTAACTTTATCTGGTTTATTGAATTTTATTGATGGAATTTGGTCCGCGTGTGGAGGAGAGAGGATTATAATTTTCACGACGAATTTTGTGGAGAAACTTGATCCGGCTCTTATTAGGACAGGAAGGATGGATAAACATGTTGAGTTATCTTATTGTTGTTTTGAAGCTTTTAAGGTTCTTGTTAAGAATTATTTGGATATTGAGTCACATGATTTGTTTGATGAAATTGGTGATTTGTTGGAAGTTATTAATATGACACCTGCTGATGTTGCTGAGAATTTGATGCCTAAGTCTGTGAATGAAGATGTTGAAACTAGTTTGAAGAATTTGATTCAAGCACTTGAGAGGAAGAAGGTGGAAGAACAAAAAGTAGAAGAAGACAAGGAAGATAGTGTAGGAACTGTGGAAGATGTGAAGGAAAATGGTTACATTGTGAGAGTGGAAAATAATATGCTTTTGTGA

Protein sequence

>MS.gene76967.t1

MRNRQRKLYTNNPSSGWYGYKQSKWSHIVFEHPATFETLALEKKKKDEVIKDLLKFRNGKDYYAKIGKAWKRGYLLYGPPGTGKSTMIAAMANFMNYDVYDLELTAVKDNTELRKLLIETSSKAIIVVEDIDCSLDFTSQRKINKNEKNKEEDSFMEQKDYYHRKKEEEENNSKNSKVTLSGLLNFIDGIWSACGGERIIIFTTNFVEKLDPALIRTGRMDKHVELSYCCFEAFKVLVKNYLDIESHDLFDEIGDLLEVINMTPADVAENLMPKSVNEDVETSLKNLIQALERKKVEEQKVEEDKEDSVGTVEDVKENGYIVRVENNMLL