AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0280009206.01

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0280009206.01.T01 MTR_2g055430 95.146 103 5 0 1 103 418 520 5.00e-69 215
MsG0280009206.01.T01 MTR_2g055470 95.146 103 5 0 1 103 418 520 9.10e-69 214
MsG0280009206.01.T01 MTR_5g095230 79.612 103 21 0 1 103 414 516 5.09e-61 194
MsG0280009206.01.T01 MTR_2g072260 76.699 103 24 0 1 103 411 513 1.64e-58 187
MsG0280009206.01.T01 MTR_2g072250 77.670 103 23 0 1 103 414 516 1.65e-57 185
MsG0280009206.01.T01 MTR_2g072420 73.529 102 27 0 1 102 41 142 4.02e-56 170
MsG0280009206.01.T01 MTR_2g072400 74.757 103 26 0 1 103 416 518 1.82e-55 179
MsG0280009206.01.T01 MTR_2g023680 72.549 102 28 0 1 102 418 519 9.12e-55 177
MsG0280009206.01.T01 MTR_2g072310 72.549 102 28 0 1 102 251 352 2.99e-54 172
MsG0280009206.01.T01 MTR_2g072340 72.549 102 28 0 1 102 416 517 9.25e-53 172
MsG0280009206.01.T01 MTR_2g072380 69.608 102 31 0 1 102 251 352 1.44e-51 165
MsG0280009206.01.T01 MTR_2g072380 69.608 102 31 0 1 102 391 492 1.95e-50 166
MsG0280009206.01.T01 MTR_8g042000 68.317 101 32 0 1 101 424 524 4.49e-46 155
MsG0280009206.01.T01 MTR_8g042040 66.337 101 34 0 1 101 407 507 2.31e-45 152
MsG0280009206.01.T01 MTR_8g042060 65.347 101 35 0 1 101 388 488 5.23e-45 151
MsG0280009206.01.T01 MTR_8g042020 66.337 101 34 0 1 101 423 523 1.05e-44 151
MsG0280009206.01.T01 MTR_8g042060 65.347 101 35 0 1 101 424 524 1.08e-44 151
MsG0280009206.01.T01 MTR_2g072270 61.386 101 39 0 1 101 423 523 2.58e-43 147
MsG0280009206.01.T01 MTR_4g031820 57.426 101 43 0 1 101 406 506 2.90e-41 142
MsG0280009206.01.T01 MTR_4g031820 57.426 101 43 0 1 101 428 528 3.82e-41 142
MsG0280009206.01.T01 MTR_7g098550 48.515 101 48 1 1 101 409 505 4.26e-31 114
MsG0280009206.01.T01 MTR_7g098550 48.515 101 48 1 1 101 401 497 4.46e-31 114
MsG0280009206.01.T01 MTR_1g085680 50.000 102 51 0 1 102 416 517 2.07e-30 112
MsG0280009206.01.T01 MTR_4g113650 45.545 101 55 0 1 101 419 519 6.45e-30 111
MsG0280009206.01.T01 MTR_7g006900 47.573 103 50 2 1 103 376 474 9.15e-30 110
MsG0280009206.01.T01 MTR_1g022040 45.545 101 51 1 1 101 407 503 1.31e-29 110
MsG0280009206.01.T01 MTR_2g072330 50.000 102 20 1 1 102 234 304 3.05e-28 104
MsG0280009206.01.T01 MTR_3g062900 45.714 105 53 2 3 103 18 122 7.17e-28 98.6
MsG0280009206.01.T01 MTR_2g072330 50.000 102 20 1 1 102 345 415 8.53e-28 104
MsG0280009206.01.T01 MTR_6g017325 44.444 99 51 2 1 99 411 505 9.67e-28 105
MsG0280009206.01.T01 MTR_3g093530 44.898 98 54 0 3 100 426 523 2.28e-27 104
MsG0280009206.01.T01 MTR_1g101040 40.404 99 59 0 1 99 415 513 5.81e-27 103
MsG0280009206.01.T01 MTR_8g008530 44.554 101 56 0 1 101 419 519 1.60e-26 102
MsG0280009206.01.T01 MTR_6g072490 40.404 99 59 0 1 99 413 511 1.98e-26 101
MsG0280009206.01.T01 MTR_1g101050 40.404 99 59 0 1 99 411 509 3.10e-26 101
MsG0280009206.01.T01 MTR_0147s0030 41.584 101 59 0 1 101 431 531 2.03e-25 99.0
MsG0280009206.01.T01 MTR_1g069200 39.175 97 59 0 3 99 414 510 1.13e-24 96.7
MsG0280009206.01.T01 MTR_2g061200 40.594 101 60 0 1 101 429 529 2.29e-24 95.9
MsG0280009206.01.T01 MTR_7g055793 41.584 101 59 0 1 101 369 469 2.46e-24 95.5
MsG0280009206.01.T01 MTR_7g055793 41.584 101 59 0 1 101 424 524 3.13e-24 95.5
MsG0280009206.01.T01 MTR_8g469360 39.604 101 61 0 1 101 324 424 2.52e-23 92.4
MsG0280009206.01.T01 MTR_0025s0110 38.384 99 61 0 1 99 426 524 3.54e-22 89.7
MsG0280009206.01.T01 MTR_0727s0010 40.244 82 49 0 20 101 13 94 1.21e-19 77.0
MsG0280009206.01.T01 MTR_1g062190 47.887 71 34 2 6 74 443 512 2.35e-16 73.2
MsG0280009206.01.T01 MTR_7g079440 38.824 85 46 3 6 88 551 631 3.13e-13 64.3
MsG0280009206.01.T01 MTR_4g012320 31.522 92 62 1 11 101 132 223 4.05e-13 62.8
MsG0280009206.01.T01 MTR_6g004590 34.737 95 57 2 9 100 422 514 6.83e-13 63.5
MsG0280009206.01.T01 MTR_7g033570 33.333 93 57 2 11 100 403 493 1.52e-12 62.4
MsG0280009206.01.T01 MTR_5g019010 40.580 69 40 1 6 74 404 471 2.11e-12 62.0
MsG0280009206.01.T01 MTR_5g018980 44.776 67 36 1 8 74 409 474 2.85e-12 61.6
MsG0280009206.01.T01 MTR_7g033580 33.333 93 57 2 11 100 403 493 4.36e-12 61.2
MsG0280009206.01.T01 MTR_6g004600 32.632 95 59 2 9 100 422 514 5.64e-12 60.8
MsG0280009206.01.T01 MTR_1g035190 43.478 69 38 1 6 74 387 454 6.95e-12 60.5
MsG0280009206.01.T01 MTR_1g035750 35.484 93 55 2 11 100 414 504 7.84e-12 60.5
MsG0280009206.01.T01 MTR_1g035140 37.363 91 53 2 6 96 401 487 9.43e-12 60.1
MsG0280009206.01.T01 MTR_1g035790 33.333 93 57 2 11 100 411 501 1.58e-11 59.3
MsG0280009206.01.T01 MTR_5g018990 42.029 69 39 1 6 74 405 472 2.70e-11 58.9
MsG0280009206.01.T01 MTR_1g035940 32.258 93 58 2 11 100 416 506 3.69e-11 58.5
MsG0280009206.01.T01 MTR_0554s0020 39.130 69 41 1 6 74 403 470 5.82e-11 57.8
MsG0280009206.01.T01 MTR_1g036010 32.258 93 58 2 11 100 416 506 5.88e-11 57.8
MsG0280009206.01.T01 MTR_1g035580 33.708 89 54 2 11 96 405 491 7.93e-11 57.4
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0280009206.01.T01 AT3G14610 63.366 101 37 0 1 101 412 512 2.71e-43 147
MsG0280009206.01.T01 AT3G14630 64.356 101 36 0 1 101 408 508 2.81e-42 144
MsG0280009206.01.T01 AT3G14630 64.356 101 36 0 1 101 463 563 3.69e-42 145
MsG0280009206.01.T01 AT3G14680 60.396 101 40 0 1 101 412 512 9.35e-42 143
MsG0280009206.01.T01 AT3G14690 60.396 101 40 0 1 101 412 512 1.40e-41 142
MsG0280009206.01.T01 AT3G14690 60.396 101 40 0 1 101 447 547 2.32e-41 142
MsG0280009206.01.T01 AT3G14640 61.386 101 39 0 1 101 414 514 5.69e-41 141
MsG0280009206.01.T01 AT3G14640 61.386 101 39 0 1 101 436 536 8.53e-41 141
MsG0280009206.01.T01 AT3G14660 61.386 101 39 0 1 101 266 366 6.58e-40 135
MsG0280009206.01.T01 AT3G14660 61.386 101 39 0 1 101 412 512 3.96e-39 136
MsG0280009206.01.T01 AT3G14650 59.406 101 41 0 1 101 412 512 2.35e-38 134
MsG0280009206.01.T01 AT3G14620 58.763 97 40 0 1 97 415 511 1.77e-37 132
MsG0280009206.01.T01 AT1G67110 46.465 99 50 1 1 99 413 508 5.90e-30 111
MsG0280009206.01.T01 AT2G26710 43.564 101 57 0 1 101 415 515 7.39e-30 111
MsG0280009206.01.T01 AT5G38450 50.505 99 46 2 1 99 419 514 1.66e-29 110
MsG0280009206.01.T01 AT5G24900 51.042 96 45 1 6 101 315 408 1.26e-28 107
MsG0280009206.01.T01 AT5G24900 51.042 96 45 1 6 101 432 525 3.55e-28 106
MsG0280009206.01.T01 AT1G75130 44.660 103 53 1 1 103 407 505 1.17e-27 105
MsG0280009206.01.T01 AT2G46950 47.525 101 53 0 1 101 470 570 1.69e-27 104
MsG0280009206.01.T01 AT5G24910 47.000 100 51 1 3 102 434 531 4.00e-27 103
MsG0280009206.01.T01 AT5G52400 40.404 99 59 0 1 99 419 517 1.83e-25 99.0
MsG0280009206.01.T01 AT2G46960 41.748 103 59 1 1 102 300 402 3.09e-25 97.8
MsG0280009206.01.T01 AT2G46960 41.748 103 59 1 1 102 416 518 7.60e-25 97.4
MsG0280009206.01.T01 AT4G27710 41.837 98 57 0 1 98 417 514 2.10e-23 93.2
MsG0280009206.01.T01 AT3G26125 40.000 85 51 0 12 96 443 527 3.34e-18 78.6
MsG0280009206.01.T01 AT1G13150 35.632 87 56 0 12 98 428 514 1.61e-15 70.9
MsG0280009206.01.T01 AT1G31800 44.286 70 37 1 8 75 473 542 2.32e-14 67.8
MsG0280009206.01.T01 AT3G53130 45.070 71 36 2 6 74 443 512 2.87e-14 67.4
MsG0280009206.01.T01 AT1G13140 32.184 87 59 0 12 98 435 521 5.19e-14 66.6
MsG0280009206.01.T01 AT1G13140 32.184 87 59 0 12 98 409 495 6.03e-14 66.2
MsG0280009206.01.T01 AT5G52320 29.808 104 68 2 1 101 401 502 2.63e-12 61.6
MsG0280009206.01.T01 AT1G24540 30.682 88 61 0 12 99 431 518 1.18e-11 60.1
MsG0280009206.01.T01 AT1G65340 29.670 91 63 1 12 101 413 503 1.25e-11 59.7
MsG0280009206.01.T01 AT4G32170 31.522 92 58 2 12 100 413 502 1.50e-11 59.7
MsG0280009206.01.T01 AT2G21910 31.183 93 58 2 12 100 415 505 2.24e-11 58.9
MsG0280009206.01.T01 AT1G57750 31.522 92 58 2 12 100 406 495 2.48e-11 58.9
MsG0280009206.01.T01 AT5G52320 29.167 96 63 2 1 93 401 494 3.81e-11 58.5

Find 20 sgRNAs with CRISPR-Local

Find 26 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AAATCTACCATTTGTTGCTT+TGG 0.306353 2:+47678880 None:intergenic
GTTTGTCCAATGCAGATTCT+AGG 0.323897 2:+47678833 None:intergenic
TGCCATCTTTGCTTCCAATA+GGG 0.373078 2:+47678805 None:intergenic
TTCACCATGACTGTGAACTA+TGG 0.386719 2:-47678952 MsG0280009206.01.T01:CDS
TTGCCATCTTTGCTTCCAAT+AGG 0.386842 2:+47678804 None:intergenic
TTCCCTATTGGAAGCAAAGA+TGG 0.417195 2:-47678807 MsG0280009206.01.T01:CDS
TCATGGTGAATCAAAACAAT+TGG 0.432430 2:+47678965 None:intergenic
CTTTGCTTCCAATAGGGAAA+AGG 0.434230 2:+47678811 None:intergenic
ATTCTAGGACCCGCTCCAAA+TGG 0.495014 2:+47678848 None:intergenic
CTTTCTGTTCAGCCACAACA+TGG 0.497819 2:-47678713 MsG0280009206.01.T01:CDS
GGAATTGCCAAAGCAACAAA+TGG 0.527150 2:-47678887 MsG0280009206.01.T01:CDS
TGAACAGAAAGCACCACAGC+TGG 0.532153 2:+47678725 None:intergenic
TCACCATGACTGTGAACTAT+GGG 0.540648 2:-47678951 MsG0280009206.01.T01:CDS
ATTCCACCAGAAAATCTCTC+AGG 0.566099 2:+47678905 None:intergenic
GCGGGTCCTAGAATCTGCAT+TGG 0.570394 2:-47678839 MsG0280009206.01.T01:CDS
CACCCCATAGTTCACAGTCA+TGG 0.599350 2:+47678948 None:intergenic
ATTGGAAGCAAAGATGGCAA+TGG 0.636575 2:-47678801 MsG0280009206.01.T01:CDS
ATATGCTCATGCTCCAGCTG+TGG 0.659208 2:-47678738 MsG0280009206.01.T01:CDS
ATAACATGAGCACCATGTTG+TGG 0.669219 2:+47678701 None:intergenic
CACCATGACTGTGAACTATG+GGG 0.714213 2:-47678950 MsG0280009206.01.T01:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! AGATTTTCATATTTTCCATT+TGG - Chr2:47678784-47678803 MsG0280009206.01.T01:CDS 20.0%
TCATGGTGAATCAAAACAAT+TGG + Chr2:47678685-47678704 None:intergenic 30.0%
! AAATCTACCATTTGTTGCTT+TGG + Chr2:47678770-47678789 None:intergenic 30.0%
! TTCATATTTTCCATTTGGAG+CGG - Chr2:47678789-47678808 MsG0280009206.01.T01:CDS 30.0%
! TTCAATCCTGAGAGATTTTC+TGG - Chr2:47678736-47678755 MsG0280009206.01.T01:CDS 35.0%
!! TCATATTTTCCATTTGGAGC+GGG - Chr2:47678790-47678809 MsG0280009206.01.T01:CDS 35.0%
ATAACATGAGCACCATGTTG+TGG + Chr2:47678949-47678968 None:intergenic 40.0%
ATTCCACCAGAAAATCTCTC+AGG + Chr2:47678745-47678764 None:intergenic 40.0%
ATTGGAAGCAAAGATGGCAA+TGG - Chr2:47678846-47678865 MsG0280009206.01.T01:CDS 40.0%
CTTTGCTTCCAATAGGGAAA+AGG + Chr2:47678839-47678858 None:intergenic 40.0%
GGAATTGCCAAAGCAACAAA+TGG - Chr2:47678760-47678779 MsG0280009206.01.T01:CDS 40.0%
GTTTGTCCAATGCAGATTCT+AGG + Chr2:47678817-47678836 None:intergenic 40.0%
TCACCATGACTGTGAACTAT+GGG - Chr2:47678696-47678715 MsG0280009206.01.T01:CDS 40.0%
TGCCATCTTTGCTTCCAATA+GGG + Chr2:47678845-47678864 None:intergenic 40.0%
TTCACCATGACTGTGAACTA+TGG - Chr2:47678695-47678714 MsG0280009206.01.T01:CDS 40.0%
TTCCCTATTGGAAGCAAAGA+TGG - Chr2:47678840-47678859 MsG0280009206.01.T01:CDS 40.0%
TTGCCATCTTTGCTTCCAAT+AGG + Chr2:47678846-47678865 None:intergenic 40.0%
! AATCCTGAGAGATTTTCTGG+TGG - Chr2:47678739-47678758 MsG0280009206.01.T01:CDS 40.0%
! TGGACAAACCTTTTCCCTAT+TGG - Chr2:47678828-47678847 MsG0280009206.01.T01:CDS 40.0%
CACCATGACTGTGAACTATG+GGG - Chr2:47678697-47678716 MsG0280009206.01.T01:CDS 45.0%
CTTTCTGTTCAGCCACAACA+TGG - Chr2:47678934-47678953 MsG0280009206.01.T01:CDS 45.0%
ATATGCTCATGCTCCAGCTG+TGG - Chr2:47678909-47678928 MsG0280009206.01.T01:CDS 50.0%
CACCCCATAGTTCACAGTCA+TGG + Chr2:47678702-47678721 None:intergenic 50.0%
!! ATTCTAGGACCCGCTCCAAA+TGG + Chr2:47678802-47678821 None:intergenic 50.0%
!! TGAACAGAAAGCACCACAGC+TGG + Chr2:47678925-47678944 None:intergenic 50.0%
GCGGGTCCTAGAATCTGCAT+TGG - Chr2:47678808-47678827 MsG0280009206.01.T01:CDS 55.0%
Chromosome Type Strat End Strand Name
Chr2 gene 47678679 47678990 47678679 ID=MsG0280009206.01;Name=MsG0280009206.01
Chr2 mRNA 47678679 47678990 47678679 ID=MsG0280009206.01.T01;Parent=MsG0280009206.01;Name=MsG0280009206.01.T01;_AED=0.45;_eAED=0.45;_QI=0|-1|0|1|-1|1|1|0|103
Chr2 exon 47678679 47678990 47678679 ID=MsG0280009206.01.T01:exon:15699;Parent=MsG0280009206.01.T01
Chr2 CDS 47678679 47678990 47678679 ID=MsG0280009206.01.T01:cds;Parent=MsG0280009206.01.T01
Gene Sequence

>MsG0280009206.01.T01

ATGCCAATTGTTTTGATTCACCATGACTGTGAACTATGGGGTGATGATGCTAAGATGTTCAATCCTGAGAGATTTTCTGGTGGAATTGCCAAAGCAACAAATGGTAGATTTTCATATTTTCCATTTGGAGCGGGTCCTAGAATCTGCATTGGACAAACCTTTTCCCTATTGGAAGCAAAGATGGCAATGGCATTGATTTTACAAAATTTTTCATTTGAACTTTCTCAAACATATGCTCATGCTCCAGCTGTGGTGCTTTCTGTTCAGCCACAACATGGTGCTCATGTTATTCTACGCAAAATCAAAACATAA
Protein sequence

>MsG0280009206.01.T01

MPIVLIHHDCELWGDDAKMFNPERFSGGIAKATNGRFSYFPFGAGPRICIGQTFSLLEAKMAMALILQNFSFELSQTYAHAPAVVLSVQPQHGAHVILRKIKT*