AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0380012020.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0380012020.01.T01 MTR_3g012090 74.834 151 37 1 3 152 440 590 6.71e-69 224
MsG0380012020.01.T01 MTR_3g012060 56.129 155 67 1 3 156 437 591 1.93e-49 170
MsG0380012020.01.T01 MTR_3g012240 58.940 151 61 1 3 152 487 637 2.85e-48 167
MsG0380012020.01.T01 MTR_3g012310 55.629 151 66 1 3 152 441 591 5.48e-46 160
MsG0380012020.01.T01 MTR_3g012250 53.548 155 71 1 3 156 446 600 2.62e-45 158
MsG0380012020.01.T01 MTR_3g012270 54.839 155 68 2 3 156 446 599 8.13e-45 156
MsG0380012020.01.T01 MTR_3g012050 50.331 151 74 1 3 152 425 575 1.59e-41 147
MsG0380012020.01.T01 MTR_3g013700 58.678 121 50 0 33 153 296 416 1.25e-39 142
MsG0380012020.01.T01 MTR_0691s0020 47.134 157 82 1 3 158 442 598 2.58e-37 135
MsG0380012020.01.T01 MTR_3g011460 47.134 157 81 2 3 158 442 597 9.36e-37 134
MsG0380012020.01.T01 MTR_3g011480 47.134 157 81 2 3 158 442 597 2.44e-36 132
MsG0380012020.01.T01 MTR_3g011390 47.368 152 73 2 3 150 444 592 2.11e-35 130
MsG0380012020.01.T01 MTR_3g011270 43.312 157 88 1 3 158 441 597 5.16e-35 129
MsG0380012020.01.T01 MTR_3g011370 44.025 159 84 2 3 158 442 598 2.42e-34 127
MsG0380012020.01.T01 MTR_3g019340 44.371 151 83 1 3 152 413 563 5.27e-34 126
MsG0380012020.01.T01 MTR_3g011280 43.709 151 84 1 3 152 442 592 4.01e-32 120
MsG0380012020.01.T01 MTR_3g011280 43.709 151 84 1 3 152 410 560 4.45e-32 120
MsG0380012020.01.T01 MTR_3g011300 43.125 160 82 3 3 158 442 596 1.54e-31 119
MsG0380012020.01.T01 MTR_3g011360 43.750 160 81 3 3 158 412 566 1.64e-31 119
MsG0380012020.01.T01 MTR_3g011420 50.420 119 59 0 40 158 481 599 1.57e-30 116
MsG0380012020.01.T01 MTR_1g016210 41.667 156 87 4 3 154 443 598 5.26e-29 112
MsG0380012020.01.T01 MTR_3g056585 37.580 157 97 1 3 158 432 588 4.04e-28 109
MsG0380012020.01.T01 MTR_3g056190 34.615 156 101 1 2 156 444 599 3.51e-24 98.2
MsG0380012020.01.T01 MTR_3g056635 37.662 154 91 4 3 152 442 594 2.38e-23 95.5
MsG0380012020.01.T01 MTR_1g078190 35.443 158 99 3 3 157 437 594 1.22e-21 90.9
MsG0380012020.01.T01 MTR_3g069210 33.113 151 100 1 3 152 431 581 1.38e-21 90.5
MsG0380012020.01.T01 MTR_3g056300 32.692 156 104 1 2 156 365 520 1.77e-21 90.1
MsG0380012020.01.T01 MTR_3g056320 33.333 156 102 2 2 155 444 599 2.09e-21 90.1
MsG0380012020.01.T01 MTR_3g055930 34.211 152 97 3 2 150 453 604 4.28e-21 89.4
MsG0380012020.01.T01 MTR_5g092950 40.984 122 70 2 32 152 27 147 4.31e-21 89.0
MsG0380012020.01.T01 MTR_3g056590 36.538 156 96 3 3 156 448 602 6.21e-21 88.6
MsG0380012020.01.T01 MTR_3g056620 33.758 157 96 3 2 154 443 595 6.54e-21 88.6
MsG0380012020.01.T01 MTR_1g078150 35.948 153 95 3 3 152 238 390 1.30e-20 87.8
MsG0380012020.01.T01 MTR_3g056310 30.519 154 106 1 2 154 440 593 3.03e-20 86.7
MsG0380012020.01.T01 MTR_3g056380 31.818 154 104 1 2 154 435 588 3.13e-20 86.7
MsG0380012020.01.T01 MTR_1g078170 37.013 154 92 4 3 153 34 185 3.50e-20 86.3
MsG0380012020.01.T01 MTR_3g055870 32.886 149 99 1 3 150 434 582 7.05e-20 85.9
MsG0380012020.01.T01 MTR_3g455900 32.886 149 99 1 3 150 319 467 8.62e-20 85.5
MsG0380012020.01.T01 MTR_3g056625 32.258 155 101 2 2 152 121 275 8.87e-20 85.5
MsG0380012020.01.T01 MTR_3g055720 32.450 151 100 2 3 152 440 589 1.58e-19 84.7
MsG0380012020.01.T01 MTR_3g056200 32.051 156 101 4 2 154 438 591 1.87e-18 81.6
MsG0380012020.01.T01 MTR_3g455910 37.273 110 69 0 43 152 401 510 1.77e-17 79.0
MsG0380012020.01.T01 MTR_3g056410 37.391 115 69 1 43 157 446 557 2.03e-17 78.6
MsG0380012020.01.T01 MTR_3g056360 37.391 115 69 1 43 157 455 566 2.18e-17 78.6
MsG0380012020.01.T01 MTR_3g055710 32.237 152 101 2 2 152 277 427 2.67e-17 78.2
MsG0380012020.01.T01 MTR_3g055830 32.051 156 101 3 3 156 437 589 3.72e-17 77.8
MsG0380012020.01.T01 MTR_1g011990 41.964 112 63 2 43 152 428 539 6.25e-17 77.4
MsG0380012020.01.T01 MTR_3g055740 32.000 150 101 1 4 152 379 528 2.35e-16 75.5
MsG0380012020.01.T01 MTR_3g456030 30.380 158 107 2 3 157 435 592 4.54e-16 74.7
MsG0380012020.01.T01 MTR_3g456070 29.139 151 106 1 3 152 280 430 1.27e-15 73.6
MsG0380012020.01.T01 MTR_3g455940 30.921 152 102 3 3 152 325 475 4.07e-15 72.0
MsG0380012020.01.T01 MTR_5g027900 34.021 97 62 2 43 138 464 559 3.37e-11 60.8
MsG0380012020.01.T01 MTR_5g027810 32.990 97 63 2 43 138 467 562 4.01e-11 60.5
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score

Find 24 sgRNAs with CRISPR-Local

Find 27 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GAAATCATGTATGTATATTT+TGG 0.161279 3:-9652664 None:intergenic
GCGCCTAACTGTTCCGTCTA+TGG 0.287102 3:+9652369 None:intergenic
TTTCCCATCGAAACCATCTT+TGG 0.301934 3:+9652492 None:intergenic
AACAATGTGTTGACCAATAC+TGG 0.325297 3:-9652325 MsG0380012020.01.T01:CDS
AAAGTTGATAAATAGAAGTT+TGG 0.327022 3:-9652524 MsG0380012020.01.T01:CDS
TTGGTTCAAGTTTCCAAAGA+TGG 0.409986 3:-9652505 MsG0380012020.01.T01:CDS
AGAACTGGATGAACATTTCA+TGG 0.437663 3:-9652263 MsG0380012020.01.T01:CDS
GTACTTCAAAAGCTTGAACT+TGG 0.440212 3:+9652228 None:intergenic
AATTCCTGAGTTACCAGTAT+TGG 0.468831 3:+9652312 None:intergenic
CGTTTGATGACGTAGTCCTC+AGG 0.479316 3:+9652635 None:intergenic
CATGACCTTCATGCATCAAA+TGG 0.479608 3:+9652398 None:intergenic
CTGGATGAACATTTCATGGA+TGG 0.512280 3:-9652259 MsG0380012020.01.T01:CDS
GTTTCCAAAGATGGTTTCGA+TGG 0.516861 3:-9652496 MsG0380012020.01.T01:CDS
AAACCATAGACGGAACAGTT+AGG 0.531636 3:-9652372 MsG0380012020.01.T01:CDS
CTCGACAATGGATGGCTGAA+GGG 0.536418 3:-9652601 MsG0380012020.01.T01:CDS
TTTCCAAAGATGGTTTCGAT+GGG 0.544364 3:-9652495 MsG0380012020.01.T01:CDS
AAGACTTACTCGACAATGGA+TGG 0.569125 3:-9652609 MsG0380012020.01.T01:CDS
ACTCGACAATGGATGGCTGA+AGG 0.575119 3:-9652602 MsG0380012020.01.T01:CDS
TTGACCAATACTGGTAACTC+AGG 0.586066 3:-9652316 MsG0380012020.01.T01:CDS
GCAAAAGACTTACTCGACAA+TGG 0.593327 3:-9652613 MsG0380012020.01.T01:CDS
ATGAGCACACAAAACCTTGG+AGG 0.597554 3:-9652568 MsG0380012020.01.T01:CDS
AGAATGAGCACACAAAACCT+TGG 0.600757 3:-9652571 MsG0380012020.01.T01:CDS
ACTCTCTGCAACTTCCTCCA+AGG 0.602092 3:+9652554 None:intergenic
GGTCATGAACAAACCATAGA+CGG 0.611974 3:-9652382 MsG0380012020.01.T01:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! AAAGTTGATAAATAGAAGTT+TGG - Chr3:9652338-9652357 MsG0380012020.01.T01:CDS 20.0%
!!! TATATTTTGGTATTATCCTG+AGG - Chr3:9652211-9652230 MsG0380012020.01.T01:CDS 25.0%
AATTCCTGAGTTACCAGTAT+TGG + Chr3:9652553-9652572 None:intergenic 35.0%
AGAACTGGATGAACATTTCA+TGG - Chr3:9652599-9652618 MsG0380012020.01.T01:CDS 35.0%
GTACTTCAAAAGCTTGAACT+TGG + Chr3:9652637-9652656 None:intergenic 35.0%
TTTCCAAAGATGGTTTCGAT+GGG - Chr3:9652367-9652386 MsG0380012020.01.T01:CDS 35.0%
! AACAATGTGTTGACCAATAC+TGG - Chr3:9652537-9652556 MsG0380012020.01.T01:CDS 35.0%
! TTGGTTCAAGTTTCCAAAGA+TGG - Chr3:9652357-9652376 MsG0380012020.01.T01:CDS 35.0%
!! GCTGTATTTGTTTTCGACAA+AGG - Chr3:9652576-9652595 MsG0380012020.01.T01:CDS 35.0%
!! TTTTGCCATTTGATGCATGA+AGG - Chr3:9652459-9652478 MsG0380012020.01.T01:CDS 35.0%
AAACCATAGACGGAACAGTT+AGG - Chr3:9652490-9652509 MsG0380012020.01.T01:CDS 40.0%
AAGACTTACTCGACAATGGA+TGG - Chr3:9652253-9652272 MsG0380012020.01.T01:CDS 40.0%
AGAATGAGCACACAAAACCT+TGG - Chr3:9652291-9652310 MsG0380012020.01.T01:CDS 40.0%
CATGACCTTCATGCATCAAA+TGG + Chr3:9652467-9652486 None:intergenic 40.0%
CTGGATGAACATTTCATGGA+TGG - Chr3:9652603-9652622 MsG0380012020.01.T01:CDS 40.0%
GCAAAAGACTTACTCGACAA+TGG - Chr3:9652249-9652268 MsG0380012020.01.T01:CDS 40.0%
GGTCATGAACAAACCATAGA+CGG - Chr3:9652480-9652499 MsG0380012020.01.T01:CDS 40.0%
GTTTCCAAAGATGGTTTCGA+TGG - Chr3:9652366-9652385 MsG0380012020.01.T01:CDS 40.0%
TTGACCAATACTGGTAACTC+AGG - Chr3:9652546-9652565 MsG0380012020.01.T01:CDS 40.0%
TTTCCCATCGAAACCATCTT+TGG + Chr3:9652373-9652392 None:intergenic 40.0%
! TGTTTTCGACAAAGGAGAAC+TGG - Chr3:9652584-9652603 MsG0380012020.01.T01:CDS 40.0%
ATGAGCACACAAAACCTTGG+AGG - Chr3:9652294-9652313 MsG0380012020.01.T01:CDS 45.0%
ACTCGACAATGGATGGCTGA+AGG - Chr3:9652260-9652279 MsG0380012020.01.T01:CDS 50.0%
ACTCTCTGCAACTTCCTCCA+AGG + Chr3:9652311-9652330 None:intergenic 50.0%
CTCGACAATGGATGGCTGAA+GGG - Chr3:9652261-9652280 MsG0380012020.01.T01:CDS 50.0%
!! CGTTTGATGACGTAGTCCTC+AGG + Chr3:9652230-9652249 None:intergenic 50.0%
GCGCCTAACTGTTCCGTCTA+TGG + Chr3:9652496-9652515 None:intergenic 55.0%
Chromosome Type Strat End Strand Name
Chr3 gene 9652204 9652680 9652204 ID=MsG0380012020.01;Name=MsG0380012020.01
Chr3 mRNA 9652204 9652680 9652204 ID=MsG0380012020.01.T01;Parent=MsG0380012020.01;Name=MsG0380012020.01.T01;_AED=0.48;_eAED=0.48;_QI=0|-1|0|1|-1|1|1|0|158
Chr3 exon 9652204 9652680 9652204 ID=MsG0380012020.01.T01:exon:2927;Parent=MsG0380012020.01.T01
Chr3 CDS 9652204 9652680 9652204 ID=MsG0380012020.01.T01:cds;Parent=MsG0380012020.01.T01
Gene Sequence

>MsG0380012020.01.T01

ATGTATGTATATTTTGGTATTATCCTGAGGACTACGTCATCAAACGCAAAAGACTTACTCGACAATGGATGGCTGAAGGGTTTGTTAAGAATGAGCACACAAAACCTTGGAGGAAGTTGCAGAGAGTACATGACAAAGTTGATAAATAGAAGTTTGGTTCAAGTTTCCAAAGATGGTTTCGATGGGAAAGTGAAAAGTTGTCAAGTTCATGATTTGATGCGCGAAGTGATCATCAGAAAAGTGAAAGATTCAAGCTTTTGCCATTTGATGCATGAAGGTCATGAACAAACCATAGACGGAACAGTTAGGCGCTTCTCTATAGCAGCTAACGCAAACAATGTGTTGACCAATACTGGTAACTCAGGAATTCGCGCTGTATTTGTTTTCGACAAAGGAGAACTGGATGAACATTTCATGGATGGATTAATTTCCAAGTTCAAGCTTTTGAAGTACTTGATTTTGAGAAATCTCAGTTGA

Protein sequence

>MsG0380012020.01.T01

MYVYFGIILRTTSSNAKDLLDNGWLKGLLRMSTQNLGGSCREYMTKLINRSLVQVSKDGFDGKVKSCQVHDLMREVIIRKVKDSSFCHLMHEGHEQTIDGTVRRFSIAANANNVLTNTGNSGIRAVFVFDKGELDEHFMDGLISKFKLLKYLILRNLS*