AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene87216

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene87216.t1 MTR_6g072480 68.493 73 23 0 1 73 539 611 6.56e-29 107
MS.gene87216.t1 MTR_6g072460 69.863 73 22 0 1 73 548 620 1.69e-28 106
MS.gene87216.t1 MTR_6g072460 69.863 73 22 0 1 73 548 620 2.49e-28 105
MS.gene87216.t1 MTR_6g072250 68.493 73 23 0 1 73 535 607 1.46e-27 103
MS.gene87216.t1 MTR_6g071895 68.493 73 23 0 1 73 535 607 1.46e-27 103
MS.gene87216.t1 MTR_6g071895 68.493 73 23 0 1 73 315 387 1.60e-27 103
MS.gene87216.t1 MTR_6g072320 65.753 73 25 0 1 73 540 612 3.68e-27 102
MS.gene87216.t1 MTR_6g071945 65.753 73 25 0 1 73 540 612 3.68e-27 102
MS.gene87216.t1 MTR_4g051738 67.123 73 24 0 1 73 537 609 6.21e-27 102
MS.gene87216.t1 MTR_6g074650 61.644 73 28 0 1 73 375 447 3.51e-26 99.8
MS.gene87216.t1 MTR_6g074660 67.123 73 24 0 1 73 538 610 5.08e-26 99.4
MS.gene87216.t1 MTR_4g051682 65.753 73 25 0 1 73 454 526 4.57e-25 96.7
MS.gene87216.t1 MTR_6g074875 65.753 73 25 0 1 73 538 610 7.30e-25 95.9
MS.gene87216.t1 MTR_4g051698 63.014 73 27 0 1 73 534 606 8.10e-25 95.9
MS.gene87216.t1 MTR_6g072590 69.355 62 19 0 1 62 524 585 1.53e-24 95.1
MS.gene87216.t1 MTR_1g007300 65.753 73 25 0 1 73 534 606 1.89e-24 94.7
MS.gene87216.t1 MTR_6g072310 73.770 61 16 0 1 61 536 596 1.90e-24 94.7
MS.gene87216.t1 MTR_1870s0010 63.014 73 27 0 1 73 136 208 3.78e-24 90.1
MS.gene87216.t1 MTR_1g060030 58.904 73 30 0 1 73 376 448 1.16e-23 92.4
MS.gene87216.t1 MTR_6g478030 72.131 61 17 0 1 61 542 602 1.59e-23 92.0
MS.gene87216.t1 MTR_6g083860 70.492 61 18 0 1 61 560 620 2.85e-23 91.3
MS.gene87216.t1 MTR_6g083860 70.492 61 18 0 1 61 536 596 3.51e-23 91.3
MS.gene87216.t1 MTR_6g074820 67.647 68 22 0 1 68 542 609 4.35e-23 90.9
MS.gene87216.t1 MTR_1g063960 58.904 73 30 0 1 73 521 593 8.68e-23 90.1
MS.gene87216.t1 MTR_6g478020 72.881 59 16 0 1 59 769 827 1.86e-22 89.0
MS.gene87216.t1 MTR_5g038180 58.824 68 28 0 1 68 545 612 2.21e-22 89.0
MS.gene87216.t1 MTR_2g041070 68.493 73 23 0 1 73 544 616 4.92e-22 87.8
MS.gene87216.t1 MTR_2g041070 68.493 73 23 0 1 73 544 616 5.42e-22 87.8
MS.gene87216.t1 MTR_8g069625 57.534 73 31 0 1 73 537 609 2.22e-21 85.9
MS.gene87216.t1 MTR_6g072450 67.213 61 20 0 1 61 542 602 2.84e-21 85.9
MS.gene87216.t1 MTR_6g072730 56.944 72 31 0 2 73 512 583 2.95e-21 85.9
MS.gene87216.t1 MTR_4g016610 50.685 73 36 0 1 73 540 612 3.55e-21 85.5
MS.gene87216.t1 MTR_6g074855 65.574 61 21 0 1 61 585 645 7.57e-21 84.7
MS.gene87216.t1 MTR_6g073250 58.904 73 29 1 1 73 540 611 1.03e-20 84.3
MS.gene87216.t1 MTR_0277s0020 71.930 57 16 0 1 57 540 596 1.50e-20 83.6
MS.gene87216.t1 MTR_0277s0020 71.930 57 16 0 1 57 540 596 1.55e-20 83.6
MS.gene87216.t1 MTR_0277s0020 71.930 57 16 0 1 57 540 596 1.74e-20 83.6
MS.gene87216.t1 MTR_6g072540 64.384 73 26 0 1 73 532 604 4.09e-20 82.4
MS.gene87216.t1 MTR_6g071935 74.074 54 14 0 1 54 536 589 4.60e-20 82.4
MS.gene87216.t1 MTR_6g074470 64.912 57 20 0 1 57 528 584 6.55e-20 82.0
MS.gene87216.t1 MTR_6g072780 60.274 73 27 2 1 73 478 548 8.69e-20 81.6
MS.gene87216.t1 MTR_6g072780 60.274 73 27 2 1 73 478 548 8.78e-20 81.6
MS.gene87216.t1 MTR_0277s0010 67.797 59 19 0 1 59 540 598 2.00e-19 80.5
MS.gene87216.t1 MTR_6g072510 58.571 70 28 1 1 69 547 616 2.60e-19 80.1
MS.gene87216.t1 MTR_0419s0040 66.102 59 20 0 1 59 541 599 8.89e-19 78.6
MS.gene87216.t1 MTR_6g477730 52.174 69 32 1 1 68 545 613 2.03e-18 77.8
MS.gene87216.t1 MTR_6g074810 59.016 61 25 0 1 61 540 600 9.13e-18 75.9
MS.gene87216.t1 MTR_6g075950 52.174 69 32 1 1 68 399 467 1.13e-17 75.5
MS.gene87216.t1 MTR_0038s0060 52.174 69 32 1 1 68 417 485 1.13e-17 75.5
MS.gene87216.t1 MTR_6g075640 52.174 69 32 1 1 68 545 613 1.16e-17 75.5
MS.gene87216.t1 MTR_6g477720 45.946 74 39 1 1 73 310 383 1.47e-17 75.1
MS.gene87216.t1 MTR_4g051715 58.209 67 22 1 1 61 539 605 1.97e-17 74.7
MS.gene87216.t1 MTR_6g471160 54.412 68 30 1 1 67 526 593 2.38e-17 74.7
MS.gene87216.t1 MTR_6g471160 52.857 70 32 1 1 69 371 440 2.61e-17 74.3
MS.gene87216.t1 MTR_6g074090 56.164 73 30 1 1 73 536 606 4.12e-17 73.9
MS.gene87216.t1 MTR_6g074620 59.016 61 25 0 1 61 540 600 4.24e-17 73.9
MS.gene87216.t1 MTR_6g071430 53.731 67 31 0 1 67 526 592 4.43e-17 73.9
MS.gene87216.t1 MTR_0019s0100 47.297 74 38 1 1 73 542 615 4.70e-17 73.9
MS.gene87216.t1 MTR_4g050910 56.164 73 30 1 1 73 536 606 4.71e-17 73.9
MS.gene87216.t1 MTR_8g042440 46.753 77 33 1 1 69 531 607 5.22e-17 73.6
MS.gene87216.t1 MTR_6g075690 50.820 61 29 1 1 60 510 570 1.34e-16 72.4
MS.gene87216.t1 MTR_6g075970 47.826 69 35 1 1 68 542 610 5.29e-16 70.9
MS.gene87216.t1 MTR_6g075970 50.820 61 29 1 1 60 542 602 6.16e-16 70.5
MS.gene87216.t1 MTR_0038s0080 50.820 61 29 1 1 60 542 602 6.16e-16 70.5
MS.gene87216.t1 MTR_4g051688 64.706 51 18 0 1 51 302 352 7.87e-16 70.1
MS.gene87216.t1 MTR_6g069560 52.055 73 34 1 1 73 544 615 1.14e-15 69.7
MS.gene87216.t1 MTR_0003s0090 59.649 57 23 0 1 57 536 592 1.55e-15 69.3
MS.gene87216.t1 MTR_6g071790 48.571 70 36 0 1 70 526 595 1.91e-15 69.3
MS.gene87216.t1 MTR_6g072760 54.430 79 30 1 1 73 540 618 2.15e-15 68.9
MS.gene87216.t1 MTR_6g472230 49.254 67 34 0 1 67 710 776 2.67e-15 68.9
MS.gene87216.t1 MTR_6g472300 49.254 67 34 0 1 67 526 592 2.71e-15 68.9
MS.gene87216.t1 MTR_4g051662 64.706 51 18 0 1 51 534 584 3.10e-15 68.6
MS.gene87216.t1 MTR_6g077500 54.688 64 23 1 1 58 534 597 5.75e-15 67.8
MS.gene87216.t1 MTR_1g019550 51.613 62 23 2 1 60 343 399 6.56e-15 67.8
MS.gene87216.t1 MTR_2g012770 50.000 58 29 0 1 58 542 599 6.68e-15 67.8
MS.gene87216.t1 MTR_1g019550 51.613 62 23 2 1 60 487 543 6.70e-15 67.8
MS.gene87216.t1 MTR_1g019550 51.613 62 23 2 1 60 520 576 6.97e-15 67.8
MS.gene87216.t1 MTR_8g039910 44.928 69 38 0 1 69 545 613 1.35e-14 66.6
MS.gene87216.t1 MTR_8g039870 44.928 69 38 0 1 69 545 613 1.35e-14 66.6
MS.gene87216.t1 MTR_8g042660 44.776 67 29 1 1 59 527 593 1.54e-14 66.6
MS.gene87216.t1 MTR_6g076220 52.459 61 27 1 1 59 540 600 3.40e-14 65.5
MS.gene87216.t1 MTR_6g008140 49.275 69 34 1 1 68 395 463 4.07e-14 65.5
MS.gene87216.t1 MTR_6g008140 49.275 69 34 1 1 68 534 602 4.21e-14 65.5
MS.gene87216.t1 MTR_6g008140 49.275 69 34 1 1 68 395 463 4.34e-14 65.5
MS.gene87216.t1 MTR_6g008140 49.275 69 34 1 1 68 395 463 4.34e-14 65.5
MS.gene87216.t1 MTR_6g008140 49.275 69 34 1 1 68 380 448 4.36e-14 65.5
MS.gene87216.t1 MTR_6g008140 49.275 69 34 1 1 68 677 745 4.39e-14 65.5
MS.gene87216.t1 MTR_6g075880 44.928 69 37 1 1 68 532 600 5.86e-14 65.1
MS.gene87216.t1 MTR_6g471270 49.180 61 31 0 1 61 35 95 6.84e-14 64.7
MS.gene87216.t1 MTR_6g471270 49.180 61 31 0 1 61 35 95 7.27e-14 64.7
MS.gene87216.t1 MTR_2g040220 48.529 68 34 1 1 68 531 597 1.39e-13 63.9
MS.gene87216.t1 MTR_8g042650 40.789 76 37 1 1 68 523 598 3.63e-13 62.8
MS.gene87216.t1 MTR_6g076090 46.552 58 31 0 1 58 542 599 4.09e-13 62.4
MS.gene87216.t1 MTR_5g040440 43.939 66 36 1 1 66 298 362 5.51e-13 62.0
MS.gene87216.t1 MTR_6g471210 51.724 58 28 0 1 58 310 367 5.82e-13 62.0
MS.gene87216.t1 MTR_5g040490 46.552 58 30 1 1 58 536 592 1.34e-12 61.2
MS.gene87216.t1 MTR_8g042470 42.424 66 30 2 1 58 528 593 1.44e-12 60.8
MS.gene87216.t1 MTR_2g040230 48.485 66 33 1 1 66 535 599 1.44e-12 60.8
MS.gene87216.t1 MTR_8g042470 42.424 66 30 2 1 58 528 593 1.54e-12 60.8
MS.gene87216.t1 MTR_8g042470 42.424 66 30 2 1 58 528 593 2.20e-12 60.5
MS.gene87216.t1 MTR_6g075780 44.828 58 32 0 1 58 244 301 2.41e-12 60.5
MS.gene87216.t1 MTR_2g040370 46.970 66 34 1 1 66 529 593 2.91e-12 60.1
MS.gene87216.t1 MTR_2g040370 46.970 66 34 1 1 66 529 593 2.94e-12 60.1
MS.gene87216.t1 MTR_6g471170 71.429 35 10 0 1 35 348 382 6.33e-12 59.3
MS.gene87216.t1 MTR_3g020470 44.118 68 37 1 1 68 535 601 6.82e-12 58.9
MS.gene87216.t1 MTR_0573s0030 44.776 67 36 1 1 66 525 591 8.94e-12 58.9
MS.gene87216.t1 MTR_6g478080 44.776 67 36 1 1 66 525 591 1.03e-11 58.5
MS.gene87216.t1 MTR_2g040260 44.118 68 37 1 1 68 530 596 1.31e-11 58.2
MS.gene87216.t1 MTR_6g074780 61.194 67 25 1 1 67 522 587 1.67e-11 58.2
MS.gene87216.t1 MTR_0007s0060 47.458 59 30 1 1 58 537 595 1.93e-11 57.8
MS.gene87216.t1 MTR_8g075440 48.276 58 28 1 1 58 537 592 1.98e-11 57.8
MS.gene87216.t1 MTR_0007s0080 47.458 59 30 1 1 58 380 438 2.08e-11 57.8
MS.gene87216.t1 MTR_8g087130 46.970 66 32 1 1 66 326 388 2.28e-11 57.8
MS.gene87216.t1 MTR_6g078480 47.368 57 27 1 1 57 527 580 3.73e-11 57.0
MS.gene87216.t1 MTR_6g078480 47.368 57 27 1 1 57 566 619 3.75e-11 57.0
MS.gene87216.t1 MTR_6g078610 47.541 61 30 1 1 59 474 534 4.13e-11 57.0
MS.gene87216.t1 MTR_5g040550 43.860 57 31 1 1 57 319 374 6.01e-11 56.2
MS.gene87216.t1 MTR_4g023260 40.678 59 35 0 1 59 525 583 6.43e-11 56.2
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score

Find 16 sgRNAs with CRISPR-Local

Find 19 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CAAACTACTTGGAAGATAAT+TGG 0.159615 6.2:-75262118 None:intergenic
CACTCTATTGTGGATTTCAT+TGG 0.296744 6.2:-75262021 None:intergenic
ACTCTATTGTGGATTTCATT+GGG 0.306768 6.2:-75262020 None:intergenic
AAACTACTTGGAAGATAATT+GGG 0.417425 6.2:-75262117 None:intergenic
CTCAATACTCTCAAACTACT+TGG 0.428295 6.2:-75262129 None:intergenic
GGGAACTAGTAAAATAGAAA+TGG 0.440071 6.2:+75261981 None:intergenic
ACAATAGAGTGGAATGGAAA+TGG 0.442244 6.2:+75262033 MS.gene87216:CDS
CTCTATTGTGGATTTCATTG+GGG 0.474542 6.2:-75262019 None:intergenic
AAAACACTTATCATTGAAAA+CGG 0.506865 6.2:+75262078 MS.gene87216:CDS
ATTTCCATTCCACTCTATTG+TGG 0.511075 6.2:-75262031 None:intergenic
GTAGTTTGAGAGTATTGAGA+TGG 0.541915 6.2:+75262133 MS.gene87216:CDS
AAATCCACAATAGAGTGGAA+TGG 0.572039 6.2:+75262027 MS.gene87216:CDS
TCTATTGTGGATTTCATTGG+GGG 0.583853 6.2:-75262018 None:intergenic
GAGATGGAAAAGATGTACTT+CGG 0.615443 6.2:+75262149 MS.gene87216:CDS
CAATGAAATCCACAATAGAG+TGG 0.622665 6.2:+75262022 MS.gene87216:CDS
CTATTGTGGATTTCATTGGG+GGG 0.639728 6.2:-75262017 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AAAACACTTATCATTGAAAA+CGG + chr6.2:75262078-75262097 MS.gene87216:CDS 20.0%
! AAACTACTTGGAAGATAATT+GGG - chr6.2:75262120-75262139 None:intergenic 25.0%
!! TTTCAATGATAAGTGTTTTG+AGG - chr6.2:75262077-75262096 None:intergenic 25.0%
AATTGGGACGTTTAGAAAAA+TGG - chr6.2:75262104-75262123 None:intergenic 30.0%
ACTCTATTGTGGATTTCATT+GGG - chr6.2:75262023-75262042 None:intergenic 30.0%
CAAACTACTTGGAAGATAAT+TGG - chr6.2:75262121-75262140 None:intergenic 30.0%
!! ATCATCTTTTGTTGTGAACA+AGG + chr6.2:75262179-75262198 MS.gene87216:CDS 30.0%
!! TCATCTTTTGTTGTGAACAA+GGG + chr6.2:75262180-75262199 MS.gene87216:CDS 30.0%
AAATCCACAATAGAGTGGAA+TGG + chr6.2:75262027-75262046 MS.gene87216:CDS 35.0%
ACAATAGAGTGGAATGGAAA+TGG + chr6.2:75262033-75262052 MS.gene87216:CDS 35.0%
ATTTCCATTCCACTCTATTG+TGG - chr6.2:75262034-75262053 None:intergenic 35.0%
CAATGAAATCCACAATAGAG+TGG + chr6.2:75262022-75262041 MS.gene87216:CDS 35.0%
CACTCTATTGTGGATTTCAT+TGG - chr6.2:75262024-75262043 None:intergenic 35.0%
CTCAATACTCTCAAACTACT+TGG - chr6.2:75262132-75262151 None:intergenic 35.0%
CTCTATTGTGGATTTCATTG+GGG - chr6.2:75262022-75262041 None:intergenic 35.0%
GAGATGGAAAAGATGTACTT+CGG + chr6.2:75262149-75262168 MS.gene87216:CDS 35.0%
TCTATTGTGGATTTCATTGG+GGG - chr6.2:75262021-75262040 None:intergenic 35.0%
!! GTAGTTTGAGAGTATTGAGA+TGG + chr6.2:75262133-75262152 MS.gene87216:CDS 35.0%
CTATTGTGGATTTCATTGGG+GGG - chr6.2:75262020-75262039 None:intergenic 40.0%


Chromosome Type Strat End Strand Name
chr6.2 gene 75261982 75262200 75261982 ID=MS.gene87216
chr6.2 mRNA 75261982 75262200 75261982 ID=MS.gene87216.t1;Parent=MS.gene87216
chr6.2 exon 75261982 75262200 75261982 ID=MS.gene87216.t1.exon1;Parent=MS.gene87216.t1
chr6.2 CDS 75261982 75262200 75261982 ID=cds.MS.gene87216.t1;Parent=MS.gene87216.t1
Gene Sequence

>MS.gene87216

GGAACTAGTAAAATAGAAATGGTATATATGAATTTCCCCCCAATGAAATCCACAATAGAGTGGAATGGAAATGGCTTCAAGAAGATGACAAGCCTCAAAACACTTATCATTGAAAACGGCCATTTTTCTAAACGTCCCAATTATCTTCCAAGTAGTTTGAGAGTATTGAGATGGAAAAGATGTACTTCGGAGTCTCTATCATCTTTTGTTGTGAACAAG
Protein sequence

>MS.gene87216.t1

GTSKIEMVYMNFPPMKSTIEWNGNGFKKMTSLKTLIIENGHFSKRPNYLPSSLRVLRWKRCTSESLSSFVVNK