AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar zhongmu-4 / Msa0974920

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
Msa0974920 MtrunA17_Chr6g0453561 66.667 60 20 0 1 60 37 96 9.83e-23 85.1
Msa0974920 MtrunA17_Chr3g0084631 65.306 49 17 0 1 49 33 81 1.12e-17 72.0
Msa0974920 MtrunA17_Chr3g0084681 67.347 49 16 0 1 49 634 682 2.52e-17 73.6
Msa0974920 MtrunA17_Chr3g0098781 65.306 49 17 0 1 49 81 129 2.76e-17 72.0
Msa0974920 MtrunA17_Chr3g0084431 53.226 62 29 0 1 62 664 725 7.29e-17 72.4
Msa0974920 MtrunA17_Chr3g0084421 63.265 49 18 0 1 49 632 680 7.58e-17 72.4
Msa0974920 MtrunA17_Chr3g0084661 54.839 62 28 0 1 62 203 264 1.04e-16 71.6
Msa0974920 MtrunA17_Chr3g0084411 63.265 49 18 0 1 49 669 717 6.18e-16 69.7
Msa0974920 MtrunA17_Chr3g0084691 63.265 49 18 0 1 49 692 740 1.02e-15 68.9
Msa0974920 MtrunA17_Chr3g0084491 51.613 62 30 0 1 62 676 737 6.06e-15 67.0
Msa0974920 MtrunA17_Chr2g0280681 51.667 60 29 0 1 60 671 730 9.14e-15 66.2
Msa0974920 MtrunA17_Chr3g0084441 50.000 62 31 0 1 62 676 737 9.22e-15 66.2
Msa0974920 MtrunA17_Chr8g0361301 61.224 49 19 0 1 49 676 724 1.61e-14 65.9
Msa0974920 MtrunA17_Chr8g0361261 61.224 49 19 0 1 49 707 755 1.61e-14 65.9
Msa0974920 MtrunA17_Chr3g0084451 57.143 49 21 0 1 49 676 724 2.38e-14 65.1
Msa0974920 MtrunA17_Chr3g0078541 57.143 49 21 0 1 49 700 748 2.23e-13 62.4
Msa0974920 MtrunA17_Chr3g0078521 57.143 49 21 0 1 49 689 737 2.81e-13 62.0
Msa0974920 MtrunA17_Chr4g0023111 59.184 49 20 0 1 49 884 932 2.97e-13 62.0
Msa0974920 MtrunA17_Chr3g0093161 57.143 49 21 0 1 49 667 715 3.35e-13 62.0
Msa0974920 MtrunA17_Chr2g0318831 59.184 49 19 1 1 49 672 719 4.24e-13 61.6
Msa0974920 MtrunA17_Chr8g0361341 55.102 49 22 0 1 49 8 56 4.67e-13 59.3
Msa0974920 MtrunA17_Chr7g0236531 56.250 48 21 0 1 48 208 255 6.20e-13 61.2
Msa0974920 MtrunA17_Chr8g0361251 57.143 49 21 0 1 49 676 724 8.24e-13 60.8
Msa0974920 MtrunA17_Chr2g0280761 55.102 49 22 0 1 49 1 49 1.07e-12 58.5
Msa0974920 MtrunA17_Chr4g0023221 57.143 49 21 0 1 49 900 948 1.36e-12 60.1
Msa0974920 MtrunA17_Chr3g0092301 54.167 48 22 0 1 48 100 147 1.76e-12 59.3
Msa0974920 MtrunA17_Chr1g0206391 55.102 49 22 0 1 49 210 258 2.68e-12 59.3
Msa0974920 MtrunA17_Chr7g0236551 54.167 48 22 0 1 48 658 705 2.77e-12 59.3
Msa0974920 MtrunA17_Chr8g0354391 46.774 62 33 0 1 62 104 165 2.91e-12 58.9
Msa0974920 MtrunA17_Chr4g0048631 55.102 49 22 0 1 49 702 750 4.52e-12 58.9
Msa0974920 MtrunA17_Chr4g0042351 55.102 49 22 0 1 49 623 671 4.92e-12 58.5
Msa0974920 MtrunA17_Chr8g0354281 48.387 62 32 0 1 62 505 566 6.45e-12 58.2
Msa0974920 MtrunA17_Chr3g0078551 53.061 49 23 0 1 49 694 742 6.49e-12 58.2
Msa0974920 MtrunA17_Chr7g0236561 50.980 51 25 0 1 51 675 725 7.08e-12 58.2
Msa0974920 MtrunA17_Chr2g0280691 57.143 49 20 1 1 49 696 743 7.29e-12 58.2
Msa0974920 MtrunA17_Chr2g0318811 55.102 49 21 1 1 49 670 717 8.28e-12 58.2
Msa0974920 MtrunA17_Chr4g0042341 46.774 62 33 0 1 62 693 754 9.50e-12 57.8
Msa0974920 MtrunA17_Chr2g0280711 58.696 46 19 0 1 46 700 745 1.12e-11 57.8
Msa0974920 MtrunA17_Chr1g0206361 55.102 49 22 0 1 49 513 561 1.18e-11 57.4
Msa0974920 MtrunA17_Chr3g0078531 55.102 49 22 0 1 49 697 745 1.38e-11 57.4
Msa0974920 MtrunA17_Chr4g0048681 38.710 62 38 0 1 62 450 511 1.55e-11 57.4
Msa0974920 MtrunA17_Chr8g0354431 46.774 62 33 0 1 62 512 573 1.67e-11 57.0
Msa0974920 MtrunA17_Chr8g0354331 54.167 48 22 0 1 48 270 317 1.67e-11 57.0
Msa0974920 MtrunA17_Chr2g0318841 55.102 49 21 1 1 49 671 718 1.86e-11 57.0
Msa0974920 MtrunA17_Chr4g0048641 51.020 49 24 0 1 49 628 676 2.40e-11 56.6
Msa0974920 MtrunA17_Chr4g0048741 40.323 62 37 0 1 62 702 763 2.45e-11 56.6
Msa0974920 MtrunA17_Chr4g0042381 53.061 49 23 0 1 49 623 671 2.67e-11 56.6
Msa0974920 MtrunA17_Chr7g0236691 50.980 51 25 0 1 51 670 720 2.70e-11 56.6
Msa0974920 MtrunA17_Chr4g0048711 47.917 48 25 0 1 48 256 303 2.93e-11 56.2
Msa0974920 MtrunA17_Chr4g0048711 50.000 48 24 0 1 48 99 146 5.60e-11 55.5
Msa0974920 MtrunA17_Chr2g0323231 55.102 49 22 0 1 49 348 396 2.97e-11 56.6
Msa0974920 MtrunA17_Chr4g0042391 53.061 49 23 0 1 49 623 671 3.04e-11 56.2
Msa0974920 MtrunA17_Chr8g0340091 51.020 49 24 0 1 49 702 750 3.19e-11 56.2
Msa0974920 MtrunA17_Chr7g0236471 50.980 51 25 0 1 51 510 560 4.26e-11 55.8
Msa0974920 MtrunA17_Chr8g0354421 45.161 62 34 0 1 62 533 594 4.39e-11 55.8
Msa0974920 MtrunA17_Chr8g0357831 53.061 49 23 0 1 49 362 410 4.48e-11 55.8
Msa0974920 MtrunA17_Chr4g0055011 49.020 51 26 0 1 51 241 291 5.38e-11 55.8
Msa0974920 MtrunA17_Chr8g0354441 45.161 62 34 0 1 62 520 581 5.39e-11 55.8
Msa0974920 MtrunA17_Chr1g0154351 53.061 49 23 0 1 49 528 576 5.66e-11 55.5
Msa0974920 MtrunA17_Chr8g0361141 57.143 49 20 1 1 49 686 733 6.39e-11 55.5
Msa0974920 MtrunA17_Chr3g0081071 51.020 49 24 0 1 49 99 147 7.36e-11 55.1
Msa0974920 MtrunA17_Chr4g0048731 50.000 48 24 0 1 48 216 263 8.62e-11 55.1
Msa0974920 MtrunA17_Chr8g0340051 48.980 49 25 0 1 49 199 247 8.62e-11 55.1
Msa0974920 MtrunA17_Chr8g0358101 53.061 49 23 0 1 49 634 682 9.82e-11 55.1
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
Msa0974920 AT4G27300.1 54.386 57 26 0 1 57 669 725 3.38e-14 65.1
Msa0974920 AT4G21366.1 59.184 49 20 0 1 49 1 49 3.97e-14 61.6
Msa0974920 AT4G27290.1 55.102 49 22 0 1 49 634 682 2.17e-12 60.1
Msa0974920 AT4G27290.2 55.102 49 22 0 1 49 680 728 2.26e-12 60.1
Msa0974920 AT1G61360.2 55.102 49 22 0 1 49 586 634 3.23e-12 59.7
Msa0974920 AT1G61360.3 55.102 49 22 0 1 49 586 634 3.23e-12 59.7
Msa0974920 AT1G61360.4 55.102 49 22 0 1 49 586 634 3.23e-12 59.7
Msa0974920 AT1G61360.1 55.102 49 22 0 1 49 667 715 3.40e-12 59.7
Msa0974920 AT4G23200.1 54.000 50 20 2 1 48 505 553 1.84e-11 57.4
Msa0974920 AT1G65790.1 52.083 48 23 0 1 48 688 735 2.12e-11 57.4
Msa0974920 AT4G11480.1 66.667 36 12 0 1 36 498 533 2.44e-11 57.0
Msa0974920 AT4G11470.1 66.667 36 12 0 1 36 508 543 2.46e-11 57.0
Msa0974920 AT4G03230.8 51.020 49 24 0 1 49 701 749 2.50e-11 57.0
Msa0974920 AT4G03230.2 51.020 49 24 0 1 49 759 807 2.50e-11 57.0
Msa0974920 AT4G03230.6 51.020 49 24 0 1 49 759 807 2.50e-11 57.0
Msa0974920 AT4G03230.5 51.020 49 24 0 1 49 787 835 2.50e-11 57.0
Msa0974920 AT4G11480.4 66.667 36 12 0 1 36 490 525 2.51e-11 57.0
Msa0974920 AT4G11480.3 66.667 36 12 0 1 36 493 528 2.51e-11 57.0
Msa0974920 AT4G11470.2 66.667 36 12 0 1 36 513 548 2.59e-11 57.0
Msa0974920 AT4G03230.3 51.020 49 24 0 1 49 694 742 2.65e-11 57.0
Msa0974920 AT4G03230.7 51.020 49 24 0 1 49 702 750 2.65e-11 57.0
Msa0974920 AT1G65800.1 52.083 48 23 0 1 48 692 739 2.68e-11 57.0
Msa0974920 AT4G03230.4 51.020 49 24 0 1 49 859 907 2.68e-11 57.0
Msa0974920 AT4G03230.1 51.020 49 24 0 1 49 859 907 2.68e-11 57.0
Msa0974920 AT4G23210.1 51.852 54 24 1 1 54 527 578 3.14e-11 56.6
Msa0974920 AT4G11460.2 63.889 36 13 0 1 36 440 475 3.43e-11 56.6
Msa0974920 AT4G23290.1 63.889 36 13 0 1 36 489 524 3.64e-11 56.6
Msa0974920 AT4G23290.2 63.889 36 13 0 1 36 532 567 3.65e-11 56.6
Msa0974920 AT4G11460.3 63.889 36 13 0 1 36 515 550 3.65e-11 56.6
Msa0974920 AT4G11460.1 63.889 36 13 0 1 36 518 553 3.87e-11 56.6
Msa0974920 AT4G23220.1 64.706 34 12 0 1 34 505 538 4.09e-11 56.6
Msa0974920 AT1G61590.1 46.809 47 25 0 3 49 275 321 4.49e-11 56.2
Msa0974920 AT4G11530.1 66.667 36 12 0 1 36 521 556 5.49e-11 56.2
Msa0974920 AT1G11350.1 55.102 49 22 0 1 49 681 729 5.68e-11 56.2
Msa0974920 AT4G23210.3 59.524 42 17 0 1 42 527 568 6.68e-11 55.8
Msa0974920 AT4G23320.3 57.895 38 16 0 1 38 373 410 8.15e-11 55.5
Msa0974920 AT4G23320.2 57.895 38 16 0 1 38 352 389 8.63e-11 55.5
Msa0974920 AT4G23320.1 57.895 38 16 0 1 38 352 389 8.63e-11 55.5
Msa0974920 AT4G23140.1 48.980 49 25 0 1 49 520 568 8.70e-11 55.5
Msa0974920 AT4G23140.2 48.980 49 25 0 1 49 526 574 9.50e-11 55.5

Find 7 sgRNAs with CRISPR-Local

Find 9 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AAATCAGATGTCTTTAATTA+TGG 0.234358 6_4:-8462087 Msa0974920:CDS
GAATGTAAGAGCAAAGTTTG+TGG 0.459228 6_4:-8461971 Msa0974920:CDS
ACATGCCTCCAGAGTATGCT+AGG 0.542978 6_4:-8462128 Msa0974920:CDS
TGTCCACTCCTAGCATACTC+TGG 0.561698 6_4:+8462120 None:intergenic
ATTGTACTAGAGATTGTGTT+CGG 0.581542 6_4:-8462060 Msa0974920:CDS
CCTCCAGAGTATGCTAGGAG+TGG 0.626998 6_4:-8462123 Msa0974920:CDS
CCACTCCTAGCATACTCTGG+AGG 0.698493 6_4:+8462123 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! GAATATTTTTGTTACATTTA+GGG + chr6_4:8462076-8462095 None:intergenic 15.0%
!!! AGAATATTTTTGTTACATTT+AGG + chr6_4:8462077-8462096 None:intergenic 15.0%
!! AAATGTAACAAAAATATTCT+TGG - chr6_4:8462077-8462096 Msa0974920:CDS 15.0%
!! AAATCAGATGTCTTTAATTA+TGG - chr6_4:8461999-8462018 Msa0974920:CDS 20.0%
ATTGTACTAGAGATTGTGTT+CGG - chr6_4:8462026-8462045 Msa0974920:CDS 30.0%
GAATGTAAGAGCAAAGTTTG+TGG - chr6_4:8462115-8462134 Msa0974920:CDS 35.0%
TGTCCACTCCTAGCATACTC+TGG + chr6_4:8461969-8461988 None:intergenic 50.0%
CCACTCCTAGCATACTCTGG+AGG + chr6_4:8461966-8461985 None:intergenic 55.0%
CCTCCAGAGTATGCTAGGAG+TGG - chr6_4:8461963-8461982 Msa0974920:CDS 55.0%
Chromosome Type Strat End Strand Name
chr6_4 gene 8461960 8462148 8461960 ID=Msa0974920;Name=Msa0974920
chr6_4 mRNA 8461960 8462148 8461960 ID=Msa0974920-mRNA-1;Parent=Msa0974920;Name=Msa0974920-mRNA-1;_AED=0.48;_eAED=0.48;_QI=0|-1|0|1|-1|1|1|0|62
chr6_4 exon 8461960 8462148 8461960 ID=Msa0974920-mRNA-1:exon:3096;Parent=Msa0974920-mRNA-1
chr6_4 CDS 8461960 8462148 8461960 ID=Msa0974920-mRNA-1:cds;Parent=Msa0974920-mRNA-1
Gene Sequence

>Msa0974920

ATGCCTCCAGAGTATGCTAGGAGTGGACATTTCTCTACGAAATCAGATGTCTTTAATTATGGTGTGATTGTACTAGAGATTGTGTTCGGAAAGAAGAATAGAGAATTTTCAGACCCTAAATGTAACAAAAATATTCTTGGATATGCAAGTATTATGAATGTAAGAGCAAAGTTTGTGGAAAGTATCTAA
Protein sequence

>Msa0974920

MPPEYARSGHFSTKSDVFNYGVIVLEIVFGKKNREFSDPKCNKNILGYASIMNVRAKFVESI*