AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene059332

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene059332.t1 MTR_4g036695 98.039 51 1 0 1 51 633 683 3.53e-29 107
MS.gene059332.t1 MTR_4g036575 72.549 51 14 0 1 51 862 912 1.43e-19 79.7
MS.gene059332.t1 MTR_4g036505 62.745 51 19 0 1 51 836 886 1.47e-15 68.2
MS.gene059332.t1 MTR_7g098610 55.769 52 22 1 1 51 853 904 5.67e-14 63.9
MS.gene059332.t1 MTR_1g080440 53.846 52 23 1 1 51 850 901 1.66e-13 62.4
MS.gene059332.t1 MTR_3g449390 56.604 53 20 1 2 51 848 900 1.98e-13 62.4
MS.gene059332.t1 MTR_5g090100 54.545 55 20 1 2 51 820 874 2.39e-13 62.0
MS.gene059332.t1 MTR_4g097880 56.604 53 20 1 2 51 828 880 2.39e-13 62.0
MS.gene059332.t1 MTR_5g014700 56.604 53 20 1 2 51 831 883 2.39e-13 62.0
MS.gene059332.t1 MTR_1g069470 51.923 52 24 1 1 51 844 895 6.40e-13 60.8
MS.gene059332.t1 MTR_3g110860 48.148 54 25 1 1 51 826 879 1.03e-12 60.5
MS.gene059332.t1 MTR_6g088790 57.692 52 19 2 3 51 846 897 2.30e-12 59.3
MS.gene059332.t1 MTR_2g005810 55.556 54 19 2 2 51 826 878 2.40e-12 59.3
MS.gene059332.t1 MTR_8g047210 56.863 51 21 1 2 51 731 781 2.44e-12 59.3
MS.gene059332.t1 MTR_8g047220 56.863 51 21 1 2 51 794 844 2.44e-12 59.3
MS.gene059332.t1 MTR_7g407130 56.863 51 21 1 2 51 659 709 2.80e-12 58.9
MS.gene059332.t1 MTR_7g407090 56.863 51 21 1 2 51 614 664 4.70e-12 58.5
MS.gene059332.t1 MTR_1g079520 50.000 52 24 1 2 51 908 959 4.70e-12 58.5
MS.gene059332.t1 MTR_4g070970 52.830 53 22 1 2 51 789 841 7.45e-12 57.8
MS.gene059332.t1 MTR_7g007560 54.902 51 22 1 2 51 616 666 7.81e-12 57.8
MS.gene059332.t1 MTR_1g105595 44.444 54 27 1 1 51 437 490 1.18e-11 57.4
MS.gene059332.t1 MTR_1g105595 44.444 54 27 1 1 51 484 537 1.18e-11 57.4
MS.gene059332.t1 MTR_8g047160 54.902 51 22 1 2 51 494 544 1.22e-11 57.4
MS.gene059332.t1 MTR_0491s0030 54.902 51 22 1 2 51 667 717 1.23e-11 57.4
MS.gene059332.t1 MTR_8g047230 54.902 51 22 1 2 51 838 888 1.23e-11 57.4
MS.gene059332.t1 MTR_7g013680 54.902 51 22 1 2 51 582 632 1.58e-11 57.0
MS.gene059332.t1 MTR_7g013350 54.902 51 22 1 2 51 258 308 1.91e-11 56.6
MS.gene059332.t1 MTR_2g090710 51.852 54 21 1 3 51 832 885 2.06e-11 56.6
MS.gene059332.t1 MTR_7g081780 52.941 51 23 1 2 51 910 960 2.41e-11 56.2
MS.gene059332.t1 MTR_1g047670 51.923 52 23 1 2 51 951 1002 2.51e-11 56.2
MS.gene059332.t1 MTR_2g006910 50.943 53 24 1 1 51 454 506 2.60e-11 56.2
MS.gene059332.t1 MTR_2g006910 50.943 53 24 1 1 51 454 506 2.60e-11 56.2
MS.gene059332.t1 MTR_7g084220 45.283 53 27 1 1 51 924 976 3.20e-11 56.2
MS.gene059332.t1 MTR_5g033490 49.091 55 24 2 1 51 444 498 3.38e-11 55.8
MS.gene059332.t1 MTR_5g005480 41.818 55 28 1 1 51 467 521 3.45e-11 55.8
MS.gene059332.t1 MTR_8g463990 49.057 53 25 1 1 51 182 234 3.55e-11 55.8
MS.gene059332.t1 MTR_3g031470 50.000 54 23 1 2 51 659 712 3.77e-11 55.8
MS.gene059332.t1 MTR_3g079850 44.444 54 27 1 1 51 478 531 4.11e-11 55.8
MS.gene059332.t1 MTR_8g463990 49.057 53 25 1 1 51 115 167 4.33e-11 55.5
MS.gene059332.t1 MTR_4g088320 52.830 53 21 1 3 51 836 888 4.46e-11 55.5
MS.gene059332.t1 MTR_7g007620 54.000 50 22 1 3 51 584 633 4.91e-11 55.5
MS.gene059332.t1 MTR_1g029610 52.727 55 20 2 1 51 430 482 5.36e-11 55.5
MS.gene059332.t1 MTR_5g014720 52.941 51 21 1 4 51 848 898 5.43e-11 55.5
MS.gene059332.t1 MTR_1g021635 42.593 54 28 1 1 51 496 549 5.68e-11 55.5
MS.gene059332.t1 MTR_7g007630 52.941 51 23 1 2 51 629 679 5.75e-11 55.5
MS.gene059332.t1 MTR_5g068250 42.593 54 28 1 1 51 482 535 5.79e-11 55.5
MS.gene059332.t1 MTR_1g105840 46.296 54 26 1 1 51 498 551 6.03e-11 55.5
MS.gene059332.t1 MTR_6g068970 53.846 52 21 2 3 51 867 918 7.14e-11 55.1
MS.gene059332.t1 MTR_1g021642 44.444 54 27 1 1 51 494 547 7.40e-11 55.1
MS.gene059332.t1 MTR_8g042370 49.020 51 25 1 2 51 245 295 7.95e-11 55.1
MS.gene059332.t1 MTR_7g050990 54.000 50 22 1 3 51 783 832 8.51e-11 54.7
MS.gene059332.t1 MTR_7g010000 52.941 51 23 1 2 51 709 759 8.59e-11 54.7
MS.gene059332.t1 MTR_1g105640 38.889 54 30 1 1 51 473 526 8.66e-11 54.7
MS.gene059332.t1 MTR_1g105640 38.889 54 30 1 1 51 473 526 8.66e-11 54.7
MS.gene059332.t1 MTR_1g105640 38.889 54 30 1 1 51 473 526 8.66e-11 54.7
MS.gene059332.t1 MTR_3g102400 48.148 54 24 1 2 51 654 707 9.47e-11 54.7
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene059332.t1 AT5G61480 68.000 50 16 0 2 51 865 914 6.28e-18 75.1
MS.gene059332.t1 AT3G49670 56.604 53 20 1 2 51 829 881 2.50e-13 62.0
MS.gene059332.t1 AT5G65700 56.604 53 20 1 2 51 833 885 2.50e-13 62.0
MS.gene059332.t1 AT5G65700 56.604 53 20 1 2 51 833 885 2.50e-13 62.0
MS.gene059332.t1 AT4G20270 53.704 54 21 1 2 51 849 902 7.32e-13 60.8
MS.gene059332.t1 AT1G75820 54.717 53 21 1 2 51 830 882 1.51e-12 59.7
MS.gene059332.t1 AT4G28650 51.923 52 24 1 1 51 843 894 2.82e-12 58.9
MS.gene059332.t1 AT1G08590 50.000 52 25 1 1 51 866 917 4.05e-12 58.5
MS.gene059332.t1 AT4G04500 50.000 54 24 1 1 51 482 535 6.40e-12 58.2
MS.gene059332.t1 AT1G35710 52.000 50 23 1 3 51 995 1044 9.22e-12 57.8
MS.gene059332.t1 AT1G11050 52.830 53 23 1 1 51 438 490 9.65e-12 57.8
MS.gene059332.t1 AT4G04490 48.148 54 25 1 1 51 477 530 1.12e-11 57.4
MS.gene059332.t1 AT4G28490 57.407 54 18 1 3 51 833 886 1.38e-11 57.0
MS.gene059332.t1 AT5G63930 53.846 52 22 1 2 51 881 932 1.46e-11 57.0
MS.gene059332.t1 AT5G63930 53.846 52 22 1 2 51 945 996 1.46e-11 57.0
MS.gene059332.t1 AT4G23150 46.296 54 26 1 1 51 473 526 1.53e-11 57.0
MS.gene059332.t1 AT4G08850 50.980 51 24 1 2 51 918 968 1.77e-11 57.0
MS.gene059332.t1 AT3G19700 47.273 55 24 1 2 51 827 881 2.09e-11 56.6
MS.gene059332.t1 AT3G45860 46.296 54 26 1 1 51 488 541 2.24e-11 56.6
MS.gene059332.t1 AT4G23130 46.296 54 26 1 1 51 477 530 2.28e-11 56.6
MS.gene059332.t1 AT4G23130 46.296 54 26 1 1 51 481 534 2.37e-11 56.6
MS.gene059332.t1 AT4G23130 46.296 54 26 1 1 51 481 534 3.65e-11 55.8
MS.gene059332.t1 AT4G23180 46.296 54 26 1 1 51 485 538 3.80e-11 55.8
MS.gene059332.t1 AT4G23310 46.296 54 26 1 1 51 605 658 4.67e-11 55.5
MS.gene059332.t1 AT4G23310 46.296 54 26 1 1 51 645 698 4.67e-11 55.5
MS.gene059332.t1 AT5G25930 52.830 53 21 1 3 51 833 885 5.26e-11 55.5
MS.gene059332.t1 AT3G24240 48.000 50 23 1 5 51 935 984 5.26e-11 55.5
MS.gene059332.t1 AT4G11490 44.444 54 27 1 1 51 458 511 5.72e-11 55.5
MS.gene059332.t1 AT1G17230 51.923 52 23 1 2 51 939 990 5.86e-11 55.5
MS.gene059332.t1 AT1G17230 51.923 52 23 1 2 51 939 990 5.86e-11 55.5
MS.gene059332.t1 AT4G23180 46.296 54 26 1 1 51 485 538 6.12e-11 55.5
MS.gene059332.t1 AT1G28440 52.830 53 21 1 3 51 829 881 6.15e-11 55.5
MS.gene059332.t1 AT2G35620 49.057 53 25 1 1 51 439 491 6.37e-11 55.1
MS.gene059332.t1 AT2G35620 49.057 53 25 1 1 51 439 491 6.37e-11 55.1
MS.gene059332.t1 AT2G35620 49.057 53 25 1 1 51 439 491 6.37e-11 55.1
MS.gene059332.t1 AT2G35620 49.057 53 25 1 1 51 439 491 6.37e-11 55.1
MS.gene059332.t1 AT1G31420 49.057 53 25 1 1 51 441 493 6.37e-11 55.1
MS.gene059332.t1 AT1G31420 49.057 53 25 1 1 51 442 494 6.37e-11 55.1
MS.gene059332.t1 AT1G31420 49.057 53 25 1 1 51 442 494 6.37e-11 55.1
MS.gene059332.t1 AT1G72180 48.000 50 26 0 2 51 827 876 7.47e-11 55.1

Find 10 sgRNAs with CRISPR-Local

Find 18 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GAGCTTGAGTCTACGATTAT+TGG 0.248787 3.3:-79525244 MS.gene059332:CDS
AAAGCGAAAGTAGCTGATTT+TGG 0.273422 3.3:-79525292 MS.gene059332:CDS
CTCATCAACTTGGAGTCTTT+CGG 0.285823 3.3:+79524898 None:intergenic
CTCATCTATTTGAATTAACT+TGG 0.346436 3.3:+79525264 None:intergenic
ACCCATGGTTACATCGCTCC+AGG 0.521445 3.3:-79525220 MS.gene059332:intron
TCTACGATTATTGGTACCCA+TGG 0.545847 3.3:-79525235 MS.gene059332:CDS
AAAACTGATATTTACAGCTA+CGG 0.566066 3.3:-79524875 MS.gene059332:CDS
ACCTGGAGCGATGTAACCAT+GGG 0.578048 3.3:+79525219 None:intergenic
GACCTGGAGCGATGTAACCA+TGG 0.639990 3.3:+79525218 None:intergenic
TGATATTTACAGCTACGGAG+TGG 0.686907 3.3:-79524870 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AAACAAAAAAAAAAAAAGAA+AGG + chr3.3:79525015-79525034 None:intergenic 10.0%
!! AATACATCTGTAATAATAAA+AGG - chr3.3:79525211-79525230 MS.gene059332:intron 15.0%
!! ATACATCTGTAATAATAAAA+GGG - chr3.3:79525212-79525231 MS.gene059332:intron 15.0%
!!! TTATTACAGATGTATTATTT+TGG + chr3.3:79525207-79525226 None:intergenic 15.0%
!! GATGAATGTTATATATGTTA+AGG - chr3.3:79525143-79525162 MS.gene059332:intron 20.0%
! AAAACTGATATTTACAGCTA+CGG - chr3.3:79525291-79525310 MS.gene059332:CDS 25.0%
! ATGTTATATATGTTAAGGTG+TGG - chr3.3:79525148-79525167 MS.gene059332:intron 25.0%
! CTCATCTATTTGAATTAACT+TGG + chr3.3:79524905-79524924 None:intergenic 25.0%
! TATCAGTTTTCTCATCAACT+TGG + chr3.3:79525281-79525300 None:intergenic 30.0%
ATGCACATCATGAACAAGAA+AGG + chr3.3:79525053-79525072 None:intergenic 35.0%
! TAAAAATAATCGTGCTGACC+TGG + chr3.3:79524967-79524986 None:intergenic 35.0%
!! AAAGCGAAAGTAGCTGATTT+TGG - chr3.3:79524874-79524893 MS.gene059332:CDS 35.0%
CTCATCAACTTGGAGTCTTT+CGG + chr3.3:79525271-79525290 None:intergenic 40.0%
GAGCTTGAGTCTACGATTAT+TGG - chr3.3:79524922-79524941 MS.gene059332:intron 40.0%
TCTACGATTATTGGTACCCA+TGG - chr3.3:79524931-79524950 MS.gene059332:intron 40.0%
ACCTGGAGCGATGTAACCAT+GGG + chr3.3:79524950-79524969 None:intergenic 50.0%
ACCCATGGTTACATCGCTCC+AGG - chr3.3:79524946-79524965 MS.gene059332:intron 55.0%
GACCTGGAGCGATGTAACCA+TGG + chr3.3:79524951-79524970 None:intergenic 55.0%


Chromosome Type Strat End Strand Name
chr3.3 gene 79524871 79525317 79524871 ID=MS.gene059332
chr3.3 mRNA 79524871 79525317 79524871 ID=MS.gene059332.t1;Parent=MS.gene059332
chr3.3 exon 79525221 79525317 79525221 ID=MS.gene059332.t1.exon1;Parent=MS.gene059332.t1
chr3.3 CDS 79525221 79525317 79525221 ID=cds.MS.gene059332.t1;Parent=MS.gene059332.t1
chr3.3 exon 79524871 79524926 79524871 ID=MS.gene059332.t1.exon2;Parent=MS.gene059332.t1
chr3.3 CDS 79524871 79524926 79524871 ID=cds.MS.gene059332.t1;Parent=MS.gene059332.t1
Gene Sequence

>MS.gene059332

ATGAAAGCGAAAGTAGCTGATTTTGGTATTGCCAAGTTAATTCAAATAGATGAGCTTGAGTCTACGATTATTGGTACCCATGGTTACATCGCTCCAGGTCAGCACGATTATTTTTATTATTGTTATTTATCAAGAAATGTTCCTTTCTTTTTTTTTTTTTGTTTGACAAAAGAAATGTTCCTTTCTTGTTCATGATGTGCATGCGTTATTAATTTATCTTATATAAAGAGTACATAGATATATGAAGTGAGTGAGAGCATGAACATAGCTTTGATGAATGTTATATATGTTAAGGTGTGGTGTAATTGAATCAGTTAAATTGTTCTTATACAACCAAAATAATACATCTGTAATAATAAAAGGGTGTTGTTTGTTTTTTTCATTTTTGCAGAAAATGCCGAAAGACTCCAAGTTGATGAGAAAACTGATATTTACAGCTACGGAGTG
Protein sequence

>MS.gene059332.t1

MKAKVADFGIAKLIQIDELESTIIGTHGYIAPENAERLQVDEKTDIYSYGV