AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene024134

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene024134.t1 MTR_7g481630 84.211 114 18 0 1 114 80 193 2.38e-65 196
MS.gene024134.t1 MTR_7g081410 90.351 114 11 0 1 114 826 939 1.42e-64 210
MS.gene024134.t1 MTR_7g081410 90.351 114 11 0 1 114 946 1059 2.23e-64 210
MS.gene024134.t1 MTR_7g481590 84.211 114 18 0 1 114 203 316 1.50e-63 196
MS.gene024134.t1 MTR_7g081570 85.088 114 17 0 1 114 939 1052 2.00e-60 199
MS.gene024134.t1 MTR_7g081480 79.825 114 22 1 1 114 949 1061 1.33e-56 188
MS.gene024134.t1 MTR_7g081780 72.566 113 30 1 1 113 947 1058 7.88e-50 169
MS.gene024134.t1 MTR_7g081720 60.345 116 43 2 1 114 964 1078 2.71e-36 130
MS.gene024134.t1 MTR_1g039080 57.282 103 43 1 1 102 192 294 4.56e-34 119
MS.gene024134.t1 MTR_5g085700 58.036 112 46 1 2 113 921 1031 2.65e-33 122
MS.gene024134.t1 MTR_8g445960 55.556 99 43 1 1 98 63 161 3.29e-33 114
MS.gene024134.t1 MTR_8g044940 55.556 99 43 1 1 98 63 161 3.29e-33 114
MS.gene024134.t1 MTR_1g038890 59.596 99 39 1 1 98 1033 1131 7.39e-33 120
MS.gene024134.t1 MTR_1g039310 58.763 97 39 1 3 98 1051 1147 2.87e-31 116
MS.gene024134.t1 MTR_7g045510 56.522 92 38 1 2 93 1091 1180 3.90e-28 107
MS.gene024134.t1 MTR_0400s0030 55.556 99 43 1 1 98 791 889 5.13e-28 107
MS.gene024134.t1 MTR_0365s0020 55.556 99 43 1 1 98 791 889 5.13e-28 107
MS.gene024134.t1 MTR_1g040545 53.535 99 42 2 1 95 907 1005 7.40e-28 106
MS.gene024134.t1 MTR_7g039330 56.522 92 38 1 2 93 1189 1278 1.10e-27 105
MS.gene024134.t1 MTR_1g039240 51.515 99 44 1 1 95 1058 1156 1.34e-27 105
MS.gene024134.t1 MTR_0400s0040 51.515 99 44 1 1 95 1058 1156 3.36e-27 104
MS.gene024134.t1 MTR_0365s0030 51.515 99 44 1 1 95 1058 1156 3.36e-27 104
MS.gene024134.t1 MTR_1g040525 53.684 95 40 2 1 91 767 861 9.51e-27 103
MS.gene024134.t1 MTR_1g040615 51.515 99 44 2 1 95 2024 2122 1.26e-26 103
MS.gene024134.t1 MTR_1g040615 53.191 94 36 3 1 88 1025 1116 4.08e-24 95.9
MS.gene024134.t1 MTR_1g039220 52.525 99 43 2 1 95 1032 1130 1.27e-25 100
MS.gene024134.t1 MTR_7g045860 51.042 96 45 1 2 97 984 1077 2.24e-25 99.4
MS.gene024134.t1 MTR_7g045710 52.688 93 39 1 2 94 972 1059 3.40e-25 99.0
MS.gene024134.t1 MTR_7g446160 51.064 94 45 1 1 93 887 980 1.27e-23 94.4
MS.gene024134.t1 MTR_7g050990 49.495 99 46 2 1 95 819 917 3.23e-23 93.2
MS.gene024134.t1 MTR_7g009940 51.515 99 43 2 3 100 700 794 3.53e-23 93.2
MS.gene024134.t1 MTR_7g051040 48.000 100 47 1 1 95 843 942 3.68e-23 93.2
MS.gene024134.t1 MTR_7g007540 47.525 101 48 2 1 100 1 97 5.69e-23 86.7
MS.gene024134.t1 MTR_7g007560 47.525 101 48 2 1 100 653 749 1.65e-21 88.6
MS.gene024134.t1 MTR_7g010000 47.115 104 44 3 1 100 746 842 1.90e-20 85.5
MS.gene024134.t1 MTR_7g009970 45.631 103 47 3 1 100 669 765 3.13e-20 84.7
MS.gene024134.t1 MTR_7g096980 38.938 113 68 1 1 113 1108 1219 4.14e-20 84.3
MS.gene024134.t1 MTR_7g007630 45.545 101 50 2 1 100 666 762 1.74e-19 82.8
MS.gene024134.t1 MTR_7g407130 44.554 101 51 2 1 100 696 792 6.18e-19 81.3
MS.gene024134.t1 MTR_4g037015 44.211 95 49 2 1 95 777 867 3.46e-18 79.0
MS.gene024134.t1 MTR_7g028432 44.211 95 49 2 1 95 853 943 3.80e-18 79.0
MS.gene024134.t1 MTR_7g013680 44.231 104 47 3 1 100 619 715 8.29e-18 77.8
MS.gene024134.t1 MTR_4g037720 45.263 95 44 2 1 93 848 936 1.03e-17 77.8
MS.gene024134.t1 MTR_7g407090 43.564 101 52 2 1 100 651 747 3.60e-17 75.9
MS.gene024134.t1 MTR_7g007620 47.525 101 48 2 1 100 620 716 4.11e-17 75.9
MS.gene024134.t1 MTR_7g446190 48.148 81 41 1 1 80 815 895 9.72e-17 74.7
MS.gene024134.t1 MTR_7g013350 42.574 101 53 2 1 100 295 391 7.24e-16 72.0
MS.gene024134.t1 MTR_8g047160 52.874 87 36 2 1 86 531 613 1.64e-15 71.2
MS.gene024134.t1 MTR_0491s0030 51.087 92 40 2 1 91 704 791 2.55e-15 70.9
MS.gene024134.t1 MTR_8g047230 47.826 92 43 2 1 91 875 962 3.92e-15 70.1
MS.gene024134.t1 MTR_8g047210 50.000 92 41 2 1 91 768 855 1.66e-14 68.6
MS.gene024134.t1 MTR_8g047220 50.000 92 41 2 1 91 831 918 1.66e-14 68.6
MS.gene024134.t1 MTR_2g070020 38.235 102 48 3 1 93 987 1082 2.57e-14 67.8
MS.gene024134.t1 MTR_3g093930 37.255 102 59 3 1 99 879 978 5.67e-14 67.0
MS.gene024134.t1 MTR_7g022160 37.864 103 59 2 1 100 909 1009 1.17e-13 66.2
MS.gene024134.t1 MTR_7g010010 39.423 104 33 3 1 100 616 693 2.05e-13 65.5
MS.gene024134.t1 MTR_7g022050 38.614 101 57 2 1 98 534 632 3.97e-13 64.3
MS.gene024134.t1 MTR_0007s0390 38.614 101 51 3 2 94 559 656 4.91e-13 64.3
MS.gene024134.t1 MTR_5g011410 34.043 94 55 2 4 93 792 882 3.82e-12 61.6
MS.gene024134.t1 MTR_1g047670 36.000 100 55 2 1 93 989 1086 4.79e-12 61.6
MS.gene024134.t1 MTR_8g035560 34.906 106 58 3 2 99 559 661 8.78e-12 60.8
MS.gene024134.t1 MTR_1g080440 31.000 100 66 1 1 97 888 987 2.68e-11 59.3
MS.gene024134.t1 MTR_4g088320 36.000 100 49 3 1 93 875 966 4.66e-11 58.5
MS.gene024134.t1 MTR_6g088790 39.048 105 58 3 1 102 884 985 6.95e-11 58.2
MS.gene024134.t1 MTR_1g079520 32.353 102 58 2 1 94 946 1044 7.83e-11 58.2
MS.gene024134.t1 MTR_7g073290 32.710 107 67 2 1 104 846 950 9.00e-11 57.8
MS.gene024134.t1 MTR_1g040625 38.710 93 51 4 8 95 478 569 9.48e-11 57.8
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene024134.t1 AT4G08850 47.674 86 42 1 1 86 955 1037 1.67e-19 82.8
MS.gene024134.t1 AT1G35710 48.315 89 36 4 1 86 1031 1112 5.60e-17 75.5
MS.gene024134.t1 AT4G25390 38.776 98 50 2 3 93 530 624 3.78e-14 67.4
MS.gene024134.t1 AT1G17230 38.235 102 50 3 1 94 977 1073 6.22e-14 67.0
MS.gene024134.t1 AT1G17230 38.235 102 50 3 1 94 977 1073 7.40e-14 66.6
MS.gene024134.t1 AT1G12460 37.113 97 54 2 1 93 641 734 3.68e-13 64.7
MS.gene024134.t1 AT1G12460 37.113 97 54 2 1 93 780 873 4.40e-13 64.3
MS.gene024134.t1 AT3G28040 33.981 103 63 2 1 100 908 1008 8.35e-13 63.5
MS.gene024134.t1 AT5G51770 34.906 106 58 2 2 99 527 629 2.28e-12 62.4
MS.gene024134.t1 AT1G07650 35.780 109 49 5 3 100 645 743 5.31e-12 61.2
MS.gene024134.t1 AT1G07650 35.780 109 49 5 3 100 864 962 6.30e-12 61.2
MS.gene024134.t1 AT1G07650 35.780 109 49 5 3 100 858 956 6.61e-12 61.2
MS.gene024134.t1 AT1G07650 35.780 109 49 5 3 100 832 930 7.14e-12 60.8
MS.gene024134.t1 AT5G63930 36.842 114 60 3 1 107 983 1091 1.36e-11 60.1
MS.gene024134.t1 AT5G63930 36.842 114 60 3 1 107 919 1027 1.47e-11 60.1
MS.gene024134.t1 AT1G62950 33.333 99 59 2 1 95 788 883 1.68e-11 60.1
MS.gene024134.t1 AT3G56370 35.294 102 61 3 1 99 855 954 2.03e-11 59.7
MS.gene024134.t1 AT5G01890 31.373 102 65 2 1 99 863 962 2.54e-11 59.3
MS.gene024134.t1 AT2G33170 36.634 101 52 3 1 93 1003 1099 2.67e-11 59.3
MS.gene024134.t1 AT2G33170 36.634 101 52 3 1 93 1003 1099 2.67e-11 59.3
MS.gene024134.t1 AT5G57670 29.524 105 72 1 3 107 446 548 3.01e-11 59.3
MS.gene024134.t1 AT5G05160 33.673 98 57 2 3 93 517 613 4.58e-11 58.5
MS.gene024134.t1 AT2G45590 30.476 105 62 2 3 99 558 659 6.60e-11 58.2
MS.gene024134.t1 AT3G49670 34.862 109 63 4 1 104 868 973 8.50e-11 57.8
MS.gene024134.t1 AT5G62710 38.947 95 51 2 3 93 457 548 9.84e-11 57.8

Find 21 sgRNAs with CRISPR-Local

Find 23 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
ACTTGCTTTGGAAATCATAA+TGG 0.280746 7.1:-23414853 MS.gene024134:CDS
CTTGCTTTGGAAATCATAAT+GGG 0.363369 7.1:-23414852 MS.gene024134:CDS
AAATGTGATGTATACAGTTT+TGG 0.382117 7.1:-23414879 MS.gene024134:CDS
TCAGCCGTTGGCCTTGTAGA+TGG 0.390806 7.1:+23414792 None:intergenic
GGTTATCTTGATAACGAGAT+TGG 0.429603 7.1:-23414703 MS.gene024134:CDS
AATAATGAAATGAGATCTCC+TGG 0.442923 7.1:+23414822 None:intergenic
GTATGTAAGATGCTTGCAAT+AGG 0.446558 7.1:-23414630 MS.gene024134:CDS
AAGATAACCTCCTCATCAAT+TGG 0.453196 7.1:+23414717 None:intergenic
TGCAATAGGAAAATCACCTT+TGG 0.457045 7.1:-23414616 MS.gene024134:CDS
AATAGGAAAATCACCTTTGG+TGG 0.490438 7.1:-23414613 MS.gene024134:CDS
TCCACTTTCTCGACCAAGCA+TGG 0.511681 7.1:-23414658 MS.gene024134:CDS
TCCATGCTTGGTCGAGAAAG+TGG 0.513633 7.1:+23414657 None:intergenic
TTACATACTTGATCCATGCT+TGG 0.517553 7.1:+23414645 None:intergenic
ATCATAATGGGAAAACATCC+AGG 0.526873 7.1:-23414840 MS.gene024134:CDS
CAACTTCACATGATAAGACT+AGG 0.551390 7.1:-23414585 MS.gene024134:CDS
TGAAGTTGCTTTCCCACCAA+AGG 0.564942 7.1:+23414600 None:intergenic
TATAGAACCAATTGATGAGG+AGG 0.587662 7.1:-23414724 MS.gene024134:CDS
GTCACCATCTACAAGGCCAA+CGG 0.597759 7.1:-23414796 MS.gene024134:CDS
AACAACATATTATCAGCCGT+TGG 0.606170 7.1:+23414780 None:intergenic
ATAGGAAAATCACCTTTGGT+GGG 0.631051 7.1:-23414612 MS.gene024134:CDS
AGTTATAGAACCAATTGATG+AGG 0.644557 7.1:-23414727 MS.gene024134:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AAATGTGATGTATACAGTTT+TGG - chr7.1:23414587-23414606 MS.gene024134:CDS 25.0%
AATAATGAAATGAGATCTCC+TGG + chr7.1:23414647-23414666 None:intergenic 30.0%
AGTTATAGAACCAATTGATG+AGG - chr7.1:23414739-23414758 MS.gene024134:CDS 30.0%
!! ACTTGCTTTGGAAATCATAA+TGG - chr7.1:23414613-23414632 MS.gene024134:CDS 30.0%
!! CTTGCTTTGGAAATCATAAT+GGG - chr7.1:23414614-23414633 MS.gene024134:CDS 30.0%
!! TATTTTTGTCACCATCTACA+AGG - chr7.1:23414663-23414682 MS.gene024134:CDS 30.0%
AACAACATATTATCAGCCGT+TGG + chr7.1:23414689-23414708 None:intergenic 35.0%
AAGATAACCTCCTCATCAAT+TGG + chr7.1:23414752-23414771 None:intergenic 35.0%
AATAGGAAAATCACCTTTGG+TGG - chr7.1:23414853-23414872 MS.gene024134:CDS 35.0%
ATAGGAAAATCACCTTTGGT+GGG - chr7.1:23414854-23414873 MS.gene024134:CDS 35.0%
CAACTTCACATGATAAGACT+AGG - chr7.1:23414881-23414900 MS.gene024134:CDS 35.0%
GTATGTAAGATGCTTGCAAT+AGG - chr7.1:23414836-23414855 MS.gene024134:CDS 35.0%
TATAGAACCAATTGATGAGG+AGG - chr7.1:23414742-23414761 MS.gene024134:CDS 35.0%
TGCAATAGGAAAATCACCTT+TGG - chr7.1:23414850-23414869 MS.gene024134:CDS 35.0%
TTACATACTTGATCCATGCT+TGG + chr7.1:23414824-23414843 None:intergenic 35.0%
! ATCATAATGGGAAAACATCC+AGG - chr7.1:23414626-23414645 MS.gene024134:CDS 35.0%
!! GGTTATCTTGATAACGAGAT+TGG - chr7.1:23414763-23414782 MS.gene024134:CDS 35.0%
!!! CAGTTTTGGAGTACTTGCTT+TGG - chr7.1:23414601-23414620 MS.gene024134:CDS 40.0%
! TGAAGTTGCTTTCCCACCAA+AGG + chr7.1:23414869-23414888 None:intergenic 45.0%
GTCACCATCTACAAGGCCAA+CGG - chr7.1:23414670-23414689 MS.gene024134:CDS 50.0%
TCCACTTTCTCGACCAAGCA+TGG - chr7.1:23414808-23414827 MS.gene024134:CDS 50.0%
TCCATGCTTGGTCGAGAAAG+TGG + chr7.1:23414812-23414831 None:intergenic 50.0%
!! TCAGCCGTTGGCCTTGTAGA+TGG + chr7.1:23414677-23414696 None:intergenic 55.0%


Chromosome Type Strat End Strand Name
chr7.1 gene 23414572 23414916 23414572 ID=MS.gene024134
chr7.1 mRNA 23414572 23414916 23414572 ID=MS.gene024134.t1;Parent=MS.gene024134
chr7.1 exon 23414572 23414916 23414572 ID=MS.gene024134.t1.exon1;Parent=MS.gene024134.t1
chr7.1 CDS 23414572 23414916 23414572 ID=cds.MS.gene024134.t1;Parent=MS.gene024134.t1
Gene Sequence

>MS.gene024134

ATGGAAGTGAATGAGAAATGTGATGTATACAGTTTTGGAGTACTTGCTTTGGAAATCATAATGGGAAAACATCCAGGAGATCTCATTTCATTATTTTTGTCACCATCTACAAGGCCAACGGCTGATAATATGTTGTTGATAGATGTTTTAGATCAACGACTTCAACAAGTTATAGAACCAATTGATGAGGAGGTTATCTTGATAACGAGATTGGCATTTGCTTGCTTGAGTCAGAATCCACTTTCTCGACCAAGCATGGATCAAGTATGTAAGATGCTTGCAATAGGAAAATCACCTTTGGTGGGAAAGCAACTTCACATGATAAGACTAGGACAACTTCACTAA
Protein sequence

>MS.gene024134.t1

MEVNEKCDVYSFGVLALEIIMGKHPGDLISLFLSPSTRPTADNMLLIDVLDQRLQQVIEPIDEEVILITRLAFACLSQNPLSRPSMDQVCKMLAIGKSPLVGKQLHMIRLGQLH