AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene55083

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene55083.t1 MTR_7g481630 83.333 114 19 0 1 114 80 193 4.46e-64 192
MS.gene55083.t1 MTR_7g081410 89.474 114 12 0 1 114 826 939 2.74e-63 206
MS.gene55083.t1 MTR_7g081410 89.474 114 12 0 1 114 946 1059 4.84e-63 206
MS.gene55083.t1 MTR_7g481590 83.333 114 19 0 1 114 203 316 2.37e-62 192
MS.gene55083.t1 MTR_7g081570 84.211 114 18 0 1 114 939 1052 3.42e-59 196
MS.gene55083.t1 MTR_7g081480 79.825 114 22 1 1 114 949 1061 4.20e-56 187
MS.gene55083.t1 MTR_7g081780 72.566 113 30 1 1 113 947 1058 3.07e-49 167
MS.gene55083.t1 MTR_7g081720 60.345 116 43 2 1 114 964 1078 1.24e-35 128
MS.gene55083.t1 MTR_1g039080 57.282 103 43 1 1 102 192 294 4.60e-34 119
MS.gene55083.t1 MTR_8g445960 55.556 99 43 1 1 98 63 161 3.33e-33 114
MS.gene55083.t1 MTR_8g044940 55.556 99 43 1 1 98 63 161 3.33e-33 114
MS.gene55083.t1 MTR_5g085700 58.036 112 46 1 2 113 921 1031 4.70e-33 121
MS.gene55083.t1 MTR_1g038890 59.596 99 39 1 1 98 1033 1131 8.22e-33 120
MS.gene55083.t1 MTR_1g039310 58.763 97 39 1 3 98 1051 1147 1.46e-31 117
MS.gene55083.t1 MTR_7g045510 56.522 92 38 1 2 93 1091 1180 5.69e-28 107
MS.gene55083.t1 MTR_0400s0030 55.556 99 43 1 1 98 791 889 6.41e-28 106
MS.gene55083.t1 MTR_0365s0020 55.556 99 43 1 1 98 791 889 6.41e-28 106
MS.gene55083.t1 MTR_1g040545 53.535 99 42 2 1 95 907 1005 9.52e-28 106
MS.gene55083.t1 MTR_7g039330 56.522 92 38 1 2 93 1189 1278 1.28e-27 105
MS.gene55083.t1 MTR_1g039240 51.515 99 44 1 1 95 1058 1156 1.50e-27 105
MS.gene55083.t1 MTR_0400s0040 51.515 99 44 1 1 95 1058 1156 4.12e-27 104
MS.gene55083.t1 MTR_0365s0030 51.515 99 44 1 1 95 1058 1156 4.12e-27 104
MS.gene55083.t1 MTR_1g040525 53.684 95 40 2 1 91 767 861 1.04e-26 103
MS.gene55083.t1 MTR_1g040615 51.515 99 44 2 1 95 2024 2122 1.71e-26 102
MS.gene55083.t1 MTR_1g040615 53.191 94 36 3 1 88 1025 1116 5.45e-24 95.5
MS.gene55083.t1 MTR_1g039220 52.525 99 43 2 1 95 1032 1130 1.80e-25 99.8
MS.gene55083.t1 MTR_7g045860 51.042 96 45 1 2 97 984 1077 2.67e-25 99.4
MS.gene55083.t1 MTR_7g045710 52.688 93 39 1 2 94 972 1059 4.01e-25 98.6
MS.gene55083.t1 MTR_7g446160 51.064 94 45 1 1 93 887 980 1.55e-23 94.4
MS.gene55083.t1 MTR_7g050990 49.495 99 46 2 1 95 819 917 3.08e-23 93.2
MS.gene55083.t1 MTR_7g009940 51.515 99 43 2 3 100 700 794 3.36e-23 93.2
MS.gene55083.t1 MTR_7g051040 48.000 100 47 1 1 95 843 942 4.42e-23 92.8
MS.gene55083.t1 MTR_7g007540 47.525 101 48 2 1 100 1 97 4.88e-23 86.7
MS.gene55083.t1 MTR_7g007560 46.491 114 55 3 1 113 653 761 1.42e-21 88.6
MS.gene55083.t1 MTR_7g010000 47.115 104 44 3 1 100 746 842 2.28e-20 85.1
MS.gene55083.t1 MTR_7g009970 45.631 103 47 3 1 100 669 765 3.13e-20 84.7
MS.gene55083.t1 MTR_7g096980 38.938 113 68 1 1 113 1108 1219 6.85e-20 84.0
MS.gene55083.t1 MTR_7g007630 45.545 101 50 2 1 100 666 762 1.60e-19 82.8
MS.gene55083.t1 MTR_7g407130 44.554 101 51 2 1 100 696 792 6.30e-19 80.9
MS.gene55083.t1 MTR_4g037015 44.211 95 49 2 1 95 777 867 3.78e-18 79.0
MS.gene55083.t1 MTR_7g028432 44.211 95 49 2 1 95 853 943 4.99e-18 78.6
MS.gene55083.t1 MTR_7g013680 44.231 104 47 3 1 100 619 715 7.45e-18 78.2
MS.gene55083.t1 MTR_4g037720 45.263 95 44 2 1 93 848 936 1.38e-17 77.4
MS.gene55083.t1 MTR_7g407090 43.564 101 52 2 1 100 651 747 3.24e-17 76.3
MS.gene55083.t1 MTR_7g007620 47.525 101 48 2 1 100 620 716 4.15e-17 75.9
MS.gene55083.t1 MTR_7g446190 48.148 81 41 1 1 80 815 895 1.11e-16 74.7
MS.gene55083.t1 MTR_7g013350 42.574 101 53 2 1 100 295 391 5.72e-16 72.4
MS.gene55083.t1 MTR_8g047230 51.087 92 40 2 1 91 875 962 1.31e-15 71.6
MS.gene55083.t1 MTR_8g047160 52.874 87 36 2 1 86 531 613 1.60e-15 71.2
MS.gene55083.t1 MTR_0491s0030 51.087 92 40 2 1 91 704 791 2.84e-15 70.5
MS.gene55083.t1 MTR_8g047210 50.000 92 41 2 1 91 768 855 1.59e-14 68.6
MS.gene55083.t1 MTR_8g047220 50.000 92 41 2 1 91 831 918 1.65e-14 68.6
MS.gene55083.t1 MTR_2g070020 38.235 102 48 3 1 93 987 1082 2.08e-14 68.2
MS.gene55083.t1 MTR_3g093930 37.255 102 59 3 1 99 879 978 7.44e-14 66.6
MS.gene55083.t1 MTR_7g022160 37.864 103 59 2 1 100 909 1009 1.01e-13 66.2
MS.gene55083.t1 MTR_7g010010 39.423 104 33 3 1 100 616 693 2.18e-13 65.1
MS.gene55083.t1 MTR_7g022050 38.614 101 57 2 1 98 534 632 4.29e-13 64.3
MS.gene55083.t1 MTR_0007s0390 38.614 101 51 3 2 94 559 656 4.91e-13 64.3
MS.gene55083.t1 MTR_5g011410 34.043 94 55 2 4 93 792 882 4.50e-12 61.6
MS.gene55083.t1 MTR_1g047670 36.000 100 55 2 1 93 989 1086 5.59e-12 61.2
MS.gene55083.t1 MTR_8g035560 34.906 106 58 3 2 99 559 661 8.78e-12 60.8
MS.gene55083.t1 MTR_1g080440 31.000 100 66 1 1 97 888 987 2.96e-11 59.3
MS.gene55083.t1 MTR_4g088320 36.000 100 49 3 1 93 875 966 5.89e-11 58.2
MS.gene55083.t1 MTR_1g079520 32.353 102 58 2 1 94 946 1044 6.58e-11 58.2
MS.gene55083.t1 MTR_6g088790 39.048 105 58 3 1 102 884 985 7.23e-11 58.2
MS.gene55083.t1 MTR_1g040625 38.710 93 51 4 8 95 478 569 8.12e-11 57.8
MS.gene55083.t1 MTR_7g073290 32.710 107 67 2 1 104 846 950 8.49e-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.gene55083.t1 AT4G08850 47.674 86 42 1 1 86 955 1037 1.67e-19 82.8
MS.gene55083.t1 AT1G35710 46.512 86 42 2 1 86 1031 1112 6.29e-17 75.5
MS.gene55083.t1 AT4G25390 38.776 98 50 2 3 93 530 624 3.71e-14 67.4
MS.gene55083.t1 AT1G17230 38.235 102 50 3 1 94 977 1073 5.43e-14 67.0
MS.gene55083.t1 AT1G17230 38.235 102 50 3 1 94 977 1073 5.48e-14 67.0
MS.gene55083.t1 AT1G12460 37.113 97 54 2 1 93 641 734 4.26e-13 64.3
MS.gene55083.t1 AT1G12460 37.113 97 54 2 1 93 780 873 5.09e-13 64.3
MS.gene55083.t1 AT3G28040 33.981 103 63 2 1 100 908 1008 7.81e-13 63.9
MS.gene55083.t1 AT5G51770 34.906 106 58 2 2 99 527 629 1.86e-12 62.8
MS.gene55083.t1 AT1G07650 35.780 109 49 5 3 100 645 743 5.31e-12 61.2
MS.gene55083.t1 AT1G07650 35.780 109 49 5 3 100 864 962 6.62e-12 61.2
MS.gene55083.t1 AT1G07650 35.780 109 49 5 3 100 858 956 6.87e-12 61.2
MS.gene55083.t1 AT1G07650 35.780 109 49 5 3 100 832 930 7.56e-12 60.8
MS.gene55083.t1 AT5G63930 36.842 114 60 3 1 107 983 1091 9.34e-12 60.8
MS.gene55083.t1 AT5G63930 36.842 114 60 3 1 107 919 1027 1.04e-11 60.5
MS.gene55083.t1 AT3G56370 35.294 102 61 3 1 99 855 954 1.78e-11 59.7
MS.gene55083.t1 AT1G62950 33.333 99 59 2 1 95 788 883 1.78e-11 59.7
MS.gene55083.t1 AT2G33170 36.634 101 52 3 1 93 1003 1099 2.18e-11 59.7
MS.gene55083.t1 AT2G33170 36.634 101 52 3 1 93 1003 1099 2.18e-11 59.7
MS.gene55083.t1 AT5G57670 29.524 105 72 1 3 107 446 548 2.63e-11 59.3
MS.gene55083.t1 AT5G01890 31.373 102 65 2 1 99 863 962 3.47e-11 58.9
MS.gene55083.t1 AT5G05160 33.673 98 57 2 3 93 517 613 4.16e-11 58.9
MS.gene55083.t1 AT2G45590 30.476 105 62 2 3 99 558 659 6.93e-11 58.2
MS.gene55083.t1 AT3G49670 34.862 109 63 4 1 104 868 973 9.19e-11 57.8
MS.gene55083.t1 AT5G62710 38.542 96 52 2 2 93 456 548 9.19e-11 57.8

Find 22 sgRNAs with CRISPR-Local

Find 24 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
ACTTGCTTTGGAAATCATAA+TGG 0.280746 7.2:-25454492 MS.gene55083:CDS
CTTGCTTTGGAAATCATAAT+GGG 0.363369 7.2:-25454491 MS.gene55083:CDS
AAATGTGATGTATACAGTTT+TGG 0.382117 7.2:-25454518 MS.gene55083:CDS
TCAGCCGTTGGCCTTGTAGA+TGG 0.390806 7.2:+25454431 None:intergenic
GGTTATCTTGATAACGAGAT+TGG 0.429603 7.2:-25454342 MS.gene55083:CDS
GTATGTAAGATGCTTGCAAT+AGG 0.446558 7.2:-25454269 MS.gene55083:CDS
AAGATAACCTCCTCATCAAT+TGG 0.453196 7.2:+25454356 None:intergenic
TGCAATAGGAAAATCACCTT+TGG 0.457045 7.2:-25454255 MS.gene55083:CDS
GGAAAGCAACTTCACATGAT+AGG 0.477418 7.2:-25454230 MS.gene55083:CDS
AATAGGAAAATCACCTTTGG+TGG 0.490438 7.2:-25454252 MS.gene55083:CDS
TCCACTTTCTCGACCAAGCA+TGG 0.511681 7.2:-25454297 MS.gene55083:CDS
TCCATGCTTGGTCGAGAAAG+TGG 0.513633 7.2:+25454296 None:intergenic
TTACATACTTGATCCATGCT+TGG 0.517553 7.2:+25454284 None:intergenic
ATCATAATGGGAAAACATCC+AGG 0.528040 7.2:-25454479 MS.gene55083:CDS
CAACTTCACATGATAGGACT+AGG 0.530333 7.2:-25454224 MS.gene55083:CDS
TGAAGTTGCTTTCCCACCAA+AGG 0.564942 7.2:+25454239 None:intergenic
AATAATGAAATGAGATCACC+TGG 0.570360 7.2:+25454461 None:intergenic
TATAGAACCAATTGATGAGG+AGG 0.587662 7.2:-25454363 MS.gene55083:CDS
GTCACCATCTACAAGGCCAA+CGG 0.597759 7.2:-25454435 MS.gene55083:CDS
AACAACATATTATCAGCCGT+TGG 0.606170 7.2:+25454419 None:intergenic
ATAGGAAAATCACCTTTGGT+GGG 0.631051 7.2:-25454251 MS.gene55083:CDS
AGTTATAGAACCAATTGATG+AGG 0.644557 7.2:-25454366 MS.gene55083:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AAATGTGATGTATACAGTTT+TGG - chr7.2:25454226-25454245 MS.gene55083:CDS 25.0%
AATAATGAAATGAGATCACC+TGG + chr7.2:25454286-25454305 None:intergenic 30.0%
AGTTATAGAACCAATTGATG+AGG - chr7.2:25454378-25454397 MS.gene55083:CDS 30.0%
!! ACTTGCTTTGGAAATCATAA+TGG - chr7.2:25454252-25454271 MS.gene55083:CDS 30.0%
!! CTTGCTTTGGAAATCATAAT+GGG - chr7.2:25454253-25454272 MS.gene55083:CDS 30.0%
!! TATTTTTGTCACCATCTACA+AGG - chr7.2:25454302-25454321 MS.gene55083:CDS 30.0%
AACAACATATTATCAGCCGT+TGG + chr7.2:25454328-25454347 None:intergenic 35.0%
AAGATAACCTCCTCATCAAT+TGG + chr7.2:25454391-25454410 None:intergenic 35.0%
AATAGGAAAATCACCTTTGG+TGG - chr7.2:25454492-25454511 MS.gene55083:CDS 35.0%
ATAGGAAAATCACCTTTGGT+GGG - chr7.2:25454493-25454512 MS.gene55083:CDS 35.0%
GTATGTAAGATGCTTGCAAT+AGG - chr7.2:25454475-25454494 MS.gene55083:CDS 35.0%
TATAGAACCAATTGATGAGG+AGG - chr7.2:25454381-25454400 MS.gene55083:CDS 35.0%
TGCAATAGGAAAATCACCTT+TGG - chr7.2:25454489-25454508 MS.gene55083:CDS 35.0%
TTACATACTTGATCCATGCT+TGG + chr7.2:25454463-25454482 None:intergenic 35.0%
! ATCATAATGGGAAAACATCC+AGG - chr7.2:25454265-25454284 MS.gene55083:CDS 35.0%
!! GGTTATCTTGATAACGAGAT+TGG - chr7.2:25454402-25454421 MS.gene55083:CDS 35.0%
CAACTTCACATGATAGGACT+AGG - chr7.2:25454520-25454539 MS.gene55083:CDS 40.0%
GGAAAGCAACTTCACATGAT+AGG - chr7.2:25454514-25454533 MS.gene55083:CDS 40.0%
!!! CAGTTTTGGAGTACTTGCTT+TGG - chr7.2:25454240-25454259 MS.gene55083:CDS 40.0%
! TGAAGTTGCTTTCCCACCAA+AGG + chr7.2:25454508-25454527 None:intergenic 45.0%
GTCACCATCTACAAGGCCAA+CGG - chr7.2:25454309-25454328 MS.gene55083:CDS 50.0%
TCCACTTTCTCGACCAAGCA+TGG - chr7.2:25454447-25454466 MS.gene55083:CDS 50.0%
TCCATGCTTGGTCGAGAAAG+TGG + chr7.2:25454451-25454470 None:intergenic 50.0%
!! TCAGCCGTTGGCCTTGTAGA+TGG + chr7.2:25454316-25454335 None:intergenic 55.0%


Chromosome Type Strat End Strand Name
chr7.2 gene 25454211 25454555 25454211 ID=MS.gene55083
chr7.2 mRNA 25454211 25454555 25454211 ID=MS.gene55083.t1;Parent=MS.gene55083
chr7.2 exon 25454211 25454555 25454211 ID=MS.gene55083.t1.exon1;Parent=MS.gene55083.t1
chr7.2 CDS 25454211 25454555 25454211 ID=cds.MS.gene55083.t1;Parent=MS.gene55083.t1
Gene Sequence

>MS.gene55083

ATGGAAGTGAATGAGAAATGTGATGTATACAGTTTTGGAGTACTTGCTTTGGAAATCATAATGGGAAAACATCCAGGTGATCTCATTTCATTATTTTTGTCACCATCTACAAGGCCAACGGCTGATAATATGTTGTTGATAGATGTTTTAGATCAACGACTTCAACAAGTTATAGAACCAATTGATGAGGAGGTTATCTTGATAACGAGATTGGCATTTGCTTGCTTGAGTCAGAATCCACTTTCTCGACCAAGCATGGATCAAGTATGTAAGATGCTTGCAATAGGAAAATCACCTTTGGTGGGAAAGCAACTTCACATGATAGGACTAGGACAACTTCACTAA
Protein sequence

>MS.gene55083.t1

MEVNEKCDVYSFGVLALEIIMGKHPGDLISLFLSPSTRPTADNMLLIDVLDQRLQQVIEPIDEEVILITRLAFACLSQNPLSRPSMDQVCKMLAIGKSPLVGKQLHMIGLGQLH