AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene016525

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene016525.t1 MTR_8g040900 92.903 155 9 1 1 155 1 153 1.56e-94 273
MS.gene016525.t1 MTR_4g105170 68.000 125 40 0 5 129 9 133 1.85e-59 183
MS.gene016525.t1 MTR_7g033800 55.090 167 64 2 2 157 6 172 8.15e-59 181
MS.gene016525.t1 MTR_3g077240 75.221 113 25 1 1 110 1 113 1.88e-58 181
MS.gene016525.t1 MTR_5g017950 73.394 109 29 0 2 110 3 111 1.62e-54 174
MS.gene016525.t1 MTR_6g005070 69.027 113 33 1 1 111 1 113 3.17e-54 168
MS.gene016525.t1 MTR_6g005080 68.750 112 33 1 1 110 2 113 1.32e-53 166
MS.gene016525.t1 MTR_3g452660 69.091 110 34 0 1 110 1 110 2.96e-51 166
MS.gene016525.t1 MTR_3g073690 67.568 111 35 1 1 110 2 112 3.64e-49 157
MS.gene016525.t1 MTR_5g083230 65.049 103 36 0 5 107 4 106 4.14e-47 151
MS.gene016525.t1 MTR_3g031660 62.617 107 40 0 1 107 1 107 1.86e-46 149
MS.gene016525.t1 MTR_4g083680 58.333 120 48 1 6 123 14 133 8.99e-46 148
MS.gene016525.t1 MTR_5g083010 61.321 106 41 0 4 109 8 113 1.41e-43 142
MS.gene016525.t1 MTR_2g068760 60.784 102 40 0 6 107 12 113 6.12e-43 140
MS.gene016525.t1 MTR_3g071590 59.048 105 43 0 3 107 4 108 3.28e-42 138
MS.gene016525.t1 MTR_5g083960 55.963 109 48 0 3 111 35 143 5.15e-42 139
MS.gene016525.t1 MTR_3g071420 61.386 101 39 0 4 104 11 111 1.94e-41 137
MS.gene016525.t1 MTR_3g094690 56.604 106 46 0 6 111 46 151 5.20e-41 137
MS.gene016525.t1 MTR_3g094690 56.604 106 45 1 6 111 46 150 5.88e-39 132
MS.gene016525.t1 MTR_2g093310 54.717 106 48 0 6 111 32 137 6.65e-39 131
MS.gene016525.t1 MTR_5g075020 58.491 106 44 0 6 111 42 147 4.86e-38 130
MS.gene016525.t1 MTR_5g075020 58.491 106 44 0 6 111 46 151 8.48e-38 129
MS.gene016525.t1 MTR_7g096530 56.897 116 42 2 1 108 1 116 4.59e-37 127
MS.gene016525.t1 MTR_8g079660 43.357 143 76 2 7 144 8 150 1.66e-36 127
MS.gene016525.t1 MTR_4g060950 55.340 103 45 1 6 107 23 125 2.12e-36 124
MS.gene016525.t1 MTR_1g095850 57.000 100 43 0 8 107 73 172 1.77e-35 123
MS.gene016525.t1 MTR_7g028905 50.485 103 51 0 6 108 4 106 1.12e-34 117
MS.gene016525.t1 MTR_8g036085 52.830 106 49 1 7 111 23 128 1.42e-33 118
MS.gene016525.t1 MTR_1g070220 54.286 105 47 1 3 106 11 115 1.86e-33 117
MS.gene016525.t1 MTR_8g036105 53.043 115 53 1 7 120 18 132 7.05e-33 116
MS.gene016525.t1 MTR_8g079620 41.958 143 78 2 7 144 8 150 5.73e-32 114
MS.gene016525.t1 MTR_7g074990 54.902 102 45 1 7 107 20 121 8.90e-31 111
MS.gene016525.t1 MTR_4g107450 48.000 100 52 0 8 107 11 110 3.10e-30 111
MS.gene016525.t1 MTR_5g093010 43.478 115 63 1 8 120 6 120 3.20e-30 107
MS.gene016525.t1 MTR_6g027710 49.515 103 51 1 6 107 39 141 3.37e-30 109
MS.gene016525.t1 MTR_5g080470 49.505 101 50 1 1 100 1 101 1.20e-29 107
MS.gene016525.t1 MTR_6g011250 43.860 114 56 2 1 113 3 109 1.63e-28 104
MS.gene016525.t1 MTR_7g096610 53.465 101 46 1 1 100 2 102 1.77e-28 105
MS.gene016525.t1 MTR_6g011200 41.270 126 65 3 5 121 7 132 2.71e-28 105
MS.gene016525.t1 MTR_6g011230 44.330 97 54 0 8 104 12 108 7.48e-28 103
MS.gene016525.t1 MTR_1g070205 48.246 114 56 2 7 119 12 123 1.45e-27 103
MS.gene016525.t1 MTR_8g079580 45.455 110 59 1 7 115 8 117 5.04e-27 101
MS.gene016525.t1 MTR_4g099230 36.486 148 90 3 8 152 3 149 6.21e-27 99.4
MS.gene016525.t1 MTR_7g075230 49.550 111 53 2 7 114 12 122 4.00e-26 98.6
MS.gene016525.t1 MTR_8g017090 40.385 104 62 0 8 111 13 116 5.92e-26 100
MS.gene016525.t1 MTR_6g027700 42.056 107 61 1 1 106 1 107 4.25e-25 96.3
MS.gene016525.t1 MTR_2g100020 39.604 101 61 0 8 108 20 120 1.67e-24 96.3
MS.gene016525.t1 MTR_5g085390 42.727 110 62 1 5 113 7 116 1.34e-22 90.1
MS.gene016525.t1 MTR_4g088035 33.721 86 57 0 8 93 7 92 3.03e-16 73.9
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene016525.t1 AT1G65620 83.065 124 21 0 2 125 4 127 6.97e-66 200
MS.gene016525.t1 AT1G65620 83.065 124 21 0 2 125 4 127 6.97e-66 200
MS.gene016525.t1 AT1G65620 83.065 124 21 0 2 125 4 127 6.97e-66 200
MS.gene016525.t1 AT1G65620 83.065 124 21 0 2 125 4 127 6.97e-66 200
MS.gene016525.t1 AT1G65620 83.065 124 21 0 2 125 4 127 6.97e-66 200
MS.gene016525.t1 AT5G63090 70.248 121 35 1 3 123 7 126 8.69e-58 179
MS.gene016525.t1 AT5G63090 70.248 121 35 1 3 123 7 126 8.69e-58 179
MS.gene016525.t1 AT5G63090 70.248 121 35 1 3 123 7 126 8.69e-58 179
MS.gene016525.t1 AT5G63090 70.248 121 35 1 3 123 7 126 8.69e-58 179
MS.gene016525.t1 AT5G66870 75.455 110 27 0 1 110 1 110 2.23e-56 179
MS.gene016525.t1 AT3G27650 63.636 121 43 1 4 124 36 155 1.99e-54 169
MS.gene016525.t1 AT2G23660 70.192 104 31 0 4 107 2 105 8.16e-51 165
MS.gene016525.t1 AT2G23660 70.192 104 31 0 4 107 2 105 8.16e-51 165
MS.gene016525.t1 AT2G23660 70.192 104 31 0 4 107 2 105 8.16e-51 165
MS.gene016525.t1 AT2G30130 65.049 103 36 0 5 107 6 108 1.38e-46 150
MS.gene016525.t1 AT1G31320 69.318 88 27 0 6 93 12 99 1.79e-42 139
MS.gene016525.t1 AT2G30340 56.604 106 46 0 6 111 52 157 1.42e-41 140
MS.gene016525.t1 AT2G30340 57.692 104 44 0 6 109 51 154 1.65e-41 140
MS.gene016525.t1 AT1G07900 57.547 106 45 0 6 111 32 137 5.58e-40 134
MS.gene016525.t1 AT1G16530 57.798 109 45 1 6 113 13 121 3.07e-39 131
MS.gene016525.t1 AT3G11090 56.731 104 45 0 4 107 8 111 5.22e-39 130
MS.gene016525.t1 AT2G28500 56.604 106 46 0 6 111 54 159 1.84e-38 131
MS.gene016525.t1 AT2G40470 57.547 106 45 0 6 111 19 124 5.38e-38 129
MS.gene016525.t1 AT2G40470 51.200 125 60 1 6 129 44 168 1.04e-37 129
MS.gene016525.t1 AT3G26660 52.679 112 46 1 8 112 6 117 1.20e-37 125
MS.gene016525.t1 AT3G26620 54.455 101 46 0 8 108 6 106 1.59e-37 125
MS.gene016525.t1 AT3G03760 55.340 103 45 1 6 107 50 152 7.85e-34 120
MS.gene016525.t1 AT4G00210 54.630 108 48 1 7 113 11 118 1.62e-33 118
MS.gene016525.t1 AT3G50510 48.182 110 57 0 1 110 6 115 2.07e-33 117
MS.gene016525.t1 AT3G50510 48.182 110 57 0 1 110 6 115 2.07e-33 117
MS.gene016525.t1 AT2G42430 51.351 111 53 1 2 111 10 120 9.13e-33 117
MS.gene016525.t1 AT5G06080 50.450 111 54 1 1 110 1 111 6.66e-31 110
MS.gene016525.t1 AT4G00220 52.427 103 48 1 10 111 20 122 3.04e-30 110
MS.gene016525.t1 AT2G31310 49.091 110 55 1 1 109 1 110 3.21e-30 108
MS.gene016525.t1 AT2G45420 51.456 103 49 1 10 111 40 142 3.59e-30 110
MS.gene016525.t1 AT5G35900 49.505 101 51 0 8 108 6 106 3.96e-30 108
MS.gene016525.t1 AT2G45410 52.336 107 50 1 10 115 19 125 6.63e-30 108
MS.gene016525.t1 AT2G42440 47.273 110 57 1 1 109 1 110 1.51e-28 105
MS.gene016525.t1 AT3G58190 49.038 104 52 1 7 109 11 114 3.63e-28 104
MS.gene016525.t1 AT3G13850 40.952 105 62 0 8 112 37 141 1.20e-27 104
MS.gene016525.t1 AT3G47870 40.000 105 63 0 8 112 37 141 1.11e-25 100
MS.gene016525.t1 AT1G72980 37.838 111 69 0 4 114 10 120 2.52e-21 86.7
MS.gene016525.t1 AT4G22700 33.793 145 90 3 8 147 6 149 8.90e-21 84.7
MS.gene016525.t1 AT1G06280 39.080 87 53 0 8 94 25 111 9.02e-19 79.7
MS.gene016525.t1 AT2G19820 32.584 89 59 1 6 93 11 99 4.66e-15 67.8
MS.gene016525.t1 AT5G15060 39.726 73 42 1 8 78 18 90 1.40e-14 67.0
MS.gene016525.t1 AT3G27940 41.791 67 39 0 6 72 4 70 9.02e-12 60.1
MS.gene016525.t1 AT3G27940 41.791 67 39 0 6 72 4 70 9.02e-12 60.1
MS.gene016525.t1 AT3G27940 41.791 67 39 0 6 72 4 70 9.02e-12 60.1

Find 33 sgRNAs with CRISPR-Local

Find 54 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CGACTTCGTGATCCTGTTTA+TGG 0.153983 8.2:-59776122 MS.gene016525:CDS
CACATTCTGGTTGGCATTTG+CGG 0.315598 8.2:+59776297 None:intergenic
GTGCTAAATCCGAACTTTCT+CGG 0.374243 8.2:-59776037 MS.gene016525:CDS
TAAGGTGCAAATGCACATTC+TGG 0.376608 8.2:+59776284 None:intergenic
GGCTGATCAGGTGGAAAATA+AGG 0.377629 8.2:+59776266 None:intergenic
ATCGCAGCAGCAGCTACTGC+CGG 0.415834 8.2:-59775999 MS.gene016525:CDS
GCCGGTCATGGACTCATAAC+CGG 0.444703 8.2:-59775981 MS.gene016525:CDS
CATAGTGCTGCTGGTGGTGG+TGG 0.453028 8.2:-59775699 MS.gene016525:CDS
ACACCAACACAACCATAAAC+AGG 0.455574 8.2:+59776110 None:intergenic
CCAACTTCGTCAGCTTCAAA+TGG 0.466283 8.2:-59776069 MS.gene016525:CDS
CTTCAACATCATAGTGCTGC+TGG 0.473475 8.2:-59775708 MS.gene016525:CDS
GAATCTGTCACGGCCGCTGC+AGG 0.483621 8.2:-59775948 MS.gene016525:intron
GGACTCATAACCGGCATGAC+AGG 0.499561 8.2:-59775972 MS.gene016525:CDS
GCAGCAGCTACTGCCGGTCA+TGG 0.500625 8.2:-59775993 MS.gene016525:CDS
CATCATAGTGCTGCTGGTGG+TGG 0.501541 8.2:-59775702 MS.gene016525:CDS
GCTGACGAAGTTGGTGTTGA+AGG 0.501764 8.2:+59776078 None:intergenic
GCCGGTTATGAGTCCATGAC+CGG 0.516685 8.2:+59775980 None:intergenic
CCATTTGAAGCTGACGAAGT+TGG 0.517758 8.2:+59776069 None:intergenic
TGCTGCACATGGTGAATTTG+AGG 0.533620 8.2:+59776334 None:intergenic
GACAGATTCACCTGTCATGC+CGG 0.536335 8.2:+59775962 None:intergenic
GCTAGGAGCGGTTAACAGTA+CGG 0.540067 8.2:+59775667 None:intergenic
GATCCTGTTTATGGTTGTGT+TGG 0.542374 8.2:-59776113 MS.gene016525:CDS
CAGCATCTTCACGTTGGTGA+GGG 0.561735 8.2:+59776174 None:intergenic
ACAGCATCTTCACGTTGGTG+AGG 0.580209 8.2:+59776173 None:intergenic
GTGCAAATGCACATTCTGGT+TGG 0.592305 8.2:+59776288 None:intergenic
TGGTGAATTTGAGGATGCCA+TGG 0.633685 8.2:+59776343 None:intergenic
AGAAACTTGCATGCTGCACA+TGG 0.636607 8.2:+59776323 None:intergenic
CATGACAGGTGAATCTGTCA+CGG 0.646689 8.2:-59775958 MS.gene016525:CDS
AATTAACAGCATCTTCACGT+TGG 0.680722 8.2:+59776168 None:intergenic
GTGGTGGTAATTACCTGCAG+CGG 0.695355 8.2:+59775935 None:intergenic
TTAGAAACCCTAGCTAGGAG+CGG 0.696119 8.2:+59775655 None:intergenic
CAACATCATAGTGCTGCTGG+TGG 0.709794 8.2:-59775705 MS.gene016525:CDS
AGGAGCGGTTAACAGTACGG+AGG 0.803339 8.2:+59775670 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! AATTTGGTAAGAAATTTTGA+TGG - chr8.2:59776205-59776224 MS.gene016525:CDS 20.0%
! TCAACATCAACAACATAATT+TGG - chr8.2:59776189-59776208 MS.gene016525:CDS 25.0%
!! GCAAATGTTCATAGAATTTT+TGG - chr8.2:59775776-59775795 MS.gene016525:intron 25.0%
!! TGAACATTTGCAAATTTTTG+TGG + chr8.2:59775767-59775786 None:intergenic 25.0%
! ATGAATATTTCTGCTAGCTT+AGG - chr8.2:59776265-59776284 MS.gene016525:CDS 30.0%
!! TTGGTAAGAAATTTTGATGG+TGG - chr8.2:59776208-59776227 MS.gene016525:CDS 30.0%
!!! AACATCATCAGTTTTTTCCA+AGG - chr8.2:59776164-59776183 MS.gene016525:CDS 30.0%
!!! ACATCATCAGTTTTTTCCAA+GGG - chr8.2:59776165-59776184 MS.gene016525:CDS 30.0%
!!! AGAAATTTTGATGGTGGAAT+TGG - chr8.2:59776214-59776233 MS.gene016525:CDS 30.0%
!!! GAAATTTTGATGGTGGAATT+GGG - chr8.2:59776215-59776234 MS.gene016525:CDS 30.0%
AATTAACAGCATCTTCACGT+TGG + chr8.2:59775844-59775863 None:intergenic 35.0%
!! GATGATGATGTTGATAACGA+TGG + chr8.2:59776144-59776163 None:intergenic 35.0%
!!! GTTTTGAAACCGAGAAAGTT+CGG + chr8.2:59775984-59776003 None:intergenic 35.0%
ACACCAACACAACCATAAAC+AGG + chr8.2:59775902-59775921 None:intergenic 40.0%
GATCCTGTTTATGGTTGTGT+TGG - chr8.2:59775896-59775915 MS.gene016525:intron 40.0%
GTGCTAAATCCGAACTTTCT+CGG - chr8.2:59775972-59775991 MS.gene016525:CDS 40.0%
GTTACTGTTATTACCACCAC+CGG + chr8.2:59776113-59776132 None:intergenic 40.0%
TAAGGTGCAAATGCACATTC+TGG + chr8.2:59775728-59775747 None:intergenic 40.0%
TGTTGTTGATGTTGATCCCT+TGG + chr8.2:59776184-59776203 None:intergenic 40.0%
! AATTTTTGTGGCTGATCAGG+TGG + chr8.2:59775755-59775774 None:intergenic 40.0%
! CAACTATGATGCTAGTCTCT+TGG - chr8.2:59776240-59776259 MS.gene016525:CDS 40.0%
! GCAAATTTTTGTGGCTGATC+AGG + chr8.2:59775758-59775777 None:intergenic 40.0%
! GGTGGTGGTAATAACAGTAA+CGG - chr8.2:59776112-59776131 MS.gene016525:CDS 40.0%
!! GATGTTGATAACGATGGTCA+CGG + chr8.2:59776138-59776157 None:intergenic 40.0%
AGAAACTTGCATGCTGCACA+TGG + chr8.2:59775689-59775708 None:intergenic 45.0%
CATGACAGGTGAATCTGTCA+CGG - chr8.2:59776051-59776070 MS.gene016525:CDS 45.0%
CCAACTTCGTCAGCTTCAAA+TGG - chr8.2:59775940-59775959 MS.gene016525:intron 45.0%
CGACTTCGTGATCCTGTTTA+TGG - chr8.2:59775887-59775906 MS.gene016525:intron 45.0%
CTTCAACATCATAGTGCTGC+TGG - chr8.2:59776301-59776320 MS.gene016525:CDS 45.0%
GGCTGATCAGGTGGAAAATA+AGG + chr8.2:59775746-59775765 None:intergenic 45.0%
GTGCAAATGCACATTCTGGT+TGG + chr8.2:59775724-59775743 None:intergenic 45.0%
TGCTGCACATGGTGAATTTG+AGG + chr8.2:59775678-59775697 None:intergenic 45.0%
! CACATTCTGGTTGGCATTTG+CGG + chr8.2:59775715-59775734 None:intergenic 45.0%
! CCATTTGAAGCTGACGAAGT+TGG + chr8.2:59775943-59775962 None:intergenic 45.0%
ACAGCATCTTCACGTTGGTG+AGG + chr8.2:59775839-59775858 None:intergenic 50.0%
GACAGATTCACCTGTCATGC+CGG + chr8.2:59776050-59776069 None:intergenic 50.0%
GTGGTGGTAATTACCTGCAG+CGG + chr8.2:59776077-59776096 None:intergenic 50.0%
! CAACATCATAGTGCTGCTGG+TGG - chr8.2:59776304-59776323 MS.gene016525:CDS 50.0%
! CAGCATCTTCACGTTGGTGA+GGG + chr8.2:59775838-59775857 None:intergenic 50.0%
!! GCTGACGAAGTTGGTGTTGA+AGG + chr8.2:59775934-59775953 None:intergenic 50.0%
AGGAGCGGTTAACAGTACGG+AGG + chr8.2:59776342-59776361 None:intergenic 55.0%
GCCGGTCATGGACTCATAAC+CGG - chr8.2:59776028-59776047 MS.gene016525:CDS 55.0%
GCCGGTTATGAGTCCATGAC+CGG + chr8.2:59776032-59776051 None:intergenic 55.0%
GGACTCATAACCGGCATGAC+AGG - chr8.2:59776037-59776056 MS.gene016525:CDS 55.0%
! CATCATAGTGCTGCTGGTGG+TGG - chr8.2:59776307-59776326 MS.gene016525:CDS 55.0%
ATCGCAGCAGCAGCTACTGC+CGG - chr8.2:59776010-59776029 MS.gene016525:CDS 60.0%
CACCACACGCAGAACACTGC+CGG - chr8.2:59776091-59776110 MS.gene016525:CDS 60.0%
!! CATAGTGCTGCTGGTGGTGG+TGG - chr8.2:59776310-59776329 MS.gene016525:CDS 60.0%
ACGCAGAACACTGCCGGTGG+TGG - chr8.2:59776097-59776116 MS.gene016525:CDS 65.0%
CACACGCAGAACACTGCCGG+TGG - chr8.2:59776094-59776113 MS.gene016525:CDS 65.0%
CACCGGCAGTGTTCTGCGTG+TGG + chr8.2:59776096-59776115 None:intergenic 65.0%
CGGCAGTGTTCTGCGTGTGG+TGG + chr8.2:59776093-59776112 None:intergenic 65.0%
GAATCTGTCACGGCCGCTGC+AGG - chr8.2:59776061-59776080 MS.gene016525:CDS 65.0%
GCAGCAGCTACTGCCGGTCA+TGG - chr8.2:59776016-59776035 MS.gene016525:CDS 65.0%


Chromosome Type Strat End Strand Name
chr8.2 gene 59775668 59776363 59775668 ID=MS.gene016525
chr8.2 mRNA 59775668 59776363 59775668 ID=MS.gene016525.t1;Parent=MS.gene016525
chr8.2 exon 59775949 59776363 59775949 ID=MS.gene016525.t1.exon1;Parent=MS.gene016525.t1
chr8.2 CDS 59775949 59776363 59775949 ID=cds.MS.gene016525.t1;Parent=MS.gene016525.t1
chr8.2 exon 59775668 59775744 59775668 ID=MS.gene016525.t1.exon2;Parent=MS.gene016525.t1
chr8.2 CDS 59775668 59775744 59775668 ID=cds.MS.gene016525.t1;Parent=MS.gene016525.t1
Gene Sequence

>MS.gene016525

ATGGCATCCTCAAATTCACCATGTGCAGCATGCAAGTTTCTACGCCGCAAATGCCAACCAGAATGTGCATTTGCACCTTATTTTCCACCTGATCAGCCACAAAAATTTGCAAATGTTCATAGAATTTTTGGAGCAAGCAATGTTACAAAGCTTCTCAATGATTTACACCCTCACCAACGTGAAGATGCTGTTAATTCACTTGCTTATGAAGCTGAGATGCGACTTCGTGATCCTGTTTATGGTTGTGTTGGTGTAATTTCTCTCCTTCAACACCAACTTCGTCAGCTTCAAATGGATCTTTATTGTGCTAAATCCGAACTTTCTCGGTTTCAAAACTTGAGCATCGCAGCAGCAGCTACTGCCGGTCATGGACTCATAACCGGCATGACAGGTGAATCTGTCACGGCCGCTGCAGGTAATTACCACCACACGCAGAACACTGCCGGTGGTGGTAATAACAGTAACGGCCGTGACCATCGTTATCAACATCATCATCAACATCATCAGTTTTTTCCAAGGGATCAACATCAACAACATAATTTGGTAAGAAATTTTGATGGTGGAATTGGGAACAACTATGATGCTAGTCTCTTGGCTATGAATATTTCTGCTAGCTTAGGACAGATCAATCAACTTCAACATCATAGTGCTGCTGGTGGTGGTGGTGACGACCTCCGTACTGTTAACCGCTCCTAG
Protein sequence

>MS.gene016525.t1

MASSNSPCAACKFLRRKCQPECAFAPYFPPDQPQKFANVHRIFGASNVTKLLNDLHPHQREDAVNSLAYEAEMRLRDPVYGCVGVISLLQHQLRQLQMDLYCAKSELSRFQNLSIAAAATAGHGLITGMTGESVTAAAGQINQLQHHSAAGGGGDDLRTVNRS