AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene019717

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene019717.t1 MTR_5g026150 94.167 120 7 0 1 120 873 992 7.86e-73 234
MS.gene019717.t1 MTR_5g026200 89.565 115 12 0 1 115 747 861 1.60e-66 215
MS.gene019717.t1 MTR_5g025930 84.426 122 19 0 1 122 875 996 1.71e-64 211
MS.gene019717.t1 MTR_5g025950 72.131 122 34 0 1 122 904 1025 4.22e-56 187
MS.gene019717.t1 MTR_6g036890 72.131 122 34 0 1 122 869 990 1.97e-55 185
MS.gene019717.t1 MTR_5g026090 73.554 121 28 1 1 121 837 953 6.15e-55 184
MS.gene019717.t1 MTR_5g026160 74.167 120 28 1 1 120 875 991 4.12e-54 182
MS.gene019717.t1 MTR_2g040910 71.901 121 34 0 1 121 904 1024 1.88e-53 180
MS.gene019717.t1 MTR_5g025860 70.248 121 36 0 1 121 872 992 3.31e-53 179
MS.gene019717.t1 MTR_5g025880 70.833 120 35 0 1 120 1180 1299 8.05e-53 178
MS.gene019717.t1 MTR_6g036840 69.421 121 37 0 1 121 904 1024 8.19e-53 178
MS.gene019717.t1 MTR_6g036780 70.492 122 35 1 1 121 866 987 8.41e-53 178
MS.gene019717.t1 MTR_6g036790 70.248 121 36 0 1 121 879 999 7.76e-52 175
MS.gene019717.t1 MTR_5g026010 64.463 121 43 0 1 121 891 1011 8.12e-49 167
MS.gene019717.t1 MTR_5g019070 64.463 121 43 0 1 121 892 1012 2.56e-48 165
MS.gene019717.t1 MTR_5g025850 62.810 121 45 0 1 121 885 1005 1.38e-47 163
MS.gene019717.t1 MTR_5g026000 65.289 121 42 0 1 121 891 1011 3.66e-47 162
MS.gene019717.t1 MTR_5g025890 65.289 121 36 1 1 121 900 1014 1.31e-46 160
MS.gene019717.t1 MTR_5g044680 60.976 123 48 0 1 123 807 929 3.80e-44 153
MS.gene019717.t1 MTR_5g044680 60.976 123 48 0 1 123 903 1025 4.22e-44 153
MS.gene019717.t1 MTR_5g024450 59.677 124 50 0 1 124 909 1032 9.09e-44 152
MS.gene019717.t1 MTR_5g024420 59.459 111 45 0 11 121 1 111 2.72e-42 136
MS.gene019717.t1 MTR_5g025840 55.000 120 53 1 1 120 860 978 8.13e-37 132
MS.gene019717.t1 MTR_8g071950 48.739 119 60 1 1 118 30 148 2.15e-35 119
MS.gene019717.t1 MTR_1g088940 54.545 121 50 2 1 118 895 1013 2.24e-35 128
MS.gene019717.t1 MTR_1g088940 54.545 121 50 2 1 118 938 1056 2.25e-35 128
MS.gene019717.t1 MTR_1g088935 52.500 120 54 2 1 118 720 838 1.74e-34 125
MS.gene019717.t1 MTR_3g070220 48.760 121 59 1 1 121 893 1010 7.85e-33 121
MS.gene019717.t1 MTR_6g036870 66.667 87 24 1 1 87 844 925 1.44e-31 117
MS.gene019717.t1 MTR_8g068540 45.378 119 64 1 1 118 899 1017 3.17e-29 110
MS.gene019717.t1 MTR_8g066700 50.000 116 48 2 1 115 898 1004 3.00e-28 108
MS.gene019717.t1 MTR_5g082275 39.316 117 66 1 2 118 37 148 2.23e-22 86.3
MS.gene019717.t1 MTR_5g026760 87.234 47 6 0 1 47 584 630 3.33e-22 90.9
MS.gene019717.t1 MTR_1g088930 51.111 90 41 2 1 88 898 986 7.17e-22 90.1
MS.gene019717.t1 MTR_5g082460 39.831 118 65 1 1 118 889 1000 8.77e-22 89.7
MS.gene019717.t1 MTR_7g067530 35.938 128 72 2 1 118 875 1002 2.04e-21 89.0
MS.gene019717.t1 MTR_7g078340 42.373 118 61 2 2 118 825 936 4.33e-21 87.8
MS.gene019717.t1 MTR_1g088945 59.016 61 25 0 1 61 113 173 7.83e-21 82.8
MS.gene019717.t1 MTR_5g082290 37.607 117 68 1 2 118 896 1007 8.88e-20 84.0
MS.gene019717.t1 MTR_2g072600 37.607 117 68 1 2 118 168 279 1.63e-19 81.6
MS.gene019717.t1 MTR_5g082920 38.655 119 68 2 2 120 897 1010 3.01e-19 82.4
MS.gene019717.t1 MTR_1g029940 39.130 115 65 1 2 116 824 933 6.02e-19 81.6
MS.gene019717.t1 MTR_5g082270 40.336 119 61 3 2 120 899 1007 1.32e-18 80.9
MS.gene019717.t1 MTR_4g130390 31.624 117 73 2 1 115 856 967 4.05e-18 79.3
MS.gene019717.t1 MTR_3g007730 38.596 114 65 1 2 115 372 480 6.39e-18 78.6
MS.gene019717.t1 MTR_5g082420 33.333 117 73 1 2 118 767 878 1.84e-17 77.4
MS.gene019717.t1 MTR_5g082320 36.752 117 69 1 2 118 165 276 2.28e-17 75.9
MS.gene019717.t1 MTR_8g469780 37.815 119 64 3 5 123 697 805 9.48e-17 75.5
MS.gene019717.t1 MTR_5g082380 36.522 115 68 1 2 116 147 256 3.29e-16 72.4
MS.gene019717.t1 MTR_8g469860 35.000 120 67 4 5 124 76 184 4.17e-16 70.9
MS.gene019717.t1 MTR_3g092390 27.941 136 82 1 1 120 908 1043 9.01e-16 72.8
MS.gene019717.t1 MTR_8g470370 36.975 119 65 3 5 123 290 398 9.37e-16 72.4
MS.gene019717.t1 MTR_8g469980 33.607 122 71 2 5 126 565 676 1.01e-15 72.4
MS.gene019717.t1 MTR_1g029950 37.838 111 62 2 2 111 476 580 1.05e-15 72.4
MS.gene019717.t1 MTR_8g469830 35.833 120 67 3 5 124 712 821 1.43e-15 72.0
MS.gene019717.t1 MTR_8g470170 34.234 111 63 2 5 115 138 238 2.63e-15 70.1
MS.gene019717.t1 MTR_8g470560 32.773 119 70 3 5 123 681 789 3.10e-15 71.2
MS.gene019717.t1 MTR_8g468710 36.036 111 61 3 5 115 153 253 3.49e-15 69.7
MS.gene019717.t1 MTR_3g092420 26.471 136 84 1 1 120 863 998 6.61e-15 70.1
MS.gene019717.t1 MTR_0070s0020 34.234 111 63 3 5 115 489 589 9.35e-15 69.7
MS.gene019717.t1 MTR_8g468620 32.773 119 70 3 5 123 623 731 1.68e-14 68.9
MS.gene019717.t1 MTR_3g449540 29.565 115 71 2 5 119 811 915 2.50e-14 68.6
MS.gene019717.t1 MTR_8g469600 34.579 107 60 3 5 111 751 847 2.61e-14 68.6
MS.gene019717.t1 MTR_8g470950 36.036 111 61 3 5 115 668 768 3.93e-14 67.8
MS.gene019717.t1 MTR_2g016530 30.769 117 65 2 5 118 1110 1213 5.13e-14 67.8
MS.gene019717.t1 MTR_8g470400 35.514 107 59 3 5 111 735 831 6.00e-14 67.4
MS.gene019717.t1 MTR_8g470050 34.234 111 63 3 5 115 673 773 1.23e-13 66.6
MS.gene019717.t1 MTR_4g029710 30.252 119 66 2 5 120 928 1032 1.77e-13 66.2
MS.gene019717.t1 MTR_8g465340 33.333 117 68 3 5 121 973 1079 4.68e-13 64.7
MS.gene019717.t1 MTR_8g089210 27.869 122 77 3 1 119 877 990 5.33e-13 64.7
MS.gene019717.t1 MTR_8g089200 27.731 119 65 2 1 111 902 1007 5.95e-13 64.7
MS.gene019717.t1 MTR_0830s0010 31.858 113 67 2 5 117 808 910 7.09e-13 64.3
MS.gene019717.t1 MTR_2g072640 35.043 117 62 3 2 118 621 723 9.29e-13 63.9
MS.gene019717.t1 MTR_2g072620 35.043 117 62 3 2 118 590 692 1.07e-12 63.9
MS.gene019717.t1 MTR_3g092350 53.488 43 20 0 1 43 70 112 2.11e-12 59.7
MS.gene019717.t1 MTR_6g040210 26.957 115 67 2 5 119 749 846 4.31e-12 62.0
MS.gene019717.t1 MTR_8g469650 46.296 54 29 0 5 58 683 736 3.88e-11 59.3
MS.gene019717.t1 MTR_2g016580 26.087 115 68 1 5 119 655 752 7.63e-11 58.5
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene019717.t1 AT3G47580 36.800 125 69 2 1 125 895 1009 4.32e-20 85.1
MS.gene019717.t1 AT2G24130 31.667 120 77 1 1 120 863 977 4.24e-18 79.3
MS.gene019717.t1 AT2G24130 31.667 120 77 1 1 120 848 962 4.36e-18 79.3
MS.gene019717.t1 AT3G47570 35.484 124 70 1 1 124 894 1007 3.10e-17 77.0
MS.gene019717.t1 AT5G39390 34.146 123 60 2 1 123 401 502 3.48e-17 76.6
MS.gene019717.t1 AT3G47110 36.000 125 59 3 1 119 911 1020 4.32e-17 76.6
MS.gene019717.t1 AT3G47090 33.065 124 73 1 1 124 893 1006 8.71e-16 72.8
MS.gene019717.t1 AT5G20480 34.167 120 58 2 1 120 904 1002 9.33e-16 72.8
MS.gene019717.t1 AT5G20480 34.167 120 58 2 1 120 904 1002 9.33e-16 72.8
MS.gene019717.t1 AT5G07280 29.565 115 62 4 3 114 1094 1192 8.06e-11 58.5

Find 26 sgRNAs with CRISPR-Local

Find 32 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GAAAGAAAGAATGAATATTA+TGG 0.303177 6.2:-28182065 MS.gene019717:CDS
TCTGGTGACATGTATAGTTT+TGG 0.332683 6.2:-28182337 MS.gene019717:CDS
ATAATATTCATTCTTTCTTT+CGG 0.344801 6.2:+28182067 None:intergenic
TTTGTAGCAACTTCATTTCC+TGG 0.350860 6.2:-28182238 MS.gene019717:CDS
CACCAGCGAGGAAGGCCTTC+CGG 0.376941 6.2:+28182017 None:intergenic
AGTTGGACTTATTTGTTCAA+TGG 0.405226 6.2:-28182095 MS.gene019717:CDS
CGGTAAGTATTTCTAACATA+AGG 0.428305 6.2:+28182311 None:intergenic
CTTATGTTAGAAATACTTAC+CGG 0.429496 6.2:-28182310 MS.gene019717:CDS
ATCCGGAAGGCCTTCCTCGC+TGG 0.432593 6.2:-28182019 MS.gene019717:intron
TGCTGTTCAACTTAATTACT+AGG 0.441349 6.2:+28181903 None:intergenic
CTCAAGAGCTTAACACAATC+CGG 0.462000 6.2:-28182036 MS.gene019717:CDS
ACATCTCTTGCTTCAAGACG+TGG 0.491080 6.2:+28182193 None:intergenic
TTCATCAGTGGGTCTTCTAC+CGG 0.506562 6.2:+28182291 None:intergenic
AACCGTACGATTCTTACTCC+AGG 0.512976 6.2:-28182148 MS.gene019717:CDS
GTAGAAGTAACAATAAAAGA+TGG 0.514202 6.2:-28182172 MS.gene019717:CDS
GATTCTTACTCCAGGGGTAG+AGG 0.524470 6.2:-28182140 MS.gene019717:CDS
GGTTCTGAAGTGTCAACATC+TGG 0.536659 6.2:-28182355 MS.gene019717:CDS
ACTAAGGATTCCTCTACCCC+TGG 0.542092 6.2:+28182130 None:intergenic
GTTTATCTCACCAGCGAGGA+AGG 0.545032 6.2:+28182009 None:intergenic
ACCGTACGATTCTTACTCCA+GGG 0.601771 6.2:-28182147 MS.gene019717:CDS
AAAATCTCTATAATGTTACC+AGG 0.604881 6.2:+28182220 None:intergenic
CATCTCTTGCTTCAAGACGT+GGG 0.619283 6.2:+28182194 None:intergenic
AGAGCTTAACACAATCCGGA+AGG 0.663663 6.2:-28182032 MS.gene019717:CDS
CCCCTGGAGTAAGAATCGTA+CGG 0.682821 6.2:+28182146 None:intergenic
CCGTACGATTCTTACTCCAG+GGG 0.707673 6.2:-28182146 MS.gene019717:CDS
ATGAGTTTATCTCACCAGCG+AGG 0.734872 6.2:+28182005 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! ATAATATTCATTCTTTCTTT+CGG + chr6.2:28182208-28182227 None:intergenic 15.0%
!! GAAAGAAAGAATGAATATTA+TGG - chr6.2:28182207-28182226 MS.gene019717:CDS 20.0%
!! GGAATTAAAATTTGAATTTC+AGG - chr6.2:28182336-28182355 MS.gene019717:CDS 20.0%
! AAAATCTCTATAATGTTACC+AGG + chr6.2:28182055-28182074 None:intergenic 25.0%
! CTTATGTTAGAAATACTTAC+CGG - chr6.2:28181962-28181981 MS.gene019717:intron 25.0%
! GTAGAAGTAACAATAAAAGA+TGG - chr6.2:28182100-28182119 MS.gene019717:CDS 25.0%
!! AACTCTAAAAAGTGAAACTA+AGG + chr6.2:28182161-28182180 None:intergenic 25.0%
!!! TTAGTTTCACTTTTTAGAGT+TGG - chr6.2:28182160-28182179 MS.gene019717:CDS 25.0%
ACAAACTCGTTAATTGCTTA+TGG - chr6.2:28182315-28182334 MS.gene019717:CDS 30.0%
AGTTGGACTTATTTGTTCAA+TGG - chr6.2:28182177-28182196 MS.gene019717:CDS 30.0%
ATCTTGAAAAACTTCATCAG+TGG + chr6.2:28181996-28182015 None:intergenic 30.0%
TCTTGAAAAACTTCATCAGT+GGG + chr6.2:28181995-28182014 None:intergenic 30.0%
! CGGTAAGTATTTCTAACATA+AGG + chr6.2:28181964-28181983 None:intergenic 30.0%
!!! ACTGATGAAGTTTTTCAAGA+TGG - chr6.2:28181995-28182014 MS.gene019717:intron 30.0%
TTTGTAGCAACTTCATTTCC+TGG - chr6.2:28182034-28182053 MS.gene019717:CDS 35.0%
! TCTGGTGACATGTATAGTTT+TGG - chr6.2:28181935-28181954 MS.gene019717:intron 35.0%
CTCAAGAGCTTAACACAATC+CGG - chr6.2:28182236-28182255 MS.gene019717:CDS 40.0%
AACCGTACGATTCTTACTCC+AGG - chr6.2:28182124-28182143 MS.gene019717:CDS 45.0%
ACATCTCTTGCTTCAAGACG+TGG + chr6.2:28182082-28182101 None:intergenic 45.0%
ACCGTACGATTCTTACTCCA+GGG - chr6.2:28182125-28182144 MS.gene019717:CDS 45.0%
AGAGCTTAACACAATCCGGA+AGG - chr6.2:28182240-28182259 MS.gene019717:CDS 45.0%
ATGAGTTTATCTCACCAGCG+AGG + chr6.2:28182270-28182289 None:intergenic 45.0%
CATCTCTTGCTTCAAGACGT+GGG + chr6.2:28182081-28182100 None:intergenic 45.0%
TTCATCAGTGGGTCTTCTAC+CGG + chr6.2:28181984-28182003 None:intergenic 45.0%
!! GGTTCTGAAGTGTCAACATC+TGG - chr6.2:28181917-28181936 MS.gene019717:CDS 45.0%
ACTAAGGATTCCTCTACCCC+TGG + chr6.2:28182145-28182164 None:intergenic 50.0%
CCCCTGGAGTAAGAATCGTA+CGG + chr6.2:28182129-28182148 None:intergenic 50.0%
CCGTACGATTCTTACTCCAG+GGG - chr6.2:28182126-28182145 MS.gene019717:CDS 50.0%
GATTCTTACTCCAGGGGTAG+AGG - chr6.2:28182132-28182151 MS.gene019717:CDS 50.0%
GTTTATCTCACCAGCGAGGA+AGG + chr6.2:28182266-28182285 None:intergenic 50.0%
ATCCGGAAGGCCTTCCTCGC+TGG - chr6.2:28182253-28182272 MS.gene019717:CDS 65.0%
CACCAGCGAGGAAGGCCTTC+CGG + chr6.2:28182258-28182277 None:intergenic 65.0%


Chromosome Type Strat End Strand Name
chr6.2 gene 28181914 28182380 28181914 ID=MS.gene019717
chr6.2 mRNA 28181914 28182380 28181914 ID=MS.gene019717.t1;Parent=MS.gene019717
chr6.2 exon 28182020 28182380 28182020 ID=MS.gene019717.t1.exon1;Parent=MS.gene019717.t1
chr6.2 CDS 28182020 28182380 28182020 ID=cds.MS.gene019717.t1;Parent=MS.gene019717.t1
chr6.2 exon 28181914 28181936 28181914 ID=MS.gene019717.t1.exon2;Parent=MS.gene019717.t1
chr6.2 CDS 28181914 28181936 28181914 ID=cds.MS.gene019717.t1;Parent=MS.gene019717.t1
Gene Sequence

>MS.gene019717

ATGGGTTCTGAAGTGTCAACATCTGGTGACATGTATAGTTTTGGAATCCTTATGTTAGAAATACTTACCGGTAGAAGACCCACTGATGAAGTTTTTCAAGATGGTCAAAATCTGCATAACTTTGTAGCAACTTCATTTCCTGGTAACATTATAGAGATTTTGAACCCACGTCTTGAAGCAAGAGATGTAGAAGTAACAATAAAAGATGGAAACCGTACGATTCTTACTCCAGGGGTAGAGGAATCCTTAGTTTCACTTTTTAGAGTTGGACTTATTTGTTCAATGGAATCACCGAAAGAAAGAATGAATATTATGGATGTTACTCAAGAGCTTAACACAATCCGGAAGGCCTTCCTCGCTGGTGAGATAAACTCATTTTTCTATATGCTTATTTGAATCATACAAACTCGTTAATTGCTTATGGAATTAAAATTTGAATTTCAGGTTTTCGTACTCCTAGTAATTAA
Protein sequence

>MS.gene019717.t1

MGSEVSTSGDMYSFGILMLEILTGRRPTDEVFQDGQNLHNFVATSFPGNIIEILNPRLEARDVEVTIKDGNRTILTPGVEESLVSLFRVGLICSMESPKERMNIMDVTQELNTIRKAFLAGFRTPSN