AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene72374

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene72374.t1 MTR_4g099230 89.809 157 15 1 1 157 1 156 1.01e-103 293
MS.gene72374.t1 MTR_5g085390 64.925 134 42 1 2 130 9 142 6.82e-52 165
MS.gene72374.t1 MTR_6g011200 48.387 186 54 3 2 146 9 193 5.44e-50 160
MS.gene72374.t1 MTR_6g011250 51.656 151 72 1 2 151 9 159 6.65e-50 158
MS.gene72374.t1 MTR_6g011230 51.974 152 61 4 2 143 11 160 1.34e-45 148
MS.gene72374.t1 MTR_6g004550 67.059 85 25 1 30 111 1 85 7.85e-34 116
MS.gene72374.t1 MTR_8g017090 52.427 103 48 1 2 104 12 113 9.12e-30 110
MS.gene72374.t1 MTR_4g107450 48.113 106 54 1 2 107 10 114 1.89e-28 106
MS.gene72374.t1 MTR_2g100020 47.170 106 55 1 2 107 19 123 4.85e-28 105
MS.gene72374.t1 MTR_8g040900 52.500 80 37 1 3 82 8 86 1.07e-26 100
MS.gene72374.t1 MTR_7g028905 38.889 108 65 1 3 110 6 112 2.48e-26 96.7
MS.gene72374.t1 MTR_4g105170 37.008 127 79 1 3 129 12 137 1.11e-25 97.1
MS.gene72374.t1 MTR_5g017950 38.636 132 76 3 3 130 9 139 1.51e-25 99.4
MS.gene72374.t1 MTR_3g073690 43.137 102 57 1 3 104 10 110 5.33e-25 95.5
MS.gene72374.t1 MTR_4g083680 32.143 140 93 2 3 141 16 154 9.72e-25 94.0
MS.gene72374.t1 MTR_3g077240 43.158 95 53 1 3 97 11 104 1.22e-24 94.4
MS.gene72374.t1 MTR_7g033800 42.105 95 54 1 3 97 12 105 1.29e-24 93.6
MS.gene72374.t1 MTR_2g068760 36.036 111 70 1 3 113 14 123 7.05e-24 91.7
MS.gene72374.t1 MTR_3g452660 42.157 102 58 1 3 104 8 108 2.91e-23 92.8
MS.gene72374.t1 MTR_6g005070 42.105 95 54 1 3 97 10 103 6.55e-23 88.6
MS.gene72374.t1 MTR_8g079660 43.137 102 57 1 3 104 9 109 2.83e-22 89.7
MS.gene72374.t1 MTR_2g093310 36.145 166 74 7 3 143 34 192 2.84e-22 88.2
MS.gene72374.t1 MTR_5g093010 35.294 102 65 1 3 104 6 106 4.13e-22 86.7
MS.gene72374.t1 MTR_6g005080 40.000 95 56 1 3 97 11 104 4.31e-22 86.3
MS.gene72374.t1 MTR_8g079620 41.176 102 59 1 3 104 9 109 1.28e-21 87.4
MS.gene72374.t1 MTR_3g031660 35.897 117 73 2 3 119 8 122 1.49e-21 85.9
MS.gene72374.t1 MTR_5g083230 38.298 94 57 1 3 96 7 99 1.55e-21 85.5
MS.gene72374.t1 MTR_5g083960 36.735 98 61 1 3 100 40 136 1.81e-21 86.3
MS.gene72374.t1 MTR_4g060950 44.211 95 47 3 3 96 25 114 1.93e-21 85.9
MS.gene72374.t1 MTR_5g083010 33.846 130 77 3 2 127 11 135 2.16e-21 85.5
MS.gene72374.t1 MTR_1g095850 38.053 113 67 2 3 113 73 184 1.16e-20 84.7
MS.gene72374.t1 MTR_3g071420 39.175 97 54 2 2 98 14 105 5.95e-20 82.0
MS.gene72374.t1 MTR_5g075020 34.426 122 79 1 3 124 44 164 6.40e-20 82.8
MS.gene72374.t1 MTR_5g075020 34.426 122 79 1 3 124 48 168 7.96e-20 82.8
MS.gene72374.t1 MTR_3g094690 37.500 104 63 2 3 105 48 150 1.52e-19 82.0
MS.gene72374.t1 MTR_3g071590 37.234 94 58 1 3 96 9 101 1.95e-19 80.1
MS.gene72374.t1 MTR_3g094690 36.538 104 63 2 3 105 48 149 1.43e-18 79.3
MS.gene72374.t1 MTR_8g036105 36.522 115 71 2 3 116 19 132 4.63e-18 77.8
MS.gene72374.t1 MTR_8g036085 37.864 103 62 2 3 104 24 125 5.71e-18 77.8
MS.gene72374.t1 MTR_7g096530 37.500 104 63 2 3 105 15 117 9.10e-18 77.0
MS.gene72374.t1 MTR_8g079580 38.235 102 61 2 3 103 9 109 5.21e-16 72.4
MS.gene72374.t1 MTR_6g027710 35.294 102 64 2 3 103 41 141 1.88e-15 70.9
MS.gene72374.t1 MTR_4g088035 35.556 90 57 1 2 91 6 94 3.84e-15 70.9
MS.gene72374.t1 MTR_6g027700 35.354 99 62 2 3 100 8 105 5.12e-15 69.7
MS.gene72374.t1 MTR_7g074990 36.000 100 62 2 3 101 21 119 6.33e-15 69.7
MS.gene72374.t1 MTR_8g009730 30.573 157 103 4 1 157 9 159 8.08e-15 68.9
MS.gene72374.t1 MTR_5g080470 30.769 104 70 2 2 104 7 109 1.68e-14 67.8
MS.gene72374.t1 MTR_1g070220 35.354 99 62 2 3 100 16 113 2.27e-14 67.8
MS.gene72374.t1 MTR_1g070205 31.313 99 66 2 3 100 13 110 3.52e-11 59.7
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene72374.t1 AT3G47870 52.941 102 47 1 2 103 36 136 1.18e-30 113
MS.gene72374.t1 AT3G13850 48.544 103 52 1 2 104 36 137 9.44e-28 104
MS.gene72374.t1 AT3G26660 41.176 102 59 1 3 104 6 106 7.95e-26 95.5
MS.gene72374.t1 AT3G26620 41.176 102 59 1 3 104 6 106 1.24e-25 94.7
MS.gene72374.t1 AT5G63090 41.748 103 59 1 3 105 12 113 1.96e-24 93.6
MS.gene72374.t1 AT5G63090 41.748 103 59 1 3 105 12 113 1.96e-24 93.6
MS.gene72374.t1 AT5G63090 41.748 103 59 1 3 105 12 113 1.96e-24 93.6
MS.gene72374.t1 AT5G63090 41.748 103 59 1 3 105 12 113 1.96e-24 93.6
MS.gene72374.t1 AT1G65620 47.500 80 41 1 3 82 10 88 9.68e-24 92.4
MS.gene72374.t1 AT1G65620 47.500 80 41 1 3 82 10 88 9.68e-24 92.4
MS.gene72374.t1 AT1G65620 47.500 80 41 1 3 82 10 88 9.68e-24 92.4
MS.gene72374.t1 AT1G65620 47.500 80 41 1 3 82 10 88 9.68e-24 92.4
MS.gene72374.t1 AT1G65620 47.500 80 41 1 3 82 10 88 9.68e-24 92.4
MS.gene72374.t1 AT5G66870 40.196 102 60 1 3 104 8 108 1.34e-23 94.4
MS.gene72374.t1 AT1G31320 42.529 87 49 1 3 89 14 99 1.31e-22 88.6
MS.gene72374.t1 AT3G27650 40.625 96 56 1 3 98 40 134 1.32e-22 88.2
MS.gene72374.t1 AT1G72980 36.000 150 89 3 2 151 13 155 1.66e-22 89.4
MS.gene72374.t1 AT1G07900 43.617 94 48 2 3 96 34 122 2.55e-22 88.2
MS.gene72374.t1 AT2G23660 42.553 94 53 1 3 96 6 98 1.27e-21 89.0
MS.gene72374.t1 AT2G23660 42.553 94 53 1 3 96 6 98 1.27e-21 89.0
MS.gene72374.t1 AT2G23660 42.553 94 53 1 3 96 6 98 1.27e-21 89.0
MS.gene72374.t1 AT1G16530 40.741 108 55 3 3 102 15 121 3.54e-21 84.7
MS.gene72374.t1 AT2G28500 42.105 95 50 2 3 97 56 145 4.99e-21 85.9
MS.gene72374.t1 AT3G11090 39.175 97 54 2 2 98 11 102 5.74e-21 84.3
MS.gene72374.t1 AT3G50510 34.746 118 75 2 3 119 13 129 9.18e-21 84.3
MS.gene72374.t1 AT3G50510 34.746 118 75 2 3 119 13 129 9.18e-21 84.3
MS.gene72374.t1 AT2G30130 36.441 118 71 3 3 120 9 122 1.04e-20 84.3
MS.gene72374.t1 AT5G35900 36.275 102 64 1 3 104 6 106 1.37e-20 84.3
MS.gene72374.t1 AT2G40470 37.383 107 66 1 3 109 21 126 3.50e-20 83.2
MS.gene72374.t1 AT2G40470 37.383 107 66 1 3 109 46 151 5.52e-20 83.2
MS.gene72374.t1 AT2G30340 34.454 119 77 1 3 121 54 171 5.96e-20 84.0
MS.gene72374.t1 AT2G30340 34.454 119 77 1 3 121 53 170 6.52e-20 83.6
MS.gene72374.t1 AT1G06280 39.326 89 53 1 2 90 24 111 6.10e-18 77.4
MS.gene72374.t1 AT5G15060 41.667 84 47 2 3 85 18 100 3.03e-17 73.9
MS.gene72374.t1 AT2G19820 36.264 91 56 1 3 91 13 103 2.51e-15 68.6
MS.gene72374.t1 AT4G00220 36.634 101 62 2 5 104 20 119 2.61e-15 70.9
MS.gene72374.t1 AT2G45420 35.644 101 63 2 5 104 40 139 3.23e-15 70.9
MS.gene72374.t1 AT2G42430 40.741 81 46 2 3 82 16 95 1.87e-14 68.6
MS.gene72374.t1 AT5G06080 30.263 152 92 5 2 148 7 149 2.72e-14 67.0
MS.gene72374.t1 AT4G00210 32.031 128 78 3 3 122 12 138 5.04e-14 67.0
MS.gene72374.t1 AT3G58190 31.429 140 78 4 3 139 12 136 8.73e-14 66.6
MS.gene72374.t1 AT2G45410 30.625 160 94 5 5 154 19 171 9.12e-14 65.9
MS.gene72374.t1 AT3G03760 34.314 102 65 2 3 103 52 152 1.48e-13 66.6
MS.gene72374.t1 AT2G31310 34.091 88 56 2 3 89 8 94 3.27e-12 61.6
MS.gene72374.t1 AT2G42440 34.694 98 59 3 3 96 8 104 1.11e-11 61.2
MS.gene72374.t1 AT4G22700 28.704 108 76 1 3 110 6 112 9.31e-11 57.8

Find 23 sgRNAs with CRISPR-Local

Find 27 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TTTGTACCAATTGGAGTATT+TGG 0.132307 8.3:+21407231 None:intergenic
TGAGCCTTGGCGAAGATTTC+TGG 0.170855 8.3:+21407513 None:intergenic
GGCGAAGATTTCTGGTTTAT+TGG 0.184703 8.3:+21407521 None:intergenic
GGTTTATTGGCTGGAAAATA+AGG 0.277668 8.3:+21407534 None:intergenic
TAAGGAGCTAAAGCGCAATT+TGG 0.321462 8.3:+21407552 None:intergenic
GCCAAGGCTCATCGTTTGTT+TGG 0.369225 8.3:-21407501 MS.gene72374:CDS
GTATTCAAATTTGTACCAAT+TGG 0.401383 8.3:+21407222 None:intergenic
AAGATTTCTGGTTTATTGGC+TGG 0.417871 8.3:+21407525 None:intergenic
CGTGCAAGATTCCCTGCTAC+TGG 0.446694 8.3:-21407387 MS.gene72374:CDS
GGAAAATGAGAACTAGTAGA+AGG 0.455012 8.3:+21407252 None:intergenic
TTCCCTGCTACTGGATGTCT+TGG 0.464849 8.3:-21407378 MS.gene72374:CDS
ACAAAGGAAGCACATTTGAA+TGG 0.476409 8.3:-21407183 MS.gene72374:CDS
CTTTAGCATCTTCACCATGT+TGG 0.486560 8.3:+21407473 None:intergenic
ACACCAAGACATCCAGTAGC+AGG 0.506521 8.3:+21407375 None:intergenic
CTTGGTGTTATTCATACATA+CGG 0.518659 8.3:-21407360 MS.gene72374:CDS
ACCAAACAAACGATGAGCCT+TGG 0.526005 8.3:+21407500 None:intergenic
TGGTGGTGTTGATGATCCAC+AGG 0.556214 8.3:-21407154 MS.gene72374:CDS
TTTGTTTGGTGTTTCCAACA+TGG 0.590911 8.3:-21407487 MS.gene72374:CDS
CACCAAGACATCCAGTAGCA+GGG 0.629659 8.3:+21407376 None:intergenic
TAAACCAGAAATCTTCGCCA+AGG 0.633091 8.3:-21407517 MS.gene72374:CDS
GCACATTTGAATGGTGACAA+TGG 0.675011 8.3:-21407174 MS.gene72374:CDS
CATTTGAATGGTGACAATGG+TGG 0.751872 8.3:-21407171 MS.gene72374:CDS
GGTGGTGTTGATGATCCACA+GGG 0.786166 8.3:-21407153 MS.gene72374:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! AAATTTGAATACAAGTTTTA+TGG - chr8.3:21407526-21407545 MS.gene72374:CDS 15.0%
!!! GAAATCAATTATTTTTGAGT+CGG - chr8.3:21407322-21407341 MS.gene72374:CDS 20.0%
! GTATTCAAATTTGTACCAAT+TGG + chr8.3:21407518-21407537 None:intergenic 25.0%
!!! AAGTTTTATGGATTCAACAA+AGG - chr8.3:21407538-21407557 MS.gene72374:CDS 25.0%
! CATTTTCCAAATACTCCAAT+TGG - chr8.3:21407500-21407519 MS.gene72374:CDS 30.0%
! TTTGTACCAATTGGAGTATT+TGG + chr8.3:21407509-21407528 None:intergenic 30.0%
!! CTTGGTGTTATTCATACATA+CGG - chr8.3:21407377-21407396 MS.gene72374:CDS 30.0%
GGAAAATGAGAACTAGTAGA+AGG + chr8.3:21407488-21407507 None:intergenic 35.0%
! ACAAAGGAAGCACATTTGAA+TGG - chr8.3:21407554-21407573 MS.gene72374:CDS 35.0%
! GGTTTATTGGCTGGAAAATA+AGG + chr8.3:21407206-21407225 None:intergenic 35.0%
!! AAGATTTCTGGTTTATTGGC+TGG + chr8.3:21407215-21407234 None:intergenic 35.0%
!! TTTGTTTGGTGTTTCCAACA+TGG - chr8.3:21407250-21407269 MS.gene72374:CDS 35.0%
CATTTGAATGGTGACAATGG+TGG - chr8.3:21407566-21407585 MS.gene72374:CDS 40.0%
CTTTAGCATCTTCACCATGT+TGG + chr8.3:21407267-21407286 None:intergenic 40.0%
GCACATTTGAATGGTGACAA+TGG - chr8.3:21407563-21407582 MS.gene72374:CDS 40.0%
TAAACCAGAAATCTTCGCCA+AGG - chr8.3:21407220-21407239 MS.gene72374:CDS 40.0%
TAAGGAGCTAAAGCGCAATT+TGG + chr8.3:21407188-21407207 None:intergenic 40.0%
!! GGCGAAGATTTCTGGTTTAT+TGG + chr8.3:21407219-21407238 None:intergenic 40.0%
ACCAAACAAACGATGAGCCT+TGG + chr8.3:21407240-21407259 None:intergenic 45.0%
ACACCAAGACATCCAGTAGC+AGG + chr8.3:21407365-21407384 None:intergenic 50.0%
CACCAAGACATCCAGTAGCA+GGG + chr8.3:21407364-21407383 None:intergenic 50.0%
GCCAAGGCTCATCGTTTGTT+TGG - chr8.3:21407236-21407255 MS.gene72374:CDS 50.0%
TGAGCCTTGGCGAAGATTTC+TGG + chr8.3:21407227-21407246 None:intergenic 50.0%
TTCCCTGCTACTGGATGTCT+TGG - chr8.3:21407359-21407378 MS.gene72374:CDS 50.0%
!! GGTGGTGTTGATGATCCACA+GGG - chr8.3:21407584-21407603 MS.gene72374:CDS 50.0%
!! TGGTGGTGTTGATGATCCAC+AGG - chr8.3:21407583-21407602 MS.gene72374:CDS 50.0%
CGTGCAAGATTCCCTGCTAC+TGG - chr8.3:21407350-21407369 MS.gene72374:CDS 55.0%


Chromosome Type Strat End Strand Name
chr8.3 gene 21407143 21407616 21407143 ID=MS.gene72374
chr8.3 mRNA 21407143 21407616 21407143 ID=MS.gene72374.t1;Parent=MS.gene72374
chr8.3 exon 21407143 21407616 21407143 ID=MS.gene72374.t1.exon1;Parent=MS.gene72374.t1
chr8.3 CDS 21407143 21407616 21407143 ID=cds.MS.gene72374.t1;Parent=MS.gene72374.t1
Gene Sequence

>MS.gene72374

ATGGCTTGTGCAGCATGCAAATATCAAAGAAGAAAGTGTTCTCCAAATTGCGCTTTAGCTCCTTATTTTCCAGCCAATAAACCAGAAATCTTCGCCAAGGCTCATCGTTTGTTTGGTGTTTCCAACATGGTGAAGATGCTAAAGAATATTGATGATGATCATCTAAAAGATGAAGCAATGAAATCAATTATTTTTGAGTCGGAAATGCGTGCAAGATTCCCTGCTACTGGATGTCTTGGTGTTATTCATACATACGGAGATGAGTTAAAGAAGTCTCTTGAAGAGTTAGATCATGTAAGAAATCTACTAGCTTATTGTAAACAACATAATCTTTCTTCTGCACCTTCTACTAGTTCTCATTTTCCAAATACTCCAATTGGTACAAATTTGAATACAAGTTTTATGGATTCAACAAAGGAAGCACATTTGAATGGTGACAATGGTGGTGTTGATGATCCACAGGGAAAACCTTAA
Protein sequence

>MS.gene72374.t1

MACAACKYQRRKCSPNCALAPYFPANKPEIFAKAHRLFGVSNMVKMLKNIDDDHLKDEAMKSIIFESEMRARFPATGCLGVIHTYGDELKKSLEELDHVRNLLAYCKQHNLSSAPSTSSHFPNTPIGTNLNTSFMDSTKEAHLNGDNGGVDDPQGKP