AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene011599

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene011599.t1 MTR_4g099230 90.385 156 15 0 1 156 1 156 2.87e-104 295
MS.gene011599.t1 MTR_5g085390 64.925 134 42 1 2 130 9 142 1.69e-52 166
MS.gene011599.t1 MTR_6g011250 50.331 151 74 1 2 151 9 159 3.86e-48 154
MS.gene011599.t1 MTR_6g011200 47.312 186 56 3 2 146 9 193 5.04e-48 155
MS.gene011599.t1 MTR_6g011230 50.993 151 64 3 2 143 11 160 1.73e-46 150
MS.gene011599.t1 MTR_6g004550 67.059 85 25 1 30 111 1 85 2.73e-34 117
MS.gene011599.t1 MTR_8g017090 53.398 103 47 1 2 104 12 113 5.03e-30 110
MS.gene011599.t1 MTR_4g107450 49.057 106 53 1 2 107 10 114 9.28e-30 110
MS.gene011599.t1 MTR_2g100020 48.113 106 54 1 2 107 19 123 2.62e-28 105
MS.gene011599.t1 MTR_4g105170 34.868 152 91 2 3 154 12 155 6.33e-27 100
MS.gene011599.t1 MTR_8g040900 52.500 80 37 1 3 82 8 86 6.62e-27 101
MS.gene011599.t1 MTR_4g083680 33.333 141 92 2 3 142 16 155 6.32e-26 97.1
MS.gene011599.t1 MTR_7g033800 34.459 148 73 4 3 149 12 136 2.09e-25 95.9
MS.gene011599.t1 MTR_5g017950 39.394 132 75 3 3 130 9 139 2.34e-25 99.0
MS.gene011599.t1 MTR_3g077240 44.211 95 52 1 3 97 11 104 2.39e-25 96.3
MS.gene011599.t1 MTR_2g068760 37.838 111 68 1 3 113 14 123 3.89e-25 94.7
MS.gene011599.t1 MTR_7g028905 37.963 108 66 1 3 110 6 112 3.98e-25 93.6
MS.gene011599.t1 MTR_3g073690 43.137 102 57 1 3 104 10 110 8.63e-25 95.1
MS.gene011599.t1 MTR_6g005070 43.158 95 53 1 3 97 10 103 9.31e-24 90.9
MS.gene011599.t1 MTR_8g079660 44.118 102 56 1 3 104 9 109 4.50e-23 92.0
MS.gene011599.t1 MTR_6g005080 41.053 95 55 1 3 97 11 104 5.63e-23 88.6
MS.gene011599.t1 MTR_3g452660 42.157 102 58 1 3 104 8 108 6.77e-23 92.0
MS.gene011599.t1 MTR_3g031660 47.500 80 41 1 3 82 8 86 7.83e-23 89.4
MS.gene011599.t1 MTR_2g093310 37.349 166 72 7 3 143 34 192 1.11e-22 89.4
MS.gene011599.t1 MTR_5g083010 35.385 130 75 3 2 127 11 135 1.24e-22 88.6
MS.gene011599.t1 MTR_8g079620 42.157 102 58 1 3 104 9 109 3.77e-22 89.0
MS.gene011599.t1 MTR_4g060950 45.263 95 46 3 3 96 25 114 4.20e-22 87.8
MS.gene011599.t1 MTR_5g083230 45.000 80 43 1 3 82 7 85 4.44e-22 87.0
MS.gene011599.t1 MTR_5g083960 37.755 98 60 1 3 100 40 136 1.69e-21 86.3
MS.gene011599.t1 MTR_1g095850 39.640 111 64 2 3 111 73 182 2.95e-21 86.3
MS.gene011599.t1 MTR_5g093010 34.314 102 66 1 3 104 6 106 7.80e-21 83.2
MS.gene011599.t1 MTR_5g075020 35.246 122 78 1 3 124 44 164 3.91e-20 83.6
MS.gene011599.t1 MTR_5g075020 35.246 122 78 1 3 124 48 168 4.37e-20 83.6
MS.gene011599.t1 MTR_3g071420 38.144 97 55 2 2 98 14 105 1.14e-19 81.3
MS.gene011599.t1 MTR_3g071590 43.750 80 44 1 3 82 9 87 1.21e-19 80.5
MS.gene011599.t1 MTR_3g094690 38.462 104 62 2 3 105 48 150 1.66e-19 82.0
MS.gene011599.t1 MTR_8g036105 37.391 115 70 2 3 116 19 132 5.60e-19 80.1
MS.gene011599.t1 MTR_8g036085 37.864 103 62 2 3 104 24 125 9.26e-19 79.7
MS.gene011599.t1 MTR_3g094690 37.500 104 62 2 3 105 48 149 1.36e-18 79.3
MS.gene011599.t1 MTR_7g096530 37.500 104 63 2 3 105 15 117 1.36e-18 79.3
MS.gene011599.t1 MTR_6g027710 37.255 102 62 2 3 103 41 141 3.84e-17 75.5
MS.gene011599.t1 MTR_8g079580 39.216 102 60 2 3 103 9 109 8.36e-17 74.7
MS.gene011599.t1 MTR_7g074990 36.000 100 62 2 3 101 21 119 6.47e-16 72.4
MS.gene011599.t1 MTR_4g088035 36.667 90 56 1 2 91 6 94 7.27e-16 72.8
MS.gene011599.t1 MTR_6g027700 34.653 101 64 2 1 100 6 105 1.83e-15 70.9
MS.gene011599.t1 MTR_8g009730 29.012 162 98 5 1 156 9 159 3.66e-15 69.7
MS.gene011599.t1 MTR_1g070220 35.354 99 62 2 3 100 16 113 3.87e-15 69.7
MS.gene011599.t1 MTR_5g080470 30.769 104 70 2 2 104 7 109 1.37e-14 68.2
MS.gene011599.t1 MTR_1g070205 31.313 99 66 2 3 100 13 110 6.19e-12 61.6
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene011599.t1 AT3G47870 51.961 102 48 1 2 103 36 136 7.10e-30 111
MS.gene011599.t1 AT3G13850 49.515 103 51 1 2 104 36 137 9.63e-28 104
MS.gene011599.t1 AT5G63090 42.718 103 58 1 3 105 12 113 2.50e-25 95.9
MS.gene011599.t1 AT5G63090 42.718 103 58 1 3 105 12 113 2.50e-25 95.9
MS.gene011599.t1 AT5G63090 42.718 103 58 1 3 105 12 113 2.50e-25 95.9
MS.gene011599.t1 AT5G63090 42.718 103 58 1 3 105 12 113 2.50e-25 95.9
MS.gene011599.t1 AT1G65620 47.500 80 41 1 3 82 10 88 7.41e-24 92.4
MS.gene011599.t1 AT1G65620 47.500 80 41 1 3 82 10 88 7.41e-24 92.4
MS.gene011599.t1 AT1G65620 47.500 80 41 1 3 82 10 88 7.41e-24 92.4
MS.gene011599.t1 AT1G65620 47.500 80 41 1 3 82 10 88 7.41e-24 92.4
MS.gene011599.t1 AT1G65620 47.500 80 41 1 3 82 10 88 7.41e-24 92.4
MS.gene011599.t1 AT1G31320 44.828 87 47 1 3 89 14 99 7.72e-24 91.7
MS.gene011599.t1 AT5G66870 41.176 102 59 1 3 104 8 108 9.59e-24 94.7
MS.gene011599.t1 AT3G27650 42.857 98 52 2 3 97 40 136 1.81e-23 90.5
MS.gene011599.t1 AT1G72980 36.667 150 88 3 2 151 13 155 5.09e-23 90.9
MS.gene011599.t1 AT3G26660 39.216 102 61 1 3 104 6 106 6.76e-23 87.8
MS.gene011599.t1 AT3G26620 39.216 102 61 1 3 104 6 106 9.56e-23 87.4
MS.gene011599.t1 AT1G07900 44.681 94 47 2 3 96 34 122 2.06e-22 88.6
MS.gene011599.t1 AT2G30130 38.136 118 69 3 3 120 9 122 6.68e-22 87.4
MS.gene011599.t1 AT3G11090 40.206 97 53 2 2 98 11 102 2.66e-21 85.1
MS.gene011599.t1 AT2G28500 43.617 94 48 2 3 96 56 144 4.35e-21 85.9
MS.gene011599.t1 AT2G23660 42.553 94 53 1 3 96 6 98 7.56e-21 86.7
MS.gene011599.t1 AT2G23660 42.553 94 53 1 3 96 6 98 7.56e-21 86.7
MS.gene011599.t1 AT2G23660 42.553 94 53 1 3 96 6 98 7.56e-21 86.7
MS.gene011599.t1 AT1G16530 40.741 108 55 3 3 102 15 121 9.40e-21 83.6
MS.gene011599.t1 AT2G40470 38.679 106 64 1 3 108 21 125 1.91e-20 83.6
MS.gene011599.t1 AT2G40470 38.679 106 64 1 3 108 46 150 3.23e-20 83.6
MS.gene011599.t1 AT2G30340 35.294 119 76 1 3 121 54 171 3.62e-20 84.3
MS.gene011599.t1 AT2G30340 35.294 119 76 1 3 121 53 170 4.39e-20 84.0
MS.gene011599.t1 AT3G50510 34.746 118 75 2 3 119 13 129 1.00e-19 81.6
MS.gene011599.t1 AT3G50510 34.746 118 75 2 3 119 13 129 1.00e-19 81.6
MS.gene011599.t1 AT5G35900 36.275 102 64 1 3 104 6 106 2.50e-19 80.9
MS.gene011599.t1 AT1G06280 39.326 89 53 1 2 90 24 111 5.17e-18 77.4
MS.gene011599.t1 AT5G15060 44.595 74 40 1 3 75 18 91 1.12e-17 75.1
MS.gene011599.t1 AT4G00220 36.634 101 62 2 5 104 20 119 1.64e-16 73.9
MS.gene011599.t1 AT2G45420 35.644 101 63 2 5 104 40 139 4.96e-16 73.2
MS.gene011599.t1 AT2G19820 37.363 91 55 1 3 91 13 103 7.22e-16 69.7
MS.gene011599.t1 AT5G06080 30.263 152 92 5 2 148 7 149 1.45e-15 70.5
MS.gene011599.t1 AT3G03760 36.275 102 63 2 3 103 52 152 3.03e-15 71.2
MS.gene011599.t1 AT2G42430 37.500 88 53 2 3 89 16 102 4.14e-15 70.5
MS.gene011599.t1 AT4G00210 32.031 128 78 3 3 122 12 138 1.19e-14 68.9
MS.gene011599.t1 AT3G58190 31.429 140 78 4 3 139 12 136 1.56e-14 68.6
MS.gene011599.t1 AT2G45410 34.545 110 70 2 5 113 19 127 3.29e-14 67.0
MS.gene011599.t1 AT2G31310 34.091 88 56 2 3 89 8 94 3.91e-13 64.3
MS.gene011599.t1 AT2G42440 34.694 98 59 3 3 96 8 104 1.70e-12 63.2

Find 23 sgRNAs with CRISPR-Local

Find 26 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TTTGCACCAATTGGAGTATT+TGG 0.086453 8.1:+23175071 None:intergenic
TGAGCTTTGGCGAAGATTTC+TGG 0.170855 8.1:+23175353 None:intergenic
GGCGAAGATTTCTGGTTTAT+CGG 0.252911 8.1:+23175361 None:intergenic
GGTTTATCGGCTGGAAAATA+AGG 0.292366 8.1:+23175374 None:intergenic
TAAGGAGCTAAAGCGCAATT+TGG 0.321462 8.1:+23175392 None:intergenic
GCCAAAGCTCATCGTTTGTT+TGG 0.367005 8.1:-23175341 MS.gene011599:CDS
AGGGAATCTTGCACGCATTT+CGG 0.384077 8.1:+23175235 None:intergenic
GTATTCAAATTTGCACCAAT+TGG 0.386142 8.1:+23175062 None:intergenic
CAATGGTGGTGTTGATCTAC+AGG 0.439474 8.1:-23174997 MS.gene011599:CDS
CGTGCAAGATTCCCTGCTAC+TGG 0.446694 8.1:-23175227 MS.gene011599:CDS
ACCAAACAAACGATGAGCTT+TGG 0.449673 8.1:+23175340 None:intergenic
GGAAAATGAGAACTAGTAGA+AGG 0.455012 8.1:+23175092 None:intergenic
TTCCCTGCTACTGGATGTCT+TGG 0.455177 8.1:-23175218 MS.gene011599:CDS
AAGATTTCTGGTTTATCGGC+TGG 0.457749 8.1:+23175365 None:intergenic
GCACCAAGACATCCAGTAGC+AGG 0.478218 8.1:+23175215 None:intergenic
CTTTAGCATCTTCACCATGT+TGG 0.486560 8.1:+23175313 None:intergenic
ACAAAGGAAGCACAGTTGAA+TGG 0.540751 8.1:-23175023 MS.gene011599:CDS
CTTGGTGCTATTCTTACATA+CGG 0.548699 8.1:-23175200 MS.gene011599:CDS
TTTGTTTGGTGTTTCCAACA+TGG 0.590911 8.1:-23175327 MS.gene011599:CDS
CACCAAGACATCCAGTAGCA+GGG 0.617241 8.1:+23175216 None:intergenic
GCACAGTTGAATGGTGACAA+TGG 0.678663 8.1:-23175014 MS.gene011599:CDS
AATGGTGGTGTTGATCTACA+GGG 0.760945 8.1:-23174996 MS.gene011599:CDS
CAGTTGAATGGTGACAATGG+TGG 0.764452 8.1:-23175011 MS.gene011599:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! AAATTTGAATACAAGTTTTA+TGG - chr8.1:23175369-23175388 MS.gene011599:CDS 15.0%
!!! AAGTTTTATGGATTCAACAA+AGG - chr8.1:23175381-23175400 MS.gene011599:CDS 25.0%
GTATTCAAATTTGCACCAAT+TGG + chr8.1:23175361-23175380 None:intergenic 30.0%
! CATTTTCCAAATACTCCAAT+TGG - chr8.1:23175343-23175362 MS.gene011599:CDS 30.0%
GGAAAATGAGAACTAGTAGA+AGG + chr8.1:23175331-23175350 None:intergenic 35.0%
! TTTGCACCAATTGGAGTATT+TGG + chr8.1:23175352-23175371 None:intergenic 35.0%
!! CTTGGTGCTATTCTTACATA+CGG - chr8.1:23175220-23175239 MS.gene011599:CDS 35.0%
!! TTTGTTTGGTGTTTCCAACA+TGG - chr8.1:23175093-23175112 MS.gene011599:CDS 35.0%
ACCAAACAAACGATGAGCTT+TGG + chr8.1:23175083-23175102 None:intergenic 40.0%
CTTTAGCATCTTCACCATGT+TGG + chr8.1:23175110-23175129 None:intergenic 40.0%
TAAGGAGCTAAAGCGCAATT+TGG + chr8.1:23175031-23175050 None:intergenic 40.0%
! ACAAAGGAAGCACAGTTGAA+TGG - chr8.1:23175397-23175416 MS.gene011599:CDS 40.0%
! GGTTTATCGGCTGGAAAATA+AGG + chr8.1:23175049-23175068 None:intergenic 40.0%
!! AAGATTTCTGGTTTATCGGC+TGG + chr8.1:23175058-23175077 None:intergenic 40.0%
!! AATGGTGGTGTTGATCTACA+GGG - chr8.1:23175424-23175443 MS.gene011599:CDS 40.0%
!! GGCGAAGATTTCTGGTTTAT+CGG + chr8.1:23175062-23175081 None:intergenic 40.0%
AGGGAATCTTGCACGCATTT+CGG + chr8.1:23175188-23175207 None:intergenic 45.0%
CAGTTGAATGGTGACAATGG+TGG - chr8.1:23175409-23175428 MS.gene011599:CDS 45.0%
GCACAGTTGAATGGTGACAA+TGG - chr8.1:23175406-23175425 MS.gene011599:CDS 45.0%
GCCAAAGCTCATCGTTTGTT+TGG - chr8.1:23175079-23175098 MS.gene011599:CDS 45.0%
! TGAGCTTTGGCGAAGATTTC+TGG + chr8.1:23175070-23175089 None:intergenic 45.0%
!! CAATGGTGGTGTTGATCTAC+AGG - chr8.1:23175423-23175442 MS.gene011599:CDS 45.0%
CACCAAGACATCCAGTAGCA+GGG + chr8.1:23175207-23175226 None:intergenic 50.0%
TTCCCTGCTACTGGATGTCT+TGG - chr8.1:23175202-23175221 MS.gene011599:CDS 50.0%
CGTGCAAGATTCCCTGCTAC+TGG - chr8.1:23175193-23175212 MS.gene011599:CDS 55.0%
GCACCAAGACATCCAGTAGC+AGG + chr8.1:23175208-23175227 None:intergenic 55.0%


Chromosome Type Strat End Strand Name
chr8.1 gene 23174986 23175456 23174986 ID=MS.gene011599
chr8.1 mRNA 23174986 23175456 23174986 ID=MS.gene011599.t1;Parent=MS.gene011599
chr8.1 exon 23174986 23175456 23174986 ID=MS.gene011599.t1.exon1;Parent=MS.gene011599.t1
chr8.1 CDS 23174986 23175456 23174986 ID=cds.MS.gene011599.t1;Parent=MS.gene011599.t1
Gene Sequence

>MS.gene011599

ATGGCTTGTGCAGCATGCAAATATCAAAGAAGAAAGTGTTCTCCAAATTGCGCTTTAGCTCCTTATTTTCCAGCCGATAAACCAGAAATCTTCGCCAAAGCTCATCGTTTGTTTGGTGTTTCCAACATGGTGAAGATGCTAAAGAATATTGATGATGATCATCTAAAAGATGAAGCAATGAAATCAATTATCTTTGAGTCCGAAATGCGTGCAAGATTCCCTGCTACTGGATGTCTTGGTGCTATTCTTACATACGGAGATGAGTTAAAGAAGTCTCTTGAAGAGTTAGATCATGTAAGAAATCTACTAGCTTATTGTAAACAACATAATCTTTCTTCTGCACCTTCTACTAGTTCTCATTTTCCAAATACTCCAATTGGTGCAAATTTGAATACAAGTTTTATGGATTCAACAAAGGAAGCACAGTTGAATGGTGACAATGGTGGTGTTGATCTACAGGGAAAACCTTAA
Protein sequence

>MS.gene011599.t1

MACAACKYQRRKCSPNCALAPYFPADKPEIFAKAHRLFGVSNMVKMLKNIDDDHLKDEAMKSIIFESEMRARFPATGCLGAILTYGDELKKSLEELDHVRNLLAYCKQHNLSSAPSTSSHFPNTPIGANLNTSFMDSTKEAQLNGDNGGVDLQGKP