AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG038915

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG038915 MtrunA17_Chr7g0252101 85.366 123 17 1 1 122 1 123 1.89e-68 215
MsaG038915 MtrunA17_Chr7g0252101 75.000 76 19 0 122 197 308 383 4.77e-32 120
MsaG038915 MtrunA17_Chr5g0431721 72.152 79 22 0 2 80 1 79 4.95e-35 120
MsaG038915 MtrunA17_Chr1g0187941 58.750 80 33 0 119 198 50 129 5.19e-25 95.1
MsaG038915 MtrunA17_Chr1g0207351 65.714 70 24 0 123 192 243 312 9.56e-25 99.4
MsaG038915 MtrunA17_Chr1g0209051 64.789 71 25 0 122 192 147 217 2.12e-24 96.7
MsaG038915 MtrunA17_Chr3g0093911 66.197 71 24 0 122 192 226 296 8.47e-24 96.7
MsaG038915 MtrunA17_Chr3g0093911 70.732 41 12 0 83 123 1 41 4.41e-12 63.9
MsaG038915 MtrunA17_Chr1g0202841 63.380 71 26 0 122 192 53 123 7.87e-23 90.5
MsaG038915 MtrunA17_Chr6g0486591 57.895 76 29 1 117 192 24 96 8.12e-22 87.4
MsaG038915 MtrunA17_Chr4g0075971 45.588 136 53 5 17 133 176 309 1.56e-21 91.7
MsaG038915 MtrunA17_Chr4g0075971 66.197 71 21 1 122 192 480 547 2.22e-21 91.3
MsaG038915 MtrunA17_Chr6g0488101 30.986 213 104 9 8 182 3 210 2.35e-21 90.9
MsaG038915 MtrunA17_Chr6g0488101 53.846 78 33 1 117 194 320 394 3.80e-19 84.3
MsaG038915 MtrunA17_Chr1g0209061 44.800 125 48 5 1 122 1 107 3.47e-21 84.3
MsaG038915 MtrunA17_Chr4g0075861 44.853 136 54 5 17 133 176 309 8.05e-21 88.6
MsaG038915 MtrunA17_Chr3g0123471 53.165 79 34 1 114 192 136 211 3.16e-19 82.8
MsaG038915 MtrunA17_Chr6g0452641 54.667 75 31 1 118 192 205 276 6.27e-19 83.2
MsaG038915 MtrunA17_Chr6g0488271 39.130 115 49 3 40 133 1 115 8.46e-19 83.2
MsaG038915 MtrunA17_Chr6g0488271 53.947 76 32 1 117 192 280 352 2.79e-18 82.0
MsaG038915 MtrunA17_Chr3g0077801 58.667 75 28 1 122 196 228 299 3.75e-18 81.3
MsaG038915 MtrunA17_Chr7g0243331 59.155 71 26 1 122 192 226 293 5.18e-18 80.9
MsaG038915 MtrunA17_Chr3g0112311 50.000 78 36 1 115 192 220 294 5.31e-18 80.9
MsaG038915 MtrunA17_Chr3g0122991 51.316 76 32 2 118 192 183 254 7.17e-18 79.3
MsaG038915 MtrunA17_Chr3g0077851 54.667 75 31 1 122 196 212 283 1.63e-17 79.3
MsaG038915 MtrunA17_Chr3g0077901 50.667 75 34 1 122 196 248 319 2.64e-16 75.9
MsaG038915 MtrunA17_Chr1g0196231 61.667 60 19 1 80 135 224 283 5.47e-15 72.4
MsaG038915 MtrunA17_Chr1g0196241 64.000 50 15 1 143 192 3 49 1.04e-14 66.6
MsaG038915 MtrunA17_Chr1g0205811 41.818 110 58 4 7 116 9 112 1.42e-14 67.4
MsaG038915 MtrunA17_Chr3g0077891 54.795 73 30 2 12 84 8 77 1.75e-13 65.9
MsaG038915 MtrunA17_Chr3g0077891 54.688 64 28 1 12 75 99 161 1.89e-11 60.1
MsaG038915 MtrunA17_Chr3g0077861 52.055 73 34 1 12 84 90 161 4.64e-13 64.3
MsaG038915 MtrunA17_Chr3g0077941 53.425 73 31 2 12 84 8 77 7.95e-13 63.9
MsaG038915 MtrunA17_Chr6g0452001 55.714 70 27 3 11 80 62 127 8.32e-13 66.6
MsaG038915 MtrunA17_Chr1g0206951 73.684 38 10 0 86 123 2 39 8.71e-13 62.8
MsaG038915 MtrunA17_Chr3g0077911 52.778 72 33 1 12 83 90 160 1.37e-12 63.2
MsaG038915 MtrunA17_Chr3g0077911 40.000 95 48 2 24 118 15 100 6.86e-11 58.5
MsaG038915 MtrunA17_Chr8g0364231 41.284 109 52 5 11 118 41 138 1.46e-12 65.9
MsaG038915 MtrunA17_Chr5g0415031 46.739 92 40 4 5 91 31 118 1.94e-12 65.5
MsaG038915 MtrunA17_Chr3g0077811 51.429 70 33 1 6 75 7 75 2.00e-12 61.6
MsaG038915 MtrunA17_Chr3g0077881 48.810 84 33 3 12 95 8 81 2.06e-12 62.8
MsaG038915 MtrunA17_Chr7g0218911 50.794 63 28 2 18 80 3 62 2.00e-11 58.9
MsaG038915 MtrunA17_Chr1g0209191 63.415 41 12 1 152 192 1 38 2.17e-11 58.2
MsaG038915 MtrunA17_Chr6g0452021 45.122 82 41 3 3 84 34 111 4.45e-11 61.2
MsaG038915 MtrunA17_Chr1g0206781 50.794 63 28 2 18 80 16 75 8.44e-11 57.4
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG038915 AT3G01320.1 44.944 89 45 3 11 99 56 140 8.34e-14 69.7
MsaG038915 AT3G01320.2 44.944 89 45 3 11 99 56 140 8.57e-14 69.7
MsaG038915 AT5G15020.1 55.714 70 27 3 11 80 51 116 7.07e-13 67.0
MsaG038915 AT5G15020.2 55.714 70 27 3 11 80 51 116 7.13e-13 67.0
MsaG038915 AT1G24190.2 45.238 84 42 3 11 94 13 92 6.67e-12 64.3
MsaG038915 AT1G24190.1 45.238 84 42 3 11 94 13 92 6.99e-12 64.3
MsaG038915 AT1G24190.3 45.238 84 42 3 11 94 13 92 7.13e-12 64.3
MsaG038915 AT1G59890.1 44.048 84 45 2 12 95 45 126 7.40e-11 61.2
MsaG038915 AT1G59890.4 44.048 84 45 2 12 95 45 126 7.46e-11 61.2
MsaG038915 AT1G59890.2 44.048 84 45 2 12 95 45 126 7.54e-11 61.2
MsaG038915 AT1G59890.3 44.048 84 45 2 12 95 45 126 7.75e-11 61.2

Find 45 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
ATTTAATATGGAGTACAATA+TGG 0.249161 7:-82300016 MsaT038915.1:CDS
TGCACTTGAGTTTCTTCTTA+AGG 0.341291 7:-82301182 MsaT038915.1:CDS
AAAACTCATAAAAGATTTCA+AGG 0.352278 7:-82301107 MsaT038915.1:CDS
CTCTCATATCCCCACATGTC+CGG 0.359142 7:+82299876 None:intergenic
GATGACCACTTTCAGTTTGC+CGG 0.363031 7:-82300665 MsaT038915.1:CDS
TATGTCAAAATGAAAACTTT+AGG 0.369262 7:-82299960 MsaT038915.1:CDS
TTGCCGGTGTGTGCAAGAAT+TGG 0.432034 7:-82300649 MsaT038915.1:CDS
GTCATCGATATCTAGTGTTT+CGG 0.443080 7:+82300682 None:intergenic
ACCTTCCTCATCATGCCAAC+TGG 0.443787 7:-82301001 MsaT038915.1:intron
TTTAATATGGAGTACAATAT+GGG 0.449695 7:-82300015 MsaT038915.1:CDS
GCAGCTCCCTCACTCTTCCT+TGG 0.477319 7:+82301059 None:intergenic
GGGAAAACGGTGAAGAAGGT+AGG 0.482082 7:-82300746 MsaT038915.1:CDS
TACCACTTTCCAGGTCCCTT+AGG 0.484707 7:-82300073 MsaT038915.1:intron
AGAGAATTGTCAACTTCCTA+TGG 0.486101 7:-82300723 MsaT038915.1:CDS
ATGGAGTACAATATGGGAAG+TGG 0.503968 7:-82300009 MsaT038915.1:CDS
GCTGAAAGAATTGATATAAG+AGG 0.511724 7:-82301085 MsaT038915.1:CDS
GTGATACAAAGTAGGGAAAA+CGG 0.519610 7:-82300759 MsaT038915.1:intron
TCTCATATCCCCACATGTCC+GGG 0.523100 7:+82299877 None:intergenic
ACTTTCCAGGTCCCTTAGGT+TGG 0.529041 7:-82300069 MsaT038915.1:intron
AGAGTGAGGGAGCTGCTTCA+AGG 0.529263 7:-82301052 MsaT038915.1:CDS
CATCATGGCCATTGTTTCGA+GGG 0.532022 7:+82301206 None:intergenic
GAGCTGCTTCAAGGACATCC+AGG 0.532286 7:-82301043 MsaT038915.1:CDS
TCATCATGGCCATTGTTTCG+AGG 0.533555 7:+82301205 None:intergenic
CATCACAGCTAACCAACCTA+AGG 0.538273 7:+82300057 None:intergenic
AGTAGGGAAAACGGTGAAGA+AGG 0.541106 7:-82300750 MsaT038915.1:intron
CCGGTGTGTGCAAGAATTGG+AGG 0.558085 7:-82300646 MsaT038915.1:intron
ACACACCGGCAAACTGAAAG+TGG 0.564920 7:+82300660 None:intergenic
ATGATATCAAGCACATCCAT+AGG 0.565205 7:+82300707 None:intergenic
CATTGAGCAACCCGGACATG+TGG 0.567823 7:-82299887 MsaT038915.1:CDS
ATTACGCTTCCAGCTCCTCA+TGG 0.574519 7:-82299774 MsaT038915.1:intron
GAAACTCAAGTGCATCATCA+TGG 0.574862 7:+82301191 None:intergenic
ATGAACATCCCTCGAAACAA+TGG 0.578173 7:-82301214 MsaT038915.1:CDS
TAAAACACCAATCAAACTTG+AGG 0.597972 7:+82299742 None:intergenic
ACGAACCAGTTGGCATGATG+AGG 0.598544 7:+82300996 None:intergenic
TTGTTATGCATTGAGCAACC+CGG 0.598873 7:-82299895 MsaT038915.1:CDS
ATTGATATAAGAGGTGTCCA+AGG 0.601739 7:-82301076 MsaT038915.1:CDS
AGGTGTCCAAGGAAGAGTGA+GGG 0.605251 7:-82301065 MsaT038915.1:CDS
ATTGAGCAACCCGGACATGT+GGG 0.605413 7:-82299886 MsaT038915.1:CDS
TTGAATCTGAATATTAAACC+TGG 0.621609 7:+82301025 None:intergenic
ACCAGTTGGCATGATGAGGA+AGG 0.622788 7:+82301000 None:intergenic
TTGAGCAACCCGGACATGTG+GGG 0.641021 7:-82299885 MsaT038915.1:CDS
ATCACAGCTAACCAACCTAA+GGG 0.644653 7:+82300058 None:intergenic
CCTCCAATTCTTGCACACAC+CGG 0.651110 7:+82300646 None:intergenic
GAGGTGTCCAAGGAAGAGTG+AGG 0.685556 7:-82301066 MsaT038915.1:CDS
TTGAGGAAACTTGTTCCATG+AGG 0.687755 7:+82299759 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr7 gene 82299753 82301339 82299753 ID=MsaG038915
Chr7 mRNA 82299753 82301339 82299753 ID=MsaT038915.1;Parent=MsaG038915
Chr7 exon 82299753 82299783 82299753 ID=MsaT038915.1.exon5;Parent=MsaT038915.1
Chr7 CDS 82299753 82299783 82299753 ID=cds.MsaT038915.1;Parent=MsaT038915.1
Chr7 exon 82299867 82300082 82299867 ID=MsaT038915.1.exon4;Parent=MsaT038915.1
Chr7 CDS 82299867 82300082 82299867 ID=cds.MsaT038915.1;Parent=MsaT038915.1
Chr7 exon 82300647 82300767 82300647 ID=MsaT038915.1.exon3;Parent=MsaT038915.1
Chr7 CDS 82300647 82300767 82300647 ID=cds.MsaT038915.1;Parent=MsaT038915.1
Chr7 exon 82301002 82301236 82301002 ID=MsaT038915.1.exon2;Parent=MsaT038915.1
Chr7 CDS 82301002 82301236 82301002 ID=cds.MsaT038915.1;Parent=MsaT038915.1
Chr7 exon 82301337 82301339 82301337 ID=MsaT038915.1.exon1;Parent=MsaT038915.1
Chr7 CDS 82301337 82301339 82301337 ID=cds.MsaT038915.1;Parent=MsaT038915.1
Gene Sequence

>MsaT038915.1

ATGATGAACATCCCTCGAAACAATGGCCATGATGATGCACTTGAGTTTCTTCTTAAGGAAGTCAAACTTGCATGTAAGTATGATAACAAGTTAAAGTATGATGATTTTTTAAAACTCATAAAAGATTTCAAGGCTGAAAGAATTGATATAAGAGGTGTCCAAGGAAGAGTGAGGGAGCTGCTTCAAGGACATCCAGGTTTAATATTCAGATTCAACACCTTCCTCATCATGCCAACTGGGAAAACGGTGAAGAAGGTAGGAGAGAATTGTCAACTTCCTATGGATGTGCTTGATATCATTTCCGAAACACTAGATATCGATGACCACTTTCAGTTTGCCGGTGTGTGCAAGAATTGGAGGTCCCTTAGGTTGGTTAGCTGTGATGAACAACTTTTAGTGGTTGATTTAATATGGAGTACAATATGGGAAGTGGATAAGATAGACTTCTCAACCATGAATTATGTCAAAATGAAAACTTTAGGCGACATTGCATTGCTTTATGTTGCGAGTCATTTGCCGAAAAATTGTTATGCATTGAGCAACCCGGACATGTGGGGATATGAGAGCAATTCTATCTCCTCATGGAACAAGTTTCCTCAAGTTTGA
Protein sequence

>MsaT038915.1

MMNIPRNNGHDDALEFLLKEVKLACKYDNKLKYDDFLKLIKDFKAERIDIRGVQGRVRELLQGHPGLIFRFNTFLIMPTGKTVKKVGENCQLPMDVLDIISETLDIDDHFQFAGVCKNWRSLRLVSCDEQLLVVDLIWSTIWEVDKIDFSTMNYVKMKTLGDIALLYVASHLPKNCYALSNPDMWGYESNSISSWNKFPQV*