AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG026084

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG026084 MtrunA17_Chr5g0409841 78.571 84 18 0 115 198 100 183 2.56e-40 137
MsaG026084 MtrunA17_Chr5g0440731 80.000 80 15 1 115 193 113 192 8.85e-39 135
MsaG026084 MtrunA17_Chr5g0440741 78.750 80 16 1 115 193 108 187 1.03e-37 132
MsaG026084 MtrunA17_Chr5g0409831 59.259 108 33 2 102 198 72 179 1.12e-29 110
MsaG026084 MtrunA17_Chr8g0364731 56.944 72 30 1 114 185 8 78 1.37e-19 82.4
MsaG026084 MtrunA17_Chr3g0104071 50.000 96 44 3 95 188 134 227 2.00e-19 84.7
MsaG026084 MtrunA17_Chr5g0436501 51.064 94 38 3 115 202 133 224 3.09e-19 83.2
MsaG026084 MtrunA17_Chr1g0162081 58.824 68 25 2 115 181 130 195 6.40e-19 82.8
MsaG026084 MtrunA17_Chr1g0210471 51.765 85 36 3 115 198 132 212 9.14e-19 81.6
MsaG026084 MtrunA17_Chr8g0365011 55.405 74 32 1 112 185 109 181 1.62e-17 79.0
MsaG026084 MtrunA17_Chr2g0331031 46.154 91 46 2 115 205 117 204 5.46e-17 78.2
MsaG026084 MtrunA17_Chr4g0062741 50.617 81 34 4 115 191 146 224 5.75e-17 77.4
MsaG026084 MtrunA17_Chr5g0429521 52.564 78 34 2 115 191 140 215 2.22e-16 75.9
MsaG026084 MtrunA17_Chr7g0241761 59.016 61 23 1 115 175 148 206 7.13e-16 74.7
MsaG026084 MtrunA17_Chr3g0135671 47.826 69 35 1 116 183 100 168 4.57e-15 71.2
MsaG026084 MtrunA17_Chr4g0055931 47.826 69 33 2 115 182 103 169 9.65e-15 71.6
MsaG026084 MtrunA17_Chr6g0488471 55.172 58 24 1 115 172 105 160 6.78e-14 68.9
MsaG026084 MtrunA17_Chr8g0389241 42.553 94 45 4 115 204 113 201 3.54e-13 66.6
MsaG026084 MtrunA17_Chr5g0432921 41.053 95 50 3 115 208 121 210 4.78e-13 65.9
MsaG026084 MtrunA17_Chr1g0192061 52.239 67 30 2 115 180 69 134 4.42e-12 62.4
MsaG026084 MtrunA17_Chr5g0432941 40.000 95 51 3 115 208 121 210 1.38e-11 61.6
MsaG026084 MtrunA17_Chr4g0059701 45.238 84 41 2 115 198 92 170 4.13e-11 60.8
MsaG026084 MtrunA17_Chr5g0415191 62.500 40 15 0 115 154 110 149 5.98e-11 60.8
MsaG026084 MtrunA17_Chr3g0113121 53.968 63 24 2 117 174 105 167 9.85e-11 59.3
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG026084 AT5G08520.1 57.353 68 26 2 115 181 126 191 9.17e-18 80.1
MsaG026084 AT1G49010.1 50.667 75 34 2 115 188 142 214 1.89e-17 79.3
MsaG026084 AT5G04760.1 58.333 60 23 1 115 174 107 164 6.15e-17 76.6
MsaG026084 AT5G58900.1 60.317 63 22 2 115 176 149 209 9.04e-17 77.4
MsaG026084 AT5G23650.1 57.812 64 25 1 115 178 128 189 1.23e-16 77.4
MsaG026084 AT5G61620.1 51.220 82 30 2 115 188 116 195 2.22e-16 76.6
MsaG026084 AT2G38090.1 56.716 67 26 2 115 180 149 213 2.89e-16 75.9
MsaG026084 AT3G10580.2 51.389 72 30 2 115 186 103 169 3.05e-16 75.5
MsaG026084 AT3G10580.1 51.389 72 30 2 115 186 103 169 4.09e-16 75.5
MsaG026084 AT5G01200.1 51.852 81 35 3 98 176 136 214 4.13e-16 75.1
MsaG026084 AT5G47390.1 55.172 58 24 1 115 172 104 159 7.12e-15 72.8
MsaG026084 AT5G05790.2 50.000 78 32 3 115 189 139 212 1.98e-14 70.5
MsaG026084 AT5G05790.1 50.000 78 32 3 115 189 139 212 1.98e-14 70.5
MsaG026084 AT3G11280.2 55.714 70 21 3 115 178 135 200 4.38e-14 69.3
MsaG026084 AT3G11280.1 55.714 70 21 3 115 178 135 200 4.38e-14 69.3
MsaG026084 AT4G09450.1 58.065 62 24 1 115 176 99 158 5.19e-14 68.2
MsaG026084 AT5G56840.1 53.226 62 28 1 111 172 95 155 5.28e-14 68.9
MsaG026084 AT3G10590.1 46.914 81 37 3 115 195 119 193 2.89e-12 63.5
MsaG026084 AT1G70000.1 67.500 40 13 0 115 154 106 145 5.72e-12 63.5
MsaG026084 AT1G70000.2 67.500 40 13 0 115 154 106 145 5.72e-12 63.5
MsaG026084 AT3G16350.1 65.000 40 14 0 115 154 145 184 1.00e-11 63.5

Find 52 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TTTCTATATCTTTCACATTT+TGG 0.106789 5:-16635351 None:intergenic
CGATGTGTCATTCTTGTTTA+AGG 0.196236 5:-16635407 None:intergenic
TGTGATGTATAGGTTGTTTC+TGG 0.210646 5:+16635219 MsaT026084.1:intron
ACATTCTCAACACGATTCTT+AGG 0.218420 5:-16633810 None:intergenic
CTCCTAAGAAAAGCAATTAT+TGG 0.235641 5:+16633692 MsaT026084.1:CDS
TCAACACGATTCTTAGGTTT+TGG 0.247019 5:-16633804 None:intergenic
TTCTCAAGATTGTTCATATC+AGG 0.300574 5:-16635513 None:intergenic
GCATATGCTTTCCCACAGTT+CGG 0.350365 5:+16633921 MsaT026084.1:CDS
GATGTTCCTGTGTTGGTTGT+TGG 0.356491 5:+16633744 MsaT026084.1:CDS
CATATGCTTTCCCACAGTTC+GGG 0.381355 5:+16633922 MsaT026084.1:CDS
ACAGATCTAACATTGTGCTT+GGG 0.398314 5:-16633870 None:intergenic
CTAACATTGTGCTTGGGGCC+TGG 0.412637 5:-16633864 None:intergenic
GGATTCTCACCATTCGGATA+AGG 0.417277 5:-16633946 None:intergenic
AAAGCAATTATGGTGATTGC+TGG 0.434875 5:+16633646 None:intergenic
AGCTTAGGATTCTCACCATT+CGG 0.435560 5:-16633952 None:intergenic
CACCTTGTCCTCGCCGCCAT+GGG 0.443344 5:-16633979 None:intergenic
CACAGATCTAACATTGTGCT+TGG 0.446176 5:-16633871 None:intergenic
TTGGAAGAAACTGATGTTGA+TGG 0.447687 5:+16633711 MsaT026084.1:CDS
TCACCTTGTCCTCGCCGCCA+TGG 0.449532 5:-16633980 None:intergenic
CACATCGATCACTGCTCCTA+TGG 0.451206 5:+16635423 MsaT026084.1:CDS
TTGGTTCTGCTCTGTCCAAT+CGG 0.451241 5:+16635480 MsaT026084.1:CDS
GGATTCTCATGTTGTTCCAT+AGG 0.504821 5:-16635439 None:intergenic
GCATGGCTAGCAATTTGAGT+TGG 0.525594 5:-16635310 None:intergenic
TGTATAGGTTGTTTCTGGAG+GGG 0.528745 5:+16635224 MsaT026084.1:intron
AGAAAGAGCTGGCCACGACT+TGG 0.528799 5:-16633769 None:intergenic
GCCGCCATGGGATACAGCTT+AGG 0.529953 5:-16633967 None:intergenic
AACCAACTGCATTTGTCTTG+AGG 0.533805 5:-16635463 None:intergenic
ATCCCATGGCGGCGAGGACA+AGG 0.539645 5:+16633977 MsaT026084.1:CDS
AGATATTTCAAAAGAATTCG+TGG 0.539811 5:+16635276 MsaT026084.1:CDS
ATGTATAGGTTGTTTCTGGA+GGG 0.542704 5:+16635223 MsaT026084.1:intron
CGGATAAGGTCCCGAACTGT+GGG 0.544164 5:-16633932 None:intergenic
CAGATCTAACATTGTGCTTG+GGG 0.552699 5:-16633869 None:intergenic
ATGTGAAAGATATAGAAAAG+AGG 0.554408 5:+16635356 MsaT026084.1:CDS
CAACTGCATTTGTCTTGAGG+AGG 0.556868 5:-16635460 None:intergenic
GCAGAACAAAGAATGTGAGT+TGG 0.564634 5:-16633900 None:intergenic
TGGAAGAAACTGATGTTGAT+GGG 0.566229 5:+16633712 MsaT026084.1:CDS
TCGGATAAGGTCCCGAACTG+TGG 0.568806 5:-16633933 None:intergenic
TCAGGAAGTGTAGAACCGAT+TGG 0.579196 5:-16635495 None:intergenic
CTCCTCAAGACAAATGCAGT+TGG 0.587149 5:+16635461 MsaT026084.1:CDS
TCACCACACTATCAAAAGCC+AGG 0.587566 5:+16633846 MsaT026084.1:CDS
GTTTGAGCATCAGAAAGAGC+TGG 0.591524 5:-16633780 None:intergenic
TCTTGTTTAAGGTTGTGTCG+TGG 0.595697 5:-16635396 None:intergenic
GAATCCTAAGCTGTATCCCA+TGG 0.605780 5:+16633963 MsaT026084.1:CDS
GATGTATAGGTTGTTTCTGG+AGG 0.607647 5:+16635222 MsaT026084.1:intron
GAACAAAGAATGTGAGTTGG+AGG 0.611294 5:-16633897 None:intergenic
AGCTGTATCCCATGGCGGCG+AGG 0.637196 5:+16633971 MsaT026084.1:CDS
AGTTCGGGACCTTATCCGAA+TGG 0.645545 5:+16633937 MsaT026084.1:CDS
CAAGCACAATGTTAGATCTG+TGG 0.648338 5:+16633872 MsaT026084.1:CDS
TTGGTTCCAACAACCAACAC+AGG 0.662334 5:-16633750 None:intergenic
TGGTTGTTGGAACCAAGTCG+TGG 0.665596 5:+16633757 MsaT026084.1:CDS
TGTTGAGAATGTTAGATCTG+TGG 0.694155 5:+16633821 MsaT026084.1:CDS
TCCTAAGCTGTATCCCATGG+CGG 0.728221 5:+16633966 MsaT026084.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr5 gene 16633655 16635522 16633655 ID=MsaG026084
Chr5 mRNA 16633655 16635522 16633655 ID=MsaT026084.1;Parent=MsaG026084
Chr5 exon 16633655 16633998 16633655 ID=MsaT026084.1.exon1;Parent=MsaT026084.1
Chr5 CDS 16633655 16633998 16633655 ID=cds.MsaT026084.1;Parent=MsaT026084.1
Chr5 exon 16635231 16635522 16635231 ID=MsaT026084.1.exon2;Parent=MsaT026084.1
Chr5 CDS 16635231 16635522 16635231 ID=cds.MsaT026084.1;Parent=MsaT026084.1
Gene Sequence

>MsaT026084.1

ATGGTGATTGCTGGTAATGAGATTAGTGCTCGTAAGTCTCCTAAGAAAAGCAATTATTGGAAGAAACTGATGTTGATGGGAAAAGTTTTGATGTTCCTGTGTTGGTTGTTGGAACCAAGTCGTGGCCAGCTCTTTCTGATGCTCAAACTCCAAAACCTAAGAATCGTGTTGAGAATGTTAGATCTGTGGCATCACCACACTATCAAAAGCCAGGCCCCAAGCACAATGTTAGATCTGTGGCACCTCCAACTCACATTCTTTGTTCTGCATATGCTTTCCCACAGTTCGGGACCTTATCCGAATGGTGAGAATCCTAAGCTGTATCCCATGGCGGCGAGGACAAGGTTGTTTCTGGAGGGGCTTGAAAAACATGGTAGGGGACGTTGGAAAGATATTTCAAAAGAATTCGTGGTGACAAAGACTCCAACTCAAATTGCTAGCCATGCCCAAAAATACTTTATCCACCAAAATGTGAAAGATATAGAAAAGAGGAAAAAGAGAAGAAGTATCCACGACACAACCTTAAACAAGAATGACACATCGATCACTGCTCCTATGGAACAACATGAGAATCCTCCTCAAGACAAATGCAGTTGGTTCTGCTCTGTCCAATCGGTTCTACACTTCCTGATATGA
Protein sequence

>MsaT026084.1

MVIAGNEISARKSPKKSNYWKKLMLMGKVLMFLCWLLEPSRGQLFLMLKLQNLRIVLRMLDLWHHHTIKSQAPSTMLDLWHLQLTFFVLHMLSHSSGPYPNGENPKLYPMAARTRLFLEGLEKHGRGRWKDISKEFVVTKTPTQIASHAQKYFIHQNVKDIEKRKKRRSIHDTTLNKNDTSITAPMEQHENPPQDKCSWFCSVQSVLHFLI*