AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG026085

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG026085 MtrunA17_Chr5g0409841 70.667 225 47 3 93 302 11 231 1.55e-100 294
MsaG026085 MtrunA17_Chr5g0440731 52.899 276 57 6 92 302 27 294 2.60e-77 237
MsaG026085 MtrunA17_Chr5g0409831 59.149 235 55 6 93 302 11 229 4.09e-76 232
MsaG026085 MtrunA17_Chr5g0440741 52.174 276 54 7 92 302 27 289 5.69e-75 231
MsaG026085 MtrunA17_Chr5g0409941 66.972 109 13 3 1 90 1 105 1.16e-35 124
MsaG026085 MtrunA17_Chr5g0440721 54.032 124 20 3 1 92 1 119 3.12e-27 104
MsaG026085 MtrunA17_Chr1g0162081 56.180 89 35 3 162 249 110 195 2.81e-24 99.8
MsaG026085 MtrunA17_Chr1g0210471 43.443 122 63 3 143 261 89 207 3.40e-23 95.9
MsaG026085 MtrunA17_Chr3g0104071 57.143 84 33 2 171 253 143 224 6.14e-23 96.7
MsaG026085 MtrunA17_Chr5g0436501 42.958 142 63 4 126 249 59 200 1.67e-22 94.4
MsaG026085 MtrunA17_Chr5g0440821 72.464 69 7 2 1 62 1 64 5.76e-22 96.3
MsaG026085 MtrunA17_Chr5g0440821 80.000 35 5 1 60 92 149 183 8.75e-11 62.8
MsaG026085 MtrunA17_Chr4g0055931 36.000 150 80 4 123 271 47 181 1.05e-21 93.2
MsaG026085 MtrunA17_Chr2g0331031 45.545 101 51 2 167 265 99 197 2.69e-21 92.4
MsaG026085 MtrunA17_Chr4g0062741 50.602 83 38 2 168 249 131 211 2.87e-21 91.7
MsaG026085 MtrunA17_Chr5g0429521 48.148 108 49 3 168 274 125 226 2.95e-21 91.7
MsaG026085 MtrunA17_Chr7g0241761 53.247 77 34 1 167 243 132 206 8.41e-20 87.8
MsaG026085 MtrunA17_Chr3g0135671 39.200 125 61 4 148 270 67 178 2.35e-19 85.1
MsaG026085 MtrunA17_Chr4g0059701 42.149 121 60 3 158 277 66 177 2.77e-19 85.9
MsaG026085 MtrunA17_Chr8g0365011 48.889 90 33 2 176 253 93 181 5.10e-18 82.4
MsaG026085 MtrunA17_Chr6g0488471 56.716 67 26 1 171 237 93 156 3.46e-17 80.1
MsaG026085 MtrunA17_Chr8g0389241 55.224 67 26 1 171 237 101 163 5.69e-17 79.3
MsaG026085 MtrunA17_Chr8g0364731 51.429 70 33 1 184 253 10 78 8.17e-17 77.0
MsaG026085 MtrunA17_Chr5g0415191 61.111 54 21 0 169 222 96 149 9.94e-17 79.0
MsaG026085 MtrunA17_Chr5g0440751 44.248 113 18 1 25 92 13 125 1.15e-16 76.6
MsaG026085 MtrunA17_Chr1g0192061 51.282 78 32 3 174 248 60 134 5.43e-16 74.7
MsaG026085 MtrunA17_Chr5g0432921 48.864 88 37 4 176 261 114 195 8.94e-16 75.1
MsaG026085 MtrunA17_Chr3g0092621 44.444 72 38 1 174 245 83 152 2.98e-15 72.4
MsaG026085 MtrunA17_Chr6g0452791 54.386 57 26 0 177 233 82 138 1.05e-14 70.9
MsaG026085 MtrunA17_Chr5g0409951 50.588 85 28 2 96 179 38 109 1.45e-14 72.0
MsaG026085 MtrunA17_Chr5g0409951 87.879 33 4 0 60 92 206 238 1.06e-12 67.0
MsaG026085 MtrunA17_Chr5g0409951 68.085 47 12 1 15 61 102 145 2.32e-11 62.8
MsaG026085 MtrunA17_Chr5g0432941 47.727 88 38 4 176 261 114 195 2.46e-14 70.9
MsaG026085 MtrunA17_Chr3g0113121 50.000 72 31 1 176 242 96 167 5.59e-13 67.0
MsaG026085 MtrunA17_Chr8g0370121 43.077 65 37 0 172 236 97 161 6.31e-12 64.3
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG026085 AT5G08520.1 48.515 101 50 1 142 242 85 183 4.56e-24 99.8
MsaG026085 AT5G23650.1 42.466 146 76 4 135 277 83 223 9.80e-23 96.7
MsaG026085 AT1G49010.1 50.549 91 42 2 167 256 126 214 2.97e-22 95.1
MsaG026085 AT5G04760.1 53.012 83 37 1 160 242 84 164 4.81e-22 92.4
MsaG026085 AT5G58900.1 59.722 72 27 1 171 242 137 206 9.53e-22 93.2
MsaG026085 AT2G38090.1 46.847 111 50 4 145 248 105 213 5.50e-21 91.3
MsaG026085 AT5G01200.1 53.333 75 33 1 168 242 139 211 1.45e-19 86.7
MsaG026085 AT5G05790.2 46.465 99 50 2 160 257 116 212 1.59e-19 86.7
MsaG026085 AT5G05790.1 46.465 99 50 2 160 257 116 212 1.59e-19 86.7
MsaG026085 AT5G47390.1 36.842 133 74 3 167 294 88 215 1.75e-19 87.8
MsaG026085 AT5G61620.1 47.573 103 40 3 162 256 99 195 1.87e-19 87.4
MsaG026085 AT3G10580.2 52.564 78 32 2 177 254 97 169 2.12e-19 85.9
MsaG026085 AT3G10580.1 52.564 78 32 2 177 254 97 169 2.89e-19 86.3
MsaG026085 AT3G11280.2 50.000 90 39 2 161 246 113 200 4.05e-19 85.5
MsaG026085 AT3G11280.1 50.000 90 39 2 161 246 113 200 4.05e-19 85.5
MsaG026085 AT1G74840.2 56.250 64 28 0 158 221 79 142 2.48e-17 80.1
MsaG026085 AT5G56840.1 54.688 64 29 0 171 234 87 150 2.71e-17 79.7
MsaG026085 AT1G74840.1 56.250 64 28 0 158 221 79 142 2.99e-17 80.1
MsaG026085 AT1G70000.1 61.017 59 20 1 167 222 87 145 3.91e-17 79.7
MsaG026085 AT1G70000.2 61.017 59 20 1 167 222 87 145 3.91e-17 79.7
MsaG026085 AT3G10590.1 44.444 108 52 4 158 263 92 193 9.44e-17 77.8
MsaG026085 AT3G16350.1 49.315 73 37 0 150 222 112 184 1.47e-16 79.7
MsaG026085 AT4G09450.1 55.224 67 28 1 177 243 93 157 8.64e-16 74.7
MsaG026085 AT1G19000.2 47.191 89 37 3 133 221 70 148 9.68e-16 76.3
MsaG026085 AT1G19000.1 47.191 89 37 3 133 221 70 148 9.68e-16 76.3

Find 72 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TCTCTGTATCTTTCACATTT+TGG 0.106986 5:-16672070 None:intergenic
TGATGTGTCATTCTTGTTTA+AGG 0.162194 5:-16672126 None:intergenic
TGCTATGCTCAGAGGGATTT+TGG 0.166615 5:-16671167 None:intergenic
TGTGATGTATAGGTTGTTTC+TGG 0.210646 5:+16671938 MsaT026085.1:intron
CTCCTAAGAAAAGCAATTAT+TGG 0.235641 5:+16670535 MsaT026085.1:CDS
ACATTCTCAACATGATTCTT+AGG 0.266972 5:-16670654 None:intergenic
TTTGCTTCATGACTTCCTTT+TGG 0.294411 5:-16671339 None:intergenic
TTCTCAAGTTTGTTCATATC+AGG 0.295923 5:-16672248 None:intergenic
TATGCTTTCCCACCTGGTTC+AGG 0.329227 5:+16670690 MsaT026085.1:CDS
CCTGCTGCCACCGGGGATAC+AGG 0.343744 5:-16670741 None:intergenic
GCGCAGCTTGTTCAACTTGT+TGG 0.352010 5:+16672274 MsaT026085.1:CDS
CCTGCATATGCTTTCCCACC+TGG 0.358776 5:+16670684 MsaT026085.1:CDS
CACCTTGTCCTGCTGCCACC+GGG 0.363220 5:-16670749 None:intergenic
GATGTTCCTGTGTTGGTTGT+TGG 0.372353 5:+16670588 MsaT026085.1:CDS
GCATGGCTAGCAATTTGAAT+TGG 0.406712 5:-16672029 None:intergenic
GGATTCTCACCATTCGGATA+AGG 0.417277 5:-16670714 None:intergenic
TCACCTTGTCCTGCTGCCAC+CGG 0.427981 5:-16670750 None:intergenic
TGGAAGAAACCTGGTGTTGA+TGG 0.436022 5:+16670555 MsaT026085.1:CDS
GGCTTAGGATTCTCACCATT+CGG 0.437848 5:-16670720 None:intergenic
GAACAACAACAGGAGAAAAC+TGG 0.441684 5:+16671192 MsaT026085.1:CDS
AACTTAGTTCAAGCCGAGTC+AGG 0.441891 5:+16671270 MsaT026085.1:CDS
CACATCAGTCACTGCTCCTA+TGG 0.448672 5:+16672142 MsaT026085.1:CDS
AGATATTTCAAAAGAATTTG+TGG 0.448838 5:+16671995 MsaT026085.1:CDS
AAAGAGAAGGCGTAGGGAAA+GGG 0.451763 5:+16671359 MsaT026085.1:CDS
ACTTCCTTCTGCTCCTGACT+CGG 0.463082 5:-16671283 None:intergenic
CCTGTATCCCCGGTGGCAGC+AGG 0.463627 5:+16670741 MsaT026085.1:CDS
ATGACCCGACTCACTGATAT+CGG 0.474612 5:-16671217 None:intergenic
CAAAGAGAAGGCGTAGGGAA+AGG 0.485224 5:+16671358 MsaT026085.1:CDS
GCATAGCATGGAACAACAAC+AGG 0.485938 5:+16671182 MsaT026085.1:CDS
TTGGTGCTGCTCTGTCCAAT+CGG 0.496082 5:+16672215 MsaT026085.1:CDS
GGATTCTCATGTTGTTCCAT+AGG 0.504821 5:-16672158 None:intergenic
GGCACCGATATCAGTGAGTC+GGG 0.505895 5:+16671213 MsaT026085.1:CDS
TCCCCGGTGGCAGCAGGACA+AGG 0.513079 5:+16670747 MsaT026085.1:CDS
CAAGCTGAGTCAGTACCAAA+AGG 0.521750 5:+16671324 MsaT026085.1:CDS
GAATCCTAAGCCTGTATCCC+CGG 0.524058 5:+16670731 MsaT026085.1:CDS
TGTTCCATGCTATGCTCAGA+GGG 0.526961 5:-16671174 None:intergenic
AGAAAGAGCTGGCCAAGACT+TGG 0.528166 5:-16670613 None:intergenic
AAGTGTTGATGTTCCTGTGT+TGG 0.530471 5:+16670581 MsaT026085.1:CDS
GCCACCGGGGATACAGGCTT+AGG 0.538751 5:-16670735 None:intergenic
CACCAACTGCATTTGTGTTG+AGG 0.540444 5:-16672198 None:intergenic
ATGTATAGGTTGTTTCTGGA+GGG 0.542704 5:+16671942 MsaT026085.1:intron
TGGTTGTTGGAACCAAGTCT+TGG 0.553347 5:+16670601 MsaT026085.1:CDS
ATTAGAGTTTAGATTTGCAA+CGG 0.553561 5:-16671241 None:intergenic
TTCGGATAAGGTCCTGAACC+AGG 0.561660 5:-16670702 None:intergenic
CACCTCAACACAAATGCAGT+TGG 0.562319 5:+16672196 MsaT026085.1:CDS
TGTATAGGTTGTTTCTGGAG+GGG 0.562950 5:+16671943 MsaT026085.1:intron
AGCAATTATTGGAAGAAACC+TGG 0.565068 5:+16670546 MsaT026085.1:CDS
GTTGAGGTGGCTGTGTCTTG+AGG 0.567346 5:-16672182 None:intergenic
TTGTTCCATGCTATGCTCAG+AGG 0.567759 5:-16671175 None:intergenic
CAAGCCGAGTCAGGAGCAGA+AGG 0.568635 5:+16671279 MsaT026085.1:CDS
ATGAAGCAAAGAGAAGGCGT+AGG 0.578502 5:+16671352 MsaT026085.1:CDS
TCAGGAAGTGTAGAACCGAT+TGG 0.579196 5:-16672230 None:intergenic
GAAAGGGCACATTGGACAGA+AGG 0.581957 5:+16671375 MsaT026085.1:CDS
TCTTGTTTAAGGTTGTGTTG+TGG 0.584557 5:-16672115 None:intergenic
GGCGTAGGGAAAGGGCACAT+TGG 0.587387 5:+16671367 MsaT026085.1:CDS
CCAGGTGGGAAAGCATATGC+AGG 0.588904 5:-16670684 None:intergenic
GTTTGAGCATCAGAAAGAGC+TGG 0.591524 5:-16670624 None:intergenic
CAACTGCATTTGTGTTGAGG+TGG 0.593153 5:-16672195 None:intergenic
AAATCCCTCTGAGCATAGCA+TGG 0.596307 5:+16671170 MsaT026085.1:CDS
TGGCACCGATATCAGTGAGT+CGG 0.599539 5:+16671212 MsaT026085.1:CDS
GAAGTCATGAAGCAAAGAGA+AGG 0.600109 5:+16671346 MsaT026085.1:CDS
ATGTGAAAGATACAGAGAAG+AGG 0.601303 5:+16672075 MsaT026085.1:CDS
GGAAGAAACCTGGTGTTGAT+GGG 0.604012 5:+16670556 MsaT026085.1:CDS
GATGTATAGGTTGTTTCTGG+AGG 0.607647 5:+16671941 MsaT026085.1:intron
GAGGTGGCTGTGTCTTGAGG+AGG 0.615759 5:-16672179 None:intergenic
TGAAGCAAAGAGAAGGCGTA+GGG 0.634488 5:+16671353 MsaT026085.1:CDS
GGTTCAGGACCTTATCCGAA+TGG 0.640623 5:+16670705 MsaT026085.1:CDS
GATAAGGTCCTGAACCAGGT+GGG 0.657071 5:-16670698 None:intergenic
TTGGTTCCAACAACCAACAC+AGG 0.665985 5:-16670594 None:intergenic
ACCTTGTCCTGCTGCCACCG+GGG 0.684672 5:-16670748 None:intergenic
GGATAAGGTCCTGAACCAGG+TGG 0.699303 5:-16670699 None:intergenic
TCCTAAGCCTGTATCCCCGG+TGG 0.701139 5:+16670734 MsaT026085.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr5 gene 16670498 16672310 16670498 ID=MsaG026085
Chr5 mRNA 16670498 16672310 16670498 ID=MsaT026085.1;Parent=MsaG026085
Chr5 exon 16670498 16670768 16670498 ID=MsaT026085.1.exon1;Parent=MsaT026085.1
Chr5 CDS 16670498 16670768 16670498 ID=cds.MsaT026085.1;Parent=MsaT026085.1
Chr5 exon 16671130 16671406 16671130 ID=MsaT026085.1.exon2;Parent=MsaT026085.1
Chr5 CDS 16671130 16671406 16671130 ID=cds.MsaT026085.1;Parent=MsaT026085.1
Chr5 exon 16671950 16672310 16671950 ID=MsaT026085.1.exon3;Parent=MsaT026085.1
Chr5 CDS 16671950 16672310 16671950 ID=cds.MsaT026085.1;Parent=MsaT026085.1
Gene Sequence

>MsaT026085.1

ATGGTGATTGCTGATAATGAGATTAGTGCTCCGAAGTCTCCTAAGAAAAGCAATTATTGGAAGAAACCTGGTGTTGATGGGAAAAGTGTTGATGTTCCTGTGTTGGTTGTTGGAACCAAGTCTTGGCCAGCTCTTTCTGATGCTCAAACTTCAAAACCTAAGAATCATGTTGAGAATGTTGCTGTTCCTGCATATGCTTTCCCACCTGGTTCAGGACCTTATCCGAATGGTGAGAATCCTAAGCCTGTATCCCCGGTGGCAGCAGGACAAGACCTCCATCAAAATGATTTAAATGAGCCAGCTTCAGTCCAAAATCCCTCTGAGCATAGCATGGAACAACAACAGGAGAAAACTGGCACCGATATCAGTGAGTCGGGTCATGCCGTTGCAAATCTAAACTCTAATGATAATAACTTAGTTCAAGCCGAGTCAGGAGCAGAAGGAAGTAATGAAGCTAACTTAGTTCAAGCTGAGTCAGTACCAAAAGGAAGTCATGAAGCAAAGAGAAGGCGTAGGGAAAGGGCACATTGGACAGAAGGTGAACATAAGTTGTTTCTGGAGGGGCTAGAAAAATATGGTAAGGGACGTTGGAAAGATATTTCAAAAGAATTTGTGGTGACAAAGACTCCAATTCAAATTGCTAGCCATGCCCAAAAATACTTTATCCACCAAAATGTGAAAGATACAGAGAAGAGGAAAAAGAGAAGAAGTATCCACAACACAACCTTAAACAAGAATGACACATCAGTCACTGCTCCTATGGAACAACATGAGAATCCTCCTCAAGACACAGCCACCTCAACACAAATGCAGTTGGTGCTGCTCTGTCCAATCGGTTCTACACTTCCTGATATGAACAAACTTGAGAAGATGCGCAGCTTGTTCAACTTGTTGGCAAAAGAACTTTGA
Protein sequence

>MsaT026085.1

MVIADNEISAPKSPKKSNYWKKPGVDGKSVDVPVLVVGTKSWPALSDAQTSKPKNHVENVAVPAYAFPPGSGPYPNGENPKPVSPVAAGQDLHQNDLNEPASVQNPSEHSMEQQQEKTGTDISESGHAVANLNSNDNNLVQAESGAEGSNEANLVQAESVPKGSHEAKRRRRERAHWTEGEHKLFLEGLEKYGKGRWKDISKEFVVTKTPIQIASHAQKYFIHQNVKDTEKRKKRRSIHNTTLNKNDTSVTAPMEQHENPPQDTATSTQMQLVLLCPIGSTLPDMNKLEKMRSLFNLLAKEL*