AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG012870

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG012870 MtrunA17_Chr3g0131691 48.148 243 104 5 12 249 259 484 2.77e-65 210
MsaG012870 MtrunA17_Chr7g0252041 55.497 191 78 1 65 248 284 474 5.61e-61 199
MsaG012870 MtrunA17_Chr3g0089111 88.542 96 11 0 1 96 130 225 1.47e-55 177
MsaG012870 MtrunA17_Chr3g0089121 88.158 76 9 0 96 171 1 76 7.35e-42 139
MsaG012870 MtrunA17_Chr3g0141091 36.548 197 106 3 46 242 152 329 2.38e-31 118
MsaG012870 MtrunA17_Chr3g0089131 83.333 60 10 0 165 224 5 64 1.30e-30 109
MsaG012870 MtrunA17_Chr5g0411541 41.579 190 94 6 55 241 141 316 1.98e-30 115
MsaG012870 MtrunA17_Chr1g0211081 32.990 194 99 4 57 223 307 496 3.63e-25 103
MsaG012870 MtrunA17_Chr3g0135471 86.047 43 6 0 180 222 1 43 2.34e-20 82.0
MsaG012870 MtrunA17_Chr3g0135481 57.843 102 35 1 3 96 127 228 4.70e-19 83.2
MsaG012870 MtrunA17_Chr8g0365711 31.720 186 97 2 57 227 234 404 5.72e-19 85.1
MsaG012870 MtrunA17_Chr2g0320291 30.769 195 114 5 56 243 122 302 1.41e-18 83.2
MsaG012870 MtrunA17_Chr4g0028071 30.319 188 124 4 58 243 140 322 1.57e-18 83.2
MsaG012870 MtrunA17_Chr2g0318461 81.395 43 8 0 180 222 1 43 3.53e-18 76.3
MsaG012870 MtrunA17_Chr8g0366751 33.735 166 104 3 55 214 450 615 5.05e-17 80.1
MsaG012870 MtrunA17_Chr2g0298751 35.450 189 104 9 66 240 51 235 7.15e-17 77.4
MsaG012870 MtrunA17_Chr8g0346151 33.898 177 100 5 44 212 256 423 3.33e-16 77.4
MsaG012870 MtrunA17_Chr7g0225901 29.947 187 124 4 34 218 53 234 1.25e-15 73.9
MsaG012870 MtrunA17_Chr2g0318471 53.913 115 36 3 7 106 102 214 1.53e-15 73.2
MsaG012870 MtrunA17_Chr8g0346161 32.620 187 98 6 39 213 263 433 1.99e-15 75.1
MsaG012870 MtrunA17_Chr5g0411341 29.851 201 113 5 55 239 481 669 2.32e-14 72.4
MsaG012870 MtrunA17_Chr5g0400671 28.019 207 128 6 45 243 129 322 3.52e-14 70.9
MsaG012870 MtrunA17_Chr2g0280161 30.000 180 115 4 46 218 149 324 3.56e-14 71.2
MsaG012870 MtrunA17_Chr1g0185621 30.909 165 105 4 69 229 477 636 3.41e-13 68.9
MsaG012870 MtrunA17_Chr7g0275821 47.761 67 35 0 59 125 244 310 7.63e-13 67.4
MsaG012870 MtrunA17_Chr4g0049331 31.875 160 92 3 65 218 133 281 9.72e-13 66.6
MsaG012870 MtrunA17_Chr2g0307131 29.213 178 121 2 58 235 170 342 1.03e-12 67.0
MsaG012870 MtrunA17_Chr5g0400621 28.667 150 102 2 69 218 159 303 1.26e-12 66.6
MsaG012870 MtrunA17_Chr4g0033281 24.631 203 144 2 33 235 119 312 1.26e-12 66.6
MsaG012870 MtrunA17_Chr6g0468491 31.333 150 98 2 69 218 139 283 1.93e-12 65.9
MsaG012870 MtrunA17_Chr8g0386921 30.653 199 107 5 69 241 408 601 2.42e-12 66.2
MsaG012870 MtrunA17_Chr4g0033291 25.806 217 149 3 33 245 121 329 3.38e-12 65.1
MsaG012870 MtrunA17_Chr7g0260841 44.118 68 38 0 55 122 343 410 3.74e-12 65.5
MsaG012870 MtrunA17_Chr5g0400661 27.094 203 132 6 52 240 134 334 1.46e-11 63.5
MsaG012870 MtrunA17_Chr7g0244441 26.174 149 82 3 95 243 5 125 4.64e-11 58.9
MsaG012870 MtrunA17_Chr6g0468461 31.333 150 84 3 69 218 175 305 4.92e-11 62.0
MsaG012870 MtrunA17_Chr2g0307141 29.032 155 105 2 64 218 180 329 6.36e-11 61.6
MsaG012870 MtrunA17_Chr7g0270871 34.188 117 69 2 21 134 163 274 6.38e-11 61.6
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG012870 AT3G26744.1 55.789 190 79 1 65 249 305 494 1.92e-65 211
MsaG012870 AT3G26744.4 55.789 190 79 1 65 249 305 494 1.92e-65 211
MsaG012870 AT3G26744.2 55.789 190 79 1 65 249 305 494 1.92e-65 211
MsaG012870 AT1G12860.1 58.757 177 72 1 65 240 265 441 1.46e-63 205
MsaG012870 AT3G26744.6 58.896 163 62 1 65 222 305 467 2.68e-59 195
MsaG012870 AT1G12860.2 59.748 159 63 1 65 222 265 423 9.78e-58 189
MsaG012870 AT5G65640.1 40.415 193 103 5 51 241 160 342 3.31e-29 113
MsaG012870 AT5G10570.1 40.323 186 91 5 57 241 140 306 1.38e-27 108
MsaG012870 AT2G16910.1 35.196 179 99 2 66 227 313 491 3.31e-26 107
MsaG012870 AT2G28160.1 32.020 203 111 7 17 209 86 271 5.96e-18 82.0
MsaG012870 AT2G28160.2 32.020 203 111 7 17 209 86 271 6.42e-18 81.6
MsaG012870 AT5G46760.1 32.979 188 119 4 55 240 403 585 1.01e-17 82.4
MsaG012870 AT5G65640.2 58.108 74 29 1 51 122 160 233 9.64e-16 75.5
MsaG012870 AT4G17880.1 32.258 186 117 4 55 239 404 581 1.03e-15 76.6
MsaG012870 AT4G29930.2 30.000 150 86 2 66 212 53 186 2.53e-15 73.2
MsaG012870 AT4G29930.5 30.000 150 86 2 66 212 53 186 3.89e-15 72.8
MsaG012870 AT4G29930.6 30.612 147 92 1 66 212 53 189 1.11e-14 71.6
MsaG012870 AT2G46510.1 43.210 81 46 0 42 122 370 450 1.43e-14 73.2
MsaG012870 AT1G32640.1 29.897 194 114 5 55 240 440 619 2.33e-13 69.7
MsaG012870 AT5G57150.1 30.337 178 116 5 66 237 53 228 4.19e-13 67.4
MsaG012870 AT2G22760.1 26.036 169 103 3 69 227 121 277 7.82e-13 67.0
MsaG012870 AT4G29930.1 30.864 162 96 4 66 211 53 214 8.44e-13 66.6
MsaG012870 AT4G29930.3 30.864 162 96 4 66 211 53 214 1.11e-12 66.2
MsaG012870 AT4G29930.7 30.864 162 96 4 66 211 53 214 1.11e-12 66.2
MsaG012870 AT1G01260.1 42.857 84 48 0 55 138 421 504 1.74e-12 67.0
MsaG012870 AT1G01260.2 42.857 84 48 0 55 138 421 504 1.74e-12 67.0
MsaG012870 AT1G01260.3 42.857 84 48 0 55 138 421 504 1.74e-12 67.0
MsaG012870 AT4G00870.1 44.776 67 35 1 59 123 239 305 1.97e-12 66.6
MsaG012870 AT4G29930.4 46.154 65 35 0 66 130 53 117 2.29e-12 64.3
MsaG012870 AT5G57150.3 32.680 153 95 5 66 212 54 204 4.68e-12 63.9
MsaG012870 AT5G41315.1 30.769 156 84 3 70 204 444 596 4.80e-12 65.9
MsaG012870 AT5G41315.3 30.769 156 84 3 70 204 449 601 4.86e-12 65.9
MsaG012870 AT5G41315.2 30.769 156 84 3 70 204 452 604 4.92e-12 65.9
MsaG012870 AT4G09820.1 30.519 154 78 5 69 222 365 489 5.91e-12 65.5
MsaG012870 AT5G57150.2 32.680 153 95 5 66 212 54 204 6.01e-12 63.9
MsaG012870 AT2G22760.2 25.625 160 97 3 69 218 121 268 6.02e-12 64.7
MsaG012870 AT5G57150.5 32.680 153 95 5 66 212 53 203 7.23e-12 63.5
MsaG012870 AT1G63650.3 30.263 152 85 3 70 204 408 555 1.20e-11 64.7
MsaG012870 AT1G63650.1 30.263 152 85 3 70 204 408 555 1.20e-11 64.7
MsaG012870 AT1G63650.2 30.263 152 85 3 70 204 408 555 1.20e-11 64.7
MsaG012870 AT5G57150.4 50.000 68 30 2 66 130 54 120 2.67e-11 62.4
MsaG012870 AT1G10610.3 46.575 73 34 1 56 123 151 223 3.50e-11 62.8
MsaG012870 AT1G10610.2 45.333 75 36 1 56 125 218 292 3.92e-11 62.8
MsaG012870 AT1G10610.1 45.333 75 36 1 56 125 248 322 4.11e-11 62.8

Find 58 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AAGTAAATAAATACCTTTGC+TGG 0.304197 3:-35487304 None:intergenic
TATGATACCTTGCTAATCTT+TGG 0.307734 3:-35486308 None:intergenic
TGCTTCCAAACCAGGTGTTT+TGG 0.321052 3:+35487527 MsaT012870.1:CDS
GGCAATGGCATAAATGATTT+AGG 0.332588 3:-35487199 None:intergenic
AACTGTTCTTTAAGTTGAAC+TGG 0.363366 3:-35487247 None:intergenic
GAGGTTAGTGTAAGGGAAGG+GGG 0.370874 3:+35487480 MsaT012870.1:CDS
TTTGCCTGTGGGTCAACTCC+TGG 0.380482 3:-35488508 None:intergenic
ACTGAACTCACACCATTTGA+TGG 0.389584 3:-35488562 None:intergenic
TCAGCGATGAGACTCTTTGA+TGG 0.390318 3:-35486230 None:intergenic
ATGGATAAAGTTTCAATACT+TGG 0.403138 3:+35487103 MsaT012870.1:CDS
CGAGACCAAAACACCTGGTT+TGG 0.403922 3:-35487532 None:intergenic
AGCAGTATTGTTGAAGGCAT+TGG 0.403929 3:+35488535 MsaT012870.1:CDS
AGAGGTTAGTGTAAGGGAAG+GGG 0.415000 3:+35487479 MsaT012870.1:CDS
ATCATCAAAATTATCTATGA+TGG 0.425712 3:-35486159 None:intergenic
TGCAGGTAGAGGTTAGTGTA+AGG 0.441298 3:+35487472 MsaT012870.1:intron
TGGATAAAGTTTCAATACTT+GGG 0.444870 3:+35487104 MsaT012870.1:CDS
GAGAAGAAGATGAGAAAAGA+TGG 0.452397 3:+35486029 None:intergenic
GGCATTGGATTCCCATCAAA+TGG 0.465403 3:+35488550 MsaT012870.1:CDS
AAGATGAGAAAAGATGGAAA+TGG 0.473387 3:+35486035 None:intergenic
GCAGGTAGAGGTTAGTGTAA+GGG 0.480291 3:+35487473 MsaT012870.1:intron
CCTTGCATTGGATGTTCACC+AGG 0.489700 3:+35487575 MsaT012870.1:CDS
ATGATTTGTGCTTCCAAACC+AGG 0.496412 3:+35487519 MsaT012870.1:CDS
GTTGACATGGTAGATGTCAT+AGG 0.500385 3:-35487220 None:intergenic
TGAAACAACTTATGTTAGCC+TGG 0.501626 3:-35487593 None:intergenic
TTCTTTAAGTTGAACTGGAA+GGG 0.502373 3:-35487242 None:intergenic
AAATAAATACCTTTGCTGGT+TGG 0.513465 3:-35487300 None:intergenic
GGCATTAGATAGCCTTGCAT+TGG 0.514399 3:+35487563 MsaT012870.1:CDS
AATAAAAGCAGTATTGTTGA+AGG 0.528698 3:+35488529 MsaT012870.1:CDS
GGATGCTGTTGACTACTTGA+AGG 0.529367 3:+35487126 MsaT012870.1:CDS
GGACCGAAAAGCGAAGAAGA+AGG 0.532518 3:+35486202 MsaT012870.1:CDS
TTGGGAAGATGAGGAACCAT+AGG 0.539398 3:+35486105 MsaT012870.1:CDS
TAGAGGTTAGTGTAAGGGAA+GGG 0.540206 3:+35487478 MsaT012870.1:CDS
CTAATGAGAGTGTTGATGTT+GGG 0.543283 3:+35486087 MsaT012870.1:CDS
GTTCTTTAAGTTGAACTGGA+AGG 0.548361 3:-35487243 None:intergenic
CTGAACTCACACCATTTGAT+GGG 0.566200 3:-35488561 None:intergenic
AGGTTAGTGTAAGGGAAGGG+GGG 0.566704 3:+35487481 MsaT012870.1:CDS
GTAGAGGTTAGTGTAAGGGA+AGG 0.567309 3:+35487477 MsaT012870.1:CDS
TGAAAATTGTGTTGCTGAGG+GGG 0.581516 3:+35486181 MsaT012870.1:CDS
TCTAGATGTGTTCAAAGCTG+AGG 0.585169 3:+35487626 MsaT012870.1:CDS
GGATAAAGTTTCAATACTTG+GGG 0.586418 3:+35487105 MsaT012870.1:CDS
GGAAATGGAGTGGTTGACAA+AGG 0.589998 3:+35486050 MsaT012870.1:CDS
TCATCGCTGAGAGGAAGCGA+AGG 0.590161 3:+35486243 MsaT012870.1:CDS
ATGGTAGATGTCATAGGCAA+TGG 0.592443 3:-35487214 None:intergenic
ATGAAAATTGTGTTGCTGAG+GGG 0.598682 3:+35486180 MsaT012870.1:CDS
CCTGGTGAACATCCAATGCA+AGG 0.619274 3:-35487575 None:intergenic
TTGAACTGGAAGGGTTGACA+TGG 0.619510 3:-35487233 None:intergenic
TCTAATGAGAGTGTTGATGT+TGG 0.621197 3:+35486086 MsaT012870.1:CDS
TCAGCAACACAATAAAGACC+AGG 0.624613 3:+35488490 MsaT012870.1:intron
TGTTGTGCCAAAGATTAGCA+AGG 0.628908 3:+35486301 MsaT012870.1:CDS
GTGTTGATGTTGGGAAGATG+AGG 0.629576 3:+35486096 MsaT012870.1:CDS
TGATGAAAATTGTGTTGCTG+AGG 0.638841 3:+35486178 MsaT012870.1:CDS
AAGACCAGGAGTTGACCCAC+AGG 0.640631 3:+35488504 MsaT012870.1:CDS
GATGAAAATTGTGTTGCTGA+GGG 0.642802 3:+35486179 MsaT012870.1:CDS
TGGCATAAATGATTTAGGAG+AGG 0.645303 3:-35487194 None:intergenic
CAAAGAGTCTCATCGCTGAG+AGG 0.675915 3:+35486234 MsaT012870.1:CDS
GAGGAACCATAGGAAAAGTG+AGG 0.680938 3:+35486115 MsaT012870.1:CDS
GAGAAAAGATGGAAATGGAG+TGG 0.701649 3:+35486040 MsaT012870.1:CDS
ATAGTCGAGACCAAAACACC+TGG 0.710993 3:-35487537 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr3 gene 35486038 35488577 35486038 ID=MsaG012870
Chr3 mRNA 35486038 35488577 35486038 ID=MsaT012870.1;Parent=MsaG012870
Chr3 exon 35486038 35486322 35486038 ID=MsaT012870.1.exon1;Parent=MsaT012870.1
Chr3 CDS 35486038 35486322 35486038 ID=cds.MsaT012870.1;Parent=MsaT012870.1
Chr3 exon 35487103 35487312 35487103 ID=MsaT012870.1.exon2;Parent=MsaT012870.1
Chr3 CDS 35487103 35487312 35487103 ID=cds.MsaT012870.1;Parent=MsaT012870.1
Chr3 exon 35487477 35487647 35487477 ID=MsaT012870.1.exon3;Parent=MsaT012870.1
Chr3 CDS 35487477 35487647 35487477 ID=cds.MsaT012870.1;Parent=MsaT012870.1
Chr3 exon 35488494 35488577 35488494 ID=MsaT012870.1.exon4;Parent=MsaT012870.1
Chr3 CDS 35488494 35488577 35488494 ID=cds.MsaT012870.1;Parent=MsaT012870.1
Gene Sequence

>MsaT012870.1

ATGAGAAAAGATGGAAATGGAGTGGTTGACAAAGGATTGAATTACAACTCTAATGAGAGTGTTGATGTTGGGAAGATGAGGAACCATAGGAAAAGTGAGGACAATAATTATAACACAAATACCATCATAGATAATTTTGATGATGAAAATTGTGTTGCTGAGGGGGACCGAAAAGCGAAGAAGAAGGAAAATCCATCAAAGAGTCTCATCGCTGAGAGGAAGCGAAGGAAGAAACTCAAGAATAATATGCACAAGCTTCGTTCTGTTGTGCCAAAGATTAGCAAGATGGATAAAGTTTCAATACTTGGGGATGCTGTTGACTACTTGAAGGAGTTACGACAACAAATTAATGATCTTCAAAGTGAGATAGAATCAACCTCTCCTAAATCATTTATGCCATTGCCTATGACATCTACCATGTCAACCCTTCCAGTTCAACTTAAAGAACAGTTATTTCAAAACAATGTATCAAGCCTTAAAAACCAACCAGCAAAGGTAGAGGTTAGTGTAAGGGAAGGGGGGATTGTCAACATACGTATGATTTGTGCTTCCAAACCAGGTGTTTTGGTCTCGACTATGATGGCATTAGATAGCCTTGCATTGGATGTTCACCAGGCTAACATAAGTTGTTTCAATGATTTTTCTCTAGATGTGTTCAAAGCTGAGCAACACAATAAAGACCAGGAGTTGACCCACAGGCAAATAAAAGCAGTATTGTTGAAGGCATTGGATTCCCATCAAATGGTGTGA
Protein sequence

>MsaT012870.1

MRKDGNGVVDKGLNYNSNESVDVGKMRNHRKSEDNNYNTNTIIDNFDDENCVAEGDRKAKKKENPSKSLIAERKRRKKLKNNMHKLRSVVPKISKMDKVSILGDAVDYLKELRQQINDLQSEIESTSPKSFMPLPMTSTMSTLPVQLKEQLFQNNVSSLKNQPAKVEVSVREGGIVNIRMICASKPGVLVSTMMALDSLALDVHQANISCFNDFSLDVFKAEQHNKDQELTHRQIKAVLLKALDSHQMV*