AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG033063

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG033063 MtrunA17_Chr2g0307131 88.757 338 29 2 1 333 1 334 0.0 570
MsaG033063 MtrunA17_Chr2g0307141 84.211 342 41 4 1 333 1 338 0.0 532
MsaG033063 MtrunA17_Chr6g0468491 66.879 314 79 5 23 333 1 292 4.41e-137 395
MsaG033063 MtrunA17_Chr6g0468461 63.478 345 87 7 1 335 1 316 2.28e-132 384
MsaG033063 MtrunA17_Chr4g0033391 62.575 334 89 7 1 333 1 299 1.53e-126 369
MsaG033063 MtrunA17_Chr4g0033291 61.605 349 76 9 1 333 1 307 2.92e-118 348
MsaG033063 MtrunA17_Chr4g0054581 58.564 362 108 10 1 329 1 353 6.35e-116 343
MsaG033063 MtrunA17_Chr4g0033281 60.807 347 79 6 1 333 1 304 2.74e-115 340
MsaG033063 MtrunA17_Chr7g0225901 54.313 313 65 5 23 330 1 240 9.91e-98 293
MsaG033063 MtrunA17_Chr4g0054621 49.711 346 135 11 1 333 1 320 6.11e-90 276
MsaG033063 MtrunA17_Chr5g0400621 53.991 213 85 3 133 333 101 312 1.03e-56 190
MsaG033063 MtrunA17_Chr5g0400641 56.051 157 61 2 181 333 1 153 3.45e-46 156
MsaG033063 MtrunA17_Chr5g0400661 36.443 343 156 11 13 329 7 313 9.86e-41 147
MsaG033063 MtrunA17_Chr2g0280161 49.032 155 78 1 176 329 175 329 2.14e-40 147
MsaG033063 MtrunA17_Chr4g0054551 47.097 155 78 2 176 329 153 304 1.87e-37 139
MsaG033063 MtrunA17_Chr4g0002781 38.767 227 122 4 110 329 112 328 1.19e-36 137
MsaG033063 MtrunA17_Chr4g0002801 37.391 230 125 4 110 333 97 313 1.97e-36 136
MsaG033063 MtrunA17_Chr4g0049331 36.154 260 139 5 97 329 27 286 2.06e-36 135
MsaG033063 MtrunA17_Chr4g0054561 47.097 155 78 2 176 329 153 304 2.25e-36 135
MsaG033063 MtrunA17_Chr8g0336681 33.566 286 147 7 80 329 36 314 4.79e-36 135
MsaG033063 MtrunA17_Chr2g0333621 38.426 216 123 4 117 329 82 290 5.71e-35 132
MsaG033063 MtrunA17_Chr5g0400671 33.110 299 161 6 54 329 20 302 1.29e-34 131
MsaG033063 MtrunA17_Chr4g0054571 46.995 183 82 4 158 329 130 308 1.42e-34 131
MsaG033063 MtrunA17_Chr2g0333641 37.778 225 122 6 123 333 70 290 5.09e-34 129
MsaG033063 MtrunA17_Chr7g0249811 43.030 165 84 2 165 329 153 307 2.38e-31 122
MsaG033063 MtrunA17_Chr2g0333611 33.491 212 134 4 134 341 1 209 5.01e-30 115
MsaG033063 MtrunA17_Chr2g0333541 34.677 248 145 5 96 329 3 247 1.01e-27 111
MsaG033063 MtrunA17_Chr1g0185621 34.014 147 77 4 178 310 475 615 6.45e-18 86.3
MsaG033063 MtrunA17_Chr8g0366751 32.727 165 97 3 164 314 445 609 4.89e-16 80.5
MsaG033063 MtrunA17_Chr8g0346161 31.469 143 87 4 178 314 291 428 8.34e-16 79.3
MsaG033063 MtrunA17_Chr4g0002851 35.000 140 59 2 201 333 65 179 3.73e-15 73.9
MsaG033063 MtrunA17_Chr5g0411341 29.016 193 119 4 164 340 476 666 6.84e-15 77.0
MsaG033063 MtrunA17_Chr7g0233441 35.714 140 66 3 201 333 57 179 9.77e-15 72.8
MsaG033063 MtrunA17_Chr8g0365711 27.128 188 110 4 157 330 227 401 2.57e-14 74.3
MsaG033063 MtrunA17_Chr7g0275821 30.667 150 96 2 178 327 252 393 5.25e-14 73.6
MsaG033063 MtrunA17_Chr4g0002831 33.766 154 74 5 189 333 53 187 2.36e-13 68.9
MsaG033063 MtrunA17_Chr7g0260841 43.333 90 42 2 151 231 319 408 7.32e-13 70.1
MsaG033063 MtrunA17_Chr8g0346151 29.167 144 92 3 178 314 279 419 3.73e-12 67.8
MsaG033063 MtrunA17_Chr1g0211081 26.606 218 128 6 129 314 264 481 1.80e-11 65.9
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG033063 AT4G37850.2 43.216 199 102 4 135 329 113 304 5.74e-38 140
MsaG033063 AT4G37850.1 43.216 199 102 4 135 329 113 304 5.74e-38 140
MsaG033063 AT2G22750.1 45.349 172 88 2 163 329 111 281 6.98e-33 126
MsaG033063 AT2G22750.2 45.349 172 88 2 163 329 111 281 7.06e-33 126
MsaG033063 AT2G22750.5 45.349 172 88 2 163 329 135 305 1.08e-32 126
MsaG033063 AT2G22750.4 45.349 172 88 2 163 329 139 309 1.10e-32 126
MsaG033063 AT2G22750.3 45.349 172 88 2 163 329 139 309 1.14e-32 126
MsaG033063 AT2G22760.2 32.963 270 151 6 82 330 14 274 6.39e-32 123
MsaG033063 AT2G22760.1 33.086 269 150 6 82 329 14 273 8.82e-32 123
MsaG033063 AT2G22770.1 33.745 243 107 8 116 329 81 298 5.03e-27 110
MsaG033063 AT5G46760.1 35.556 180 93 7 147 311 388 559 5.21e-18 86.7
MsaG033063 AT4G17880.1 36.420 162 85 5 164 311 399 556 1.50e-17 85.5
MsaG033063 AT1G32640.1 27.895 190 125 4 164 345 435 620 3.00e-16 81.3
MsaG033063 AT1G63650.3 29.146 199 103 8 178 345 405 596 6.80e-14 73.9
MsaG033063 AT1G63650.1 29.146 199 103 8 178 345 405 596 6.80e-14 73.9
MsaG033063 AT1G63650.2 29.146 199 103 8 178 345 405 596 6.80e-14 73.9
MsaG033063 AT1G01260.1 29.333 150 84 2 178 327 433 560 1.04e-13 73.6
MsaG033063 AT1G01260.2 29.333 150 84 2 178 327 433 560 1.04e-13 73.6
MsaG033063 AT1G01260.3 29.333 150 84 2 178 327 433 560 1.04e-13 73.6
MsaG033063 AT4G16430.1 46.154 78 39 1 164 238 303 380 3.82e-13 71.2
MsaG033063 AT2G46510.1 45.000 80 39 2 164 240 378 455 4.08e-13 71.6
MsaG033063 AT4G09820.1 34.127 126 53 3 179 299 364 464 5.78e-13 70.9
MsaG033063 AT5G41315.3 30.682 176 90 7 178 326 446 616 1.54e-11 66.6
MsaG033063 AT4G00870.1 32.576 132 58 3 176 290 247 364 1.56e-11 66.2
MsaG033063 AT5G41315.2 28.977 176 93 6 178 326 449 619 1.63e-11 66.6
MsaG033063 AT5G41315.1 28.161 174 97 5 178 326 441 611 1.72e-11 66.6

Find 68 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GAACTAGTAGTAGGTGAATT+TGG 0.157544 6:+75118472 None:intergenic
CGATATTGATAAAACAATTA+TGG 0.241298 6:-75118593 MsaT033063.1:CDS
AACTAGTAGTAGGTGAATTT+GGG 0.258364 6:+75118473 None:intergenic
TCTTGTTCCCAACCTTAAAA+AGG 0.269180 6:-75118245 MsaT033063.1:intron
CAGCAGCTGGTTATCTGATT+TGG 0.298434 6:-75119924 MsaT033063.1:intron
CAAGTGGAAGCAAAAGTGTT+AGG 0.299198 6:-75117584 MsaT033063.1:CDS
TGGAGGTAACGTGGACATTA+TGG 0.344643 6:-75115335 MsaT033063.1:CDS
CACCAGTATCAAGCATATTC+AGG 0.356769 6:+75118740 None:intergenic
CTGCAAGAGCAATGAAGCTT+TGG 0.357341 6:+75118269 None:intergenic
TTCAGTGTCTCCTACCGAAT+TGG 0.361875 6:-75118395 MsaT033063.1:CDS
TACTTGGTGGTTAAGATTTG+TGG 0.393340 6:-75115407 MsaT033063.1:intron
TGGTTAAGATTTGTGGGAAT+TGG 0.397003 6:-75115400 MsaT033063.1:intron
GGGACTTCTAGTCAAAATTA+TGG 0.406834 6:-75117522 MsaT033063.1:CDS
TCATCATCGCTGCAGAAGTC+TGG 0.439235 6:+75117656 None:intergenic
ACTTGGTGGTTAAGATTTGT+GGG 0.439989 6:-75115406 MsaT033063.1:intron
AAACATTCGAAGGGAGGAAA+TGG 0.444656 6:-75115842 MsaT033063.1:CDS
GGTCAAATCCAGAAAATTGT+TGG 0.450466 6:+75118449 None:intergenic
GAAGAAAGATTATGTGTGTT+GGG 0.455055 6:-75115911 MsaT033063.1:CDS
ATTTAGTGATGAAACAAAGT+TGG 0.458588 6:-75118629 MsaT033063.1:CDS
TGCAAGAGCAATGAAGCTTT+GGG 0.460124 6:+75118270 None:intergenic
AAGTGGAAGCAAAAGTGTTA+GGG 0.462288 6:-75117583 MsaT033063.1:CDS
TAGGGAAATACATGTTGATT+CGG 0.467508 6:-75117565 MsaT033063.1:CDS
TATGGCCACAACTAATTTGA+AGG 0.472639 6:-75115317 MsaT033063.1:CDS
TGATATTACTATCATTGCTC+AGG 0.480526 6:-75117432 MsaT033063.1:intron
GTCAAATCCAGAAAATTGTT+GGG 0.480993 6:+75118450 None:intergenic
GAGCGCAATGAAAGTGTTGT+TGG 0.490652 6:-75117617 MsaT033063.1:CDS
ATCGCTGCAGAAGTCTGGTT+TGG 0.490772 6:+75117661 None:intergenic
CTCGAATCATTCTACCATAG+AGG 0.494536 6:-75115267 None:intergenic
GTTGGCAAGAGTGCAATCAC+TGG 0.494573 6:-75115370 MsaT033063.1:CDS
AATTGTTGGGAACTAGTAGT+AGG 0.495232 6:+75118463 None:intergenic
GTTGATTCGGATCCAATGTA+AGG 0.498122 6:-75117552 MsaT033063.1:CDS
GTCCCTTGTGATCCTTACAT+TGG 0.512495 6:+75117540 None:intergenic
AACCTGAATATGCTTGATAC+TGG 0.514353 6:-75118742 MsaT033063.1:CDS
GAGCAATGATAGTAATATCA+AGG 0.522227 6:+75117435 None:intergenic
CTCTATGGTAGAATGATTCG+AGG 0.529741 6:+75115268 None:intergenic
TGAAGAAAGATTATGTGTGT+TGG 0.535107 6:-75115912 MsaT033063.1:CDS
GGAACACAATTTATTTGCTG+AGG 0.543803 6:-75118770 MsaT033063.1:CDS
TAATGTTGAGGATCATATCA+TGG 0.558527 6:-75118320 MsaT033063.1:CDS
AAGTATCATCAAGCAGCAGC+TGG 0.560203 6:-75119937 MsaT033063.1:CDS
GTGGGAATTGGACAAAGTGT+TGG 0.560297 6:-75115388 MsaT033063.1:CDS
ATGGCCACAACTAATTTGAA+GGG 0.562663 6:-75115316 MsaT033063.1:CDS
TCAAGGATGGAATCTCCAAA+GGG 0.562816 6:+75117452 None:intergenic
GTCTCGTGCTAATAATGTTG+AGG 0.579610 6:-75118332 MsaT033063.1:CDS
ATCAAGGATGGAATCTCCAA+AGG 0.580088 6:+75117451 None:intergenic
AATGATAGTAATATCAAGGA+TGG 0.583388 6:+75117439 None:intergenic
AGGGATGATACTGAGAGAAG+AGG 0.584474 6:-75115874 MsaT033063.1:CDS
GATCCAGTGAAAACATTCGA+AGG 0.589839 6:-75115852 MsaT033063.1:CDS
AAATGTGTTGCTGAGAGTTG+TGG 0.591764 6:+75118648 None:intergenic
ACTGGGCAAAAGTGTGGTGG+AGG 0.592553 6:-75115352 MsaT033063.1:CDS
ATTGCGCTCATCAAATGATG+AGG 0.605739 6:+75117631 None:intergenic
TGTTGGTTCAATATTTCAAG+TGG 0.607961 6:-75117600 MsaT033063.1:CDS
TTGGCAAGAGTGCAATCACT+GGG 0.612540 6:-75115369 MsaT033063.1:CDS
GGACACTATCAAATACATGA+AGG 0.619002 6:-75117756 MsaT033063.1:CDS
TGGCCACAACTAATTTGAAG+GGG 0.628987 6:-75115315 MsaT033063.1:CDS
CAGTGAAAACATTCGAAGGG+AGG 0.630548 6:-75115848 MsaT033063.1:CDS
GGCCACAACTAATTTGAAGG+GGG 0.630629 6:-75115314 MsaT033063.1:CDS
GATCCAATGTAAGGATCACA+AGG 0.634465 6:-75117543 MsaT033063.1:CDS
ATCCAGTGAAAACATTCGAA+GGG 0.635047 6:-75115851 MsaT033063.1:CDS
ATCACTGGGCAAAAGTGTGG+TGG 0.638283 6:-75115355 MsaT033063.1:CDS
GAATATGCTTGATACTGGTG+TGG 0.643647 6:-75118737 MsaT033063.1:CDS
CTTTATGTTCAGACTTACCG+CGG 0.648395 6:-75115952 MsaT033063.1:intron
AAAGTGTGGTGGAGGTAACG+TGG 0.653018 6:-75115344 MsaT033063.1:CDS
ACTAGTAGTAGGTGAATTTG+GGG 0.663794 6:+75118474 None:intergenic
GCAATCACTGGGCAAAAGTG+TGG 0.672174 6:-75115358 MsaT033063.1:CDS
TCTATGGTAGAATGATTCGA+GGG 0.673519 6:+75115269 None:intergenic
GCCACAACTAATTTGAAGGG+GGG 0.677439 6:-75115313 MsaT033063.1:CDS
ATCCAATGTAAGGATCACAA+GGG 0.757305 6:-75117542 MsaT033063.1:CDS
CTAGTAGTAGGTGAATTTGG+GGG 0.786954 6:+75118475 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr6 gene 75115270 75119987 75115270 ID=MsaG033063
Chr6 mRNA 75115270 75119987 75115270 ID=MsaT033063.1;Parent=MsaG033063
Chr6 exon 75115270 75115414 75115270 ID=MsaT033063.1.exon5;Parent=MsaT033063.1
Chr6 CDS 75115270 75115414 75115270 ID=cds.MsaT033063.1;Parent=MsaT033063.1
Chr6 exon 75115817 75115962 75115817 ID=MsaT033063.1.exon4;Parent=MsaT033063.1
Chr6 CDS 75115817 75115962 75115817 ID=cds.MsaT033063.1;Parent=MsaT033063.1
Chr6 exon 75117433 75117801 75117433 ID=MsaT033063.1.exon3;Parent=MsaT033063.1
Chr6 CDS 75117433 75117801 75117433 ID=cds.MsaT033063.1;Parent=MsaT033063.1
Chr6 exon 75118246 75118800 75118246 ID=MsaT033063.1.exon2;Parent=MsaT033063.1
Chr6 CDS 75118246 75118800 75118246 ID=cds.MsaT033063.1;Parent=MsaT033063.1
Chr6 exon 75119925 75119987 75119925 ID=MsaT033063.1.exon1;Parent=MsaT033063.1
Chr6 CDS 75119925 75119987 75119925 ID=cds.MsaT033063.1;Parent=MsaT033063.1
Gene Sequence

>MsaT033063.1

ATGGAGGAAATCAACAGCACAGCTATGAAAGTATCATCAAGCAGCAGCTGGTTATCTGATTTGGAAATGGAGGAACACAATTTATTTGCTGAGGAATGCAACCTGAATATGCTTGATACTGGTGTGGAAGATTTTCTTTCACATGACATAGCGAATGTCTTCCAAGAACAAAATAAACTACAATGTTTAACTTCCACAACTCTCAGCAACACATTTAGTGATGAAACAAAGTTGGATTGTTTTGACTTCGATATTGATAAAACAATTATGGAGATGAAAACAATTGATCATAGTGACAATATCAATGAAACTTTTTCACAAAAACTTTCTTCATCTTTTGAAGTTCAAATCCCATCTTTTGACAGTCCCCCAAATTCACCTACTACTAGTTCCCAACAATTTTCTGGATTTGACCCTACCTTAAACTCAAAACAAAATGAAACAGTTTCAGTGTCTCCTACCGAATTGGAAAACAAGAATAATTCCACAAAAACCTCAAAAAGCAAAAGGTCTCGTGCTAATAATGTTGAGGATCATATCATGGCAGAGAGAAAGCGAAGAGAGAAACTCACCCAAAGCTTCATTGCTCTTGCAGCTCTTGTTCCCAACCTTAAAAAGATGGACAAGTTTTCTGTACTAGTGGACACTATCAAATACATGAAGGAGCTTAAAAAGCGTTTGGAAGTTTTAGAAGAACAAAACAAGAGAATAAAAACAGAGTCATATGTGGTTCTGACCAAACCAGACTTCTGCAGCGATGATGATTCCTCATCATTTGATGAGCGCAATGAAAGTGTTGTTGGTTCAATATTTCAAGTGGAAGCAAAAGTGTTAGGGAAATACATGTTGATTCGGATCCAATGTAAGGATCACAAGGGACTTCTAGTCAAAATTATGGTCGAGATTCAAAGATTTCAACTATGTGTTGTCAATAGTAGTGTTTTACCCTTTGGAGATTCCATCCTTGATATTACTATCATTGCTCAGACTTACCGCGGAAAATTGCAGCAAAGAATGAAGAAAGATTATGTGTGTTGGGATTTTAATGCAATCAGGGATGATACTGAGAGAAGAGGATCCAGTGAAAACATTCGAAGGGAGGAAATGGAAGCTTTTGATGATTTTATTGTTGGATTTGTGGGAATTGGACAAAGTGTTGGCAAGAGTGCAATCACTGGGCAAAAGTGTGGTGGAGGTAACGTGGACATTATGGCCACAACTAATTTGAAGGGGGGAGGAGGAAGCGGTGGTGTCATCCCTCGAATCATTCTACCATAG
Protein sequence

>MsaT033063.1

MEEINSTAMKVSSSSSWLSDLEMEEHNLFAEECNLNMLDTGVEDFLSHDIANVFQEQNKLQCLTSTTLSNTFSDETKLDCFDFDIDKTIMEMKTIDHSDNINETFSQKLSSSFEVQIPSFDSPPNSPTTSSQQFSGFDPTLNSKQNETVSVSPTELENKNNSTKTSKSKRSRANNVEDHIMAERKRREKLTQSFIALAALVPNLKKMDKFSVLVDTIKYMKELKKRLEVLEEQNKRIKTESYVVLTKPDFCSDDDSSSFDERNESVVGSIFQVEAKVLGKYMLIRIQCKDHKGLLVKIMVEIQRFQLCVVNSSVLPFGDSILDITIIAQTYRGKLQQRMKKDYVCWDFNAIRDDTERRGSSENIRREEMEAFDDFIVGFVGIGQSVGKSAITGQKCGGGNVDIMATTNLKGGGGSGGVIPRIILP*