AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG005599

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG005599 MtrunA17_Chr1g0210151 90.751 346 23 3 82 423 1 341 0.0 611
MsaG005599 MtrunA17_Chr5g0422771 56.624 468 153 13 1 422 1 464 3.72e-166 474
MsaG005599 MtrunA17_Chr7g0256211 51.408 426 179 6 23 422 29 452 4.57e-142 413
MsaG005599 MtrunA17_Chr8g0353501 61.671 347 114 7 81 422 134 466 9.02e-142 412
MsaG005599 MtrunA17_Chr3g0093451 88.000 200 14 3 105 294 10 209 6.24e-125 360
MsaG005599 MtrunA17_Chr1g0174701 47.222 360 179 5 71 422 150 506 1.19e-109 332
MsaG005599 MtrunA17_Chr7g0258321 50.464 323 143 6 117 422 141 463 3.18e-108 327
MsaG005599 MtrunA17_Chr3g0124601 54.545 286 124 3 140 422 79 361 1.22e-102 309
MsaG005599 MtrunA17_Chr2g0321431 52.448 286 123 5 140 422 194 469 7.17e-102 311
MsaG005599 MtrunA17_Chr4g0026401 50.502 299 136 4 125 422 174 461 9.72e-100 306
MsaG005599 MtrunA17_Chr8g0382861 46.690 287 146 5 139 422 74 356 1.64e-81 254
MsaG005599 MtrunA17_Chr3g0115371 44.224 303 157 4 125 420 50 347 5.19e-81 253
MsaG005599 MtrunA17_Chr5g0424861 47.703 283 141 5 140 418 67 346 8.85e-78 245
MsaG005599 MtrunA17_Chr5g0424851 42.793 222 123 3 199 418 2 221 4.60e-51 177
MsaG005599 MtrunA17_Chr5g0424851 40.909 198 114 1 210 407 228 422 1.90e-46 165
MsaG005599 MtrunA17_Chr1g0196951 32.663 199 106 6 213 405 53 229 7.71e-20 88.2
MsaG005599 MtrunA17_Chr8g0384821 26.522 230 137 5 204 401 9 238 3.10e-15 75.5
MsaG005599 MtrunA17_Chr2g0315631 25.962 208 117 4 214 401 8 198 1.73e-13 69.7
MsaG005599 MtrunA17_Chr7g0242651 25.121 207 142 5 209 408 8 208 4.19e-11 62.8
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG005599 AT1G68640.1 53.390 472 145 9 3 422 4 452 2.03e-146 424
MsaG005599 AT5G06950.2 63.057 314 105 7 116 422 21 330 1.86e-131 382
MsaG005599 AT5G06950.4 63.057 314 105 7 116 422 21 330 1.86e-131 382
MsaG005599 AT5G06950.1 63.057 314 105 7 116 422 21 330 1.86e-131 382
MsaG005599 AT5G06950.5 63.057 314 105 7 116 422 21 330 1.86e-131 382
MsaG005599 AT5G06950.3 63.057 314 105 7 116 422 21 330 1.86e-131 382
MsaG005599 AT3G12250.6 57.101 345 129 5 82 422 1 330 5.46e-130 378
MsaG005599 AT3G12250.2 57.101 345 129 5 82 422 1 330 5.46e-130 378
MsaG005599 AT3G12250.7 57.101 345 129 5 82 422 1 330 5.46e-130 378
MsaG005599 AT3G12250.1 57.101 345 129 5 82 422 1 330 5.46e-130 378
MsaG005599 AT3G12250.5 62.252 302 105 4 125 422 7 303 7.19e-129 374
MsaG005599 AT3G12250.4 55.556 360 136 6 82 422 1 355 1.56e-128 375
MsaG005599 AT3G12250.3 62.252 302 105 4 125 422 28 324 2.27e-128 374
MsaG005599 AT5G06960.2 61.246 289 106 3 138 422 44 330 2.84e-120 353
MsaG005599 AT5G06960.1 61.246 289 106 3 138 422 44 330 2.84e-120 353
MsaG005599 AT5G06960.3 61.246 289 106 3 138 422 24 310 5.37e-120 352
MsaG005599 AT1G08320.2 54.181 299 128 4 125 422 39 329 3.03e-111 331
MsaG005599 AT1G08320.5 54.181 299 128 4 125 422 39 329 3.03e-111 331
MsaG005599 AT1G08320.1 54.181 299 128 4 125 422 163 453 6.16e-110 332
MsaG005599 AT1G08320.4 54.181 299 128 4 125 422 163 453 6.16e-110 332
MsaG005599 AT1G08320.3 54.181 299 128 4 125 422 163 453 6.16e-110 332
MsaG005599 AT5G06839.3 40.528 417 213 7 31 422 52 458 5.76e-101 308
MsaG005599 AT5G06839.1 49.180 305 136 4 135 422 113 415 1.69e-100 306
MsaG005599 AT5G06839.2 49.508 305 136 4 135 422 113 416 2.31e-100 305
MsaG005599 AT5G10030.5 52.962 287 127 4 140 422 80 362 2.35e-98 298
MsaG005599 AT5G10030.3 52.962 287 127 4 140 422 80 362 2.35e-98 298
MsaG005599 AT5G10030.1 52.962 287 127 4 140 422 80 362 2.35e-98 298
MsaG005599 AT5G10030.4 52.962 287 127 4 140 422 80 362 2.35e-98 298
MsaG005599 AT5G10030.2 52.962 287 127 4 140 422 80 362 2.35e-98 298
MsaG005599 AT1G77920.1 46.023 352 172 6 75 422 29 366 1.62e-95 291
MsaG005599 AT5G65210.6 51.399 286 133 4 140 422 14 296 4.94e-94 285
MsaG005599 AT5G65210.5 51.399 286 133 4 140 422 84 366 1.07e-93 286
MsaG005599 AT5G65210.7 51.399 286 133 4 140 422 84 366 1.07e-93 286
MsaG005599 AT5G65210.3 51.399 286 133 4 140 422 84 366 1.07e-93 286
MsaG005599 AT5G65210.1 51.399 286 133 4 140 422 84 366 1.07e-93 286
MsaG005599 AT5G65210.2 51.399 286 133 4 140 422 84 366 1.07e-93 286
MsaG005599 AT5G65210.4 51.399 286 133 4 140 422 84 366 1.07e-93 286
MsaG005599 AT1G22070.1 51.916 287 134 4 140 423 98 383 3.48e-93 286
MsaG005599 AT3G14880.2 23.810 210 122 4 217 401 17 213 1.17e-11 64.7

Find 88 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GATGTATTTCACATACTTTC+TGG 0.133806 1:-83318176 MsaT005599.1:CDS
CAATTCCTTTAGTATTCTTT+AGG 0.266207 1:+83317330 None:intergenic
GAAAAGTAGGTTAAGGAAAA+AGG 0.288507 1:-83319520 MsaT005599.1:intron
CCGTTCTTCCGAACTTCTTA+AGG 0.301460 1:-83318105 MsaT005599.1:intron
AGGTGCATTAGCATTTGATA+TGG 0.316721 1:-83318357 MsaT005599.1:CDS
GTCGAGCTCTTAATTCATTA+TGG 0.328896 1:-83317362 MsaT005599.1:CDS
ATGTATTTCACATACTTTCT+GGG 0.339033 1:-83318175 MsaT005599.1:CDS
CCCATTCTTCCTTCTTGCTT+AGG 0.356050 1:-83320503 MsaT005599.1:intron
AAACCACCTTGAGCCGTTAT+CGG 0.365933 1:-83317797 MsaT005599.1:CDS
CTTAGTCTTGCATTGATCCT+TGG 0.372651 1:+83319716 None:intergenic
ATCAGCTATAAATTCTCAAA+TGG 0.381451 1:-83318285 MsaT005599.1:CDS
TCATATTCAGGCTATGTGTT+TGG 0.384585 1:-83320131 MsaT005599.1:intron
ATTGGTTCAGCTTCTTCTTC+AGG 0.387251 1:-83319966 MsaT005599.1:CDS
TGGCCATTGCAAGAGCCATT+TGG 0.388199 1:+83317623 None:intergenic
TTCACATACTTTCTGGGTTG+TGG 0.392509 1:-83318169 MsaT005599.1:CDS
ACCATGATCCGCTGGAACTC+CGG 0.404015 1:+83318690 None:intergenic
TCCTCCACATCCACTGGATC+TGG 0.420633 1:-83317667 MsaT005599.1:CDS
GATCATGGTCATTCAATTGT+TGG 0.432278 1:-83318676 MsaT005599.1:CDS
TAGGGTGCATTTGTTGCAAC+CGG 0.435060 1:-83318709 MsaT005599.1:CDS
CAAAATCACCTTAAGAAGTT+CGG 0.438279 1:+83318097 None:intergenic
ACTAGAGACTTTCATTCATC+AGG 0.451246 1:-83317590 MsaT005599.1:intron
AGTGTTTATCCACCGTGTCT+TGG 0.455646 1:-83319779 MsaT005599.1:CDS
ACCTAAGCAAGAAGGAAGAA+TGG 0.460425 1:+83320502 None:intergenic
AGTCTCTAGTGTGGCAAGCT+TGG 0.468295 1:+83317603 None:intergenic
GTTGCAAGTAACTTGCAGTA+TGG 0.469501 1:-83320083 MsaT005599.1:CDS
TTCAGCTTCTTCTTCAGGCA+TGG 0.471184 1:-83319961 MsaT005599.1:CDS
CCTAAGCAAGAAGGAAGAAT+GGG 0.471498 1:+83320503 None:intergenic
CAAGGATCAATGCAAGACTA+AGG 0.474390 1:-83319715 MsaT005599.1:CDS
ATAGGCATATGTGCAACAAT+TGG 0.478088 1:-83318889 MsaT005599.1:intron
TGATATGGATTATGCTCGTT+GGG 0.481128 1:-83318342 MsaT005599.1:CDS
GCTTCAACAAGTACGTCAAC+AGG 0.483846 1:-83318829 MsaT005599.1:intron
TCAGCTATAAATTCTCAAAT+GGG 0.485434 1:-83318284 MsaT005599.1:CDS
GAACTGCATCTTCTTGTTGA+AGG 0.485780 1:-83318254 MsaT005599.1:CDS
TTGATATGGATTATGCTCGT+TGG 0.490400 1:-83318343 MsaT005599.1:CDS
TGGAAATGTTGCTGAGTACA+TGG 0.493141 1:-83317647 MsaT005599.1:CDS
CAAGGAGAGCGCGAGCAGCT+TGG 0.498749 1:+83317406 None:intergenic
ATCAACTGCTGATCCGATAA+CGG 0.503931 1:+83317784 None:intergenic
AATTGGAGAACAGTCGACTT+AGG 0.507628 1:-83318872 MsaT005599.1:CDS
TTTCTTAGGCTGATCTCTTG+AGG 0.513370 1:-83317470 MsaT005599.1:intron
ACCGGAGTTCCAGCGGATCA+TGG 0.518939 1:-83318691 MsaT005599.1:CDS
AAGGAAGAATGGGAAGAGAA+TGG 0.520953 1:+83320513 None:intergenic
TTATCGGATCAGCAGTTGAT+GGG 0.521698 1:-83317781 MsaT005599.1:CDS
ATTTCCAGATCCAGTGGATG+TGG 0.524593 1:+83317663 None:intergenic
CATGTCCTAAAGAATACTAA+AGG 0.527396 1:-83317335 None:intergenic
ACACTATCCTCCACATCCAC+TGG 0.532462 1:-83317673 MsaT005599.1:CDS
CACATGAAACATCTTTCTGC+AGG 0.533251 1:+83318140 None:intergenic
CTGCAAGGAAAAGTAGGTTA+AGG 0.538526 1:-83319527 MsaT005599.1:CDS
TGCTGAGTACATGGGCCAAA+TGG 0.539603 1:-83317638 MsaT005599.1:CDS
CCTTAAGAAGTTCGGAAGAA+CGG 0.540585 1:+83318105 None:intergenic
GTTATCGGATCAGCAGTTGA+TGG 0.541892 1:-83317782 MsaT005599.1:CDS
TCCACCGTGTCTTGGTGCAA+TGG 0.545619 1:-83319771 MsaT005599.1:CDS
TCTTGTAGTTGTTGAATCCA+AGG 0.547828 1:-83319733 MsaT005599.1:CDS
GTGCAATGGTGTTGGAAATG+AGG 0.552383 1:-83319757 MsaT005599.1:CDS
GGGCCAAATGGCTCTTGCAA+TGG 0.552891 1:-83317626 MsaT005599.1:CDS
GTGAGGCTGCAAGGAAAAGT+AGG 0.555483 1:-83319533 MsaT005599.1:CDS
TGCAGAATCGTGAGGCTGCA+AGG 0.558257 1:-83319542 MsaT005599.1:CDS
AGCGCGAGCAGCTTGGTGCG+CGG 0.560510 1:+83317413 None:intergenic
GCTGAGGATGCTTTATCTCA+AGG 0.575247 1:-83317727 MsaT005599.1:CDS
TGAGGATGGAAGAAACGCGT+TGG 0.582055 1:+83320316 None:intergenic
ATTGAATGACCATGATCCGC+TGG 0.583662 1:+83318682 None:intergenic
GTTGAAGAGCATAGGTGCAA+AGG 0.596176 1:-83318201 MsaT005599.1:CDS
GCTGATCCGATAACGGCTCA+AGG 0.599388 1:+83317791 None:intergenic
GGATGCTTTATCTCAAGGAA+TGG 0.606203 1:-83317722 MsaT005599.1:CDS
TTGTGTATTGTATAGAACAT+TGG 0.607394 1:-83319984 MsaT005599.1:intron
CAGCATGGTGATGTTGAGGA+TGG 0.607738 1:+83320302 None:intergenic
TGTTGCAACCGGAGTTCCAG+CGG 0.611050 1:-83318698 MsaT005599.1:CDS
GTGTCTTGGTGCAATGGTGT+TGG 0.611763 1:-83319765 MsaT005599.1:CDS
AGCAACATTTCCAGATCCAG+TGG 0.612783 1:+83317657 None:intergenic
AAGGATCAATGCAAGACTAA+GGG 0.612820 1:-83319714 MsaT005599.1:CDS
TGTAACTTACCTAAGCAAGA+AGG 0.614985 1:+83320494 None:intergenic
GAAAGATGTTTCATGTGGCT+CGG 0.616317 1:-83318134 MsaT005599.1:CDS
GCATTCTTCTCAGCAAGCTG+AGG 0.619429 1:-83317743 MsaT005599.1:CDS
TCCAGATCCAGTGGATGTGG+AGG 0.620584 1:+83317666 None:intergenic
AACACCATTGCACCAAGACA+CGG 0.624897 1:+83319767 None:intergenic
TCAACAGCATGGTGATGTTG+AGG 0.635192 1:+83320298 None:intergenic
TTATACAAGTTGAAGAGCAT+AGG 0.641756 1:-83318209 MsaT005599.1:CDS
AAATGAAATCATTTATGACA+AGG 0.642100 1:+83317388 None:intergenic
AGATGTTTCATGTGGCTCGG+TGG 0.642187 1:-83318131 MsaT005599.1:CDS
GGGTCAATCTGATGAGCACA+AGG 0.645680 1:-83319694 MsaT005599.1:intron
TATCGGATCAGCAGTTGATG+GGG 0.649177 1:-83317780 MsaT005599.1:CDS
TCGGCTGATGCAGAATCGTG+AGG 0.665525 1:-83319550 MsaT005599.1:CDS
CTGCAGAAAGATGTTTCATG+TGG 0.677608 1:-83318139 MsaT005599.1:CDS
TTGAGCTTAAATCAACAGCA+TGG 0.678647 1:+83320287 None:intergenic
AGAATGGGAAGAGAATGGTG+AGG 0.686067 1:+83320518 None:intergenic
GGAAATGTTGCTGAGTACAT+GGG 0.694330 1:-83317646 MsaT005599.1:CDS
ATGAATGAAAGTCTCTAGTG+TGG 0.704515 1:+83317594 None:intergenic
ACCATTGCACCAAGACACGG+TGG 0.708421 1:+83319770 None:intergenic
GATCCGATAACGGCTCAAGG+TGG 0.733902 1:+83317794 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr1 gene 83317338 83320568 83317338 ID=MsaG005599
Chr1 mRNA 83317338 83320568 83317338 ID=MsaT005599.1;Parent=MsaG005599
Chr1 exon 83317338 83317484 83317338 ID=MsaT005599.1.exon11;Parent=MsaT005599.1
Chr1 CDS 83317338 83317484 83317338 ID=cds.MsaT005599.1;Parent=MsaT005599.1
Chr1 exon 83317591 83317827 83317591 ID=MsaT005599.1.exon10;Parent=MsaT005599.1
Chr1 CDS 83317591 83317827 83317591 ID=cds.MsaT005599.1;Parent=MsaT005599.1
Chr1 exon 83318106 83318377 83318106 ID=MsaT005599.1.exon9;Parent=MsaT005599.1
Chr1 CDS 83318106 83318377 83318106 ID=cds.MsaT005599.1;Parent=MsaT005599.1
Chr1 exon 83318671 83318728 83318671 ID=MsaT005599.1.exon8;Parent=MsaT005599.1
Chr1 CDS 83318671 83318728 83318671 ID=cds.MsaT005599.1;Parent=MsaT005599.1
Chr1 exon 83318830 83318907 83318830 ID=MsaT005599.1.exon7;Parent=MsaT005599.1
Chr1 CDS 83318830 83318907 83318830 ID=cds.MsaT005599.1;Parent=MsaT005599.1
Chr1 exon 83319521 83319580 83319521 ID=MsaT005599.1.exon6;Parent=MsaT005599.1
Chr1 CDS 83319521 83319580 83319521 ID=cds.MsaT005599.1;Parent=MsaT005599.1
Chr1 exon 83319695 83319799 83319695 ID=MsaT005599.1.exon5;Parent=MsaT005599.1
Chr1 CDS 83319695 83319799 83319695 ID=cds.MsaT005599.1;Parent=MsaT005599.1
Chr1 exon 83319893 83319991 83319893 ID=MsaT005599.1.exon4;Parent=MsaT005599.1
Chr1 CDS 83319893 83319991 83319893 ID=cds.MsaT005599.1;Parent=MsaT005599.1
Chr1 exon 83320070 83320143 83320070 ID=MsaT005599.1.exon3;Parent=MsaT005599.1
Chr1 CDS 83320070 83320143 83320070 ID=cds.MsaT005599.1;Parent=MsaT005599.1
Chr1 exon 83320287 83320363 83320287 ID=MsaT005599.1.exon2;Parent=MsaT005599.1
Chr1 CDS 83320287 83320363 83320287 ID=cds.MsaT005599.1;Parent=MsaT005599.1
Chr1 exon 83320504 83320568 83320504 ID=MsaT005599.1.exon1;Parent=MsaT005599.1
Chr1 CDS 83320504 83320568 83320504 ID=cds.MsaT005599.1;Parent=MsaT005599.1
Gene Sequence

>MsaT005599.1

ATGCAAAACTTCAACACAACTGAATCAACCTCACCATTCTCTTCCCATTCTTCCTTCTTGCTTAGGGGAGATGATGAACTCAACATAAATCCAACGCGTTTCTTCCATCCTCAACATCACCATGCTGTTGATTTAAGCTCAAGCTATGTGTTTGGTGCAAAGTCTAACAATGTCACTGTTGTTGCAAGTAACTTGCAGTATGGAACATTCAATACTAACATTGGTTCAGCTTCTTCTTCAGGCATGGCAGATAACAGTCAAAAGACAGAAGATACTTCAACAGAAGATTTTGACAATGATGATAAAAACAACCAATGTTTATCCACCGTGTCTTGGTGCAATGGTGTTGGAAATGAGGCTCTTGTAGTTGTTGAATCCAAGGATCAATGCAAGACTAAGGGTCAATCTGATGAGCACAAGGCTCTTCGTCGGCTGATGCAGAATCGTGAGGCTGCAAGGAAAAGTAGGTTAAGGAAAAAGGCATATGTGCAACAATTGGAGAACAGTCGACTTAGGCTTGCTCAAATAGAACAAGAGCTTCAACAAGTACGTCAACAGGGTGCATTTGTTGCAACCGGAGTTCCAGCGGATCATGGTCATTCAATTGTTGGAAATAGTGCATTAGCATTTGATATGGATTATGCTCGTTGGGTAGATGAGCATCAACGACTAATCAATGACATAAGATCAGCTATAAATTCTCAAATGGGCGATAATGAACTGCATCTTCTTGTTGAAGGTGTCATGTCACATTATGATGAATTATACAAGTTGAAGAGCATAGGTGCAAAGGCTGATGTATTTCACATACTTTCTGGGTTGTGGAAGACACCTGCAGAAAGATGTTTCATGTGGCTCGGTGGATTCCGTTCTTCCGAACTTCTTAAGATTGTTAGAAACCACCTTGAGCCGTTATCGGATCAGCAGTTGATGGGGATCTACAATCTGCAGCATTCTTCTCAGCAAGCTGAGGATGCTTTATCTCAAGGAATGGAAGCATTGCAACAATCTCTTTCAGAAACACTATCCTCCACATCCACTGGATCTGGAAATGTTGCTGAGTACATGGGCCAAATGGCTCTTGCAATGGCCAAGCTTGCCACACTAGAGACTTTCATTCATCAGGCTGATCTCTTGAGGCAACAAACACTGCAACAGTTGCGTCGAATTTTGACCGCGCACCAAGCTGCTCGCGCTCTCCTTGTCATAAATGATTTCATTTCGCGTCGAGCTCTTAATTCATTATGGTCAGCATGTCCTAAAGAATACTAA
Protein sequence

>MsaT005599.1

MQNFNTTESTSPFSSHSSFLLRGDDELNINPTRFFHPQHHHAVDLSSSYVFGAKSNNVTVVASNLQYGTFNTNIGSASSSGMADNSQKTEDTSTEDFDNDDKNNQCLSTVSWCNGVGNEALVVVESKDQCKTKGQSDEHKALRRLMQNREAARKSRLRKKAYVQQLENSRLRLAQIEQELQQVRQQGAFVATGVPADHGHSIVGNSALAFDMDYARWVDEHQRLINDIRSAINSQMGDNELHLLVEGVMSHYDELYKLKSIGAKADVFHILSGLWKTPAERCFMWLGGFRSSELLKIVRNHLEPLSDQQLMGIYNLQHSSQQAEDALSQGMEALQQSLSETLSSTSTGSGNVAEYMGQMALAMAKLATLETFIHQADLLRQQTLQQLRRILTAHQAARALLVINDFISRRALNSLWSACPKEY*