AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG039434

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG039434 MtrunA17_Chr7g0258321 96.253 427 6 1 1 427 48 464 0.0 849
MsaG039434 MtrunA17_Chr1g0174701 72.311 437 87 6 13 427 83 507 0.0 639
MsaG039434 MtrunA17_Chr7g0256211 60.784 306 107 5 125 426 156 452 9.73e-128 376
MsaG039434 MtrunA17_Chr8g0353501 51.263 396 160 8 35 425 98 465 1.30e-127 377
MsaG039434 MtrunA17_Chr2g0321431 44.079 456 186 10 15 426 39 469 5.79e-118 353
MsaG039434 MtrunA17_Chr4g0026401 45.067 446 179 11 21 426 42 461 3.05e-113 341
MsaG039434 MtrunA17_Chr5g0422771 51.456 309 140 3 121 426 163 464 6.88e-106 321
MsaG039434 MtrunA17_Chr3g0124601 50.000 316 151 2 111 426 53 361 3.99e-104 313
MsaG039434 MtrunA17_Chr1g0210151 49.839 311 145 3 116 426 41 340 8.76e-102 306
MsaG039434 MtrunA17_Chr5g0424861 46.512 301 153 3 124 423 54 347 4.28e-87 269
MsaG039434 MtrunA17_Chr8g0382861 45.425 306 159 3 121 426 59 356 1.34e-86 268
MsaG039434 MtrunA17_Chr3g0115371 46.205 303 157 3 122 424 51 347 2.19e-83 259
MsaG039434 MtrunA17_Chr5g0424851 43.363 226 123 2 199 423 1 222 6.20e-56 191
MsaG039434 MtrunA17_Chr5g0424851 42.523 214 119 1 201 414 217 426 7.32e-54 185
MsaG039434 MtrunA17_Chr3g0093451 47.059 187 84 4 116 296 32 209 1.09e-52 175
MsaG039434 MtrunA17_Chr1g0196951 30.392 204 115 6 221 419 59 240 3.11e-20 89.4
MsaG039434 MtrunA17_Chr7g0242651 25.561 223 142 4 209 416 6 219 2.35e-14 72.4
MsaG039434 MtrunA17_Chr2g0315631 23.737 198 143 2 216 408 8 202 6.76e-13 67.8
MsaG039434 MtrunA17_Chr8g0384821 22.269 238 154 4 207 413 10 247 1.30e-11 64.7
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG039434 AT5G06839.3 59.955 442 147 12 12 427 22 459 6.38e-176 499
MsaG039434 AT5G06839.1 58.525 434 123 9 12 427 22 416 3.63e-172 488
MsaG039434 AT5G06839.2 58.161 435 124 9 12 427 22 417 2.54e-171 486
MsaG039434 AT1G08320.1 45.455 440 192 9 14 426 35 453 8.43e-123 365
MsaG039434 AT1G08320.4 45.455 440 192 9 14 426 35 453 8.43e-123 365
MsaG039434 AT1G08320.3 45.455 440 192 9 14 426 35 453 8.43e-123 365
MsaG039434 AT1G08320.2 58.305 295 109 4 132 426 49 329 3.75e-122 359
MsaG039434 AT1G08320.5 58.305 295 109 4 132 426 49 329 3.75e-122 359
MsaG039434 AT5G06950.2 53.420 307 134 2 122 426 31 330 1.15e-113 337
MsaG039434 AT5G06950.4 53.420 307 134 2 122 426 31 330 1.15e-113 337
MsaG039434 AT5G06950.1 53.420 307 134 2 122 426 31 330 1.15e-113 337
MsaG039434 AT5G06950.5 53.420 307 134 2 122 426 31 330 1.15e-113 337
MsaG039434 AT5G06950.3 53.420 307 134 2 122 426 31 330 1.15e-113 337
MsaG039434 AT3G12250.6 51.911 314 142 2 115 426 24 330 2.60e-113 335
MsaG039434 AT3G12250.2 51.911 314 142 2 115 426 24 330 2.60e-113 335
MsaG039434 AT3G12250.7 51.911 314 142 2 115 426 24 330 2.60e-113 335
MsaG039434 AT3G12250.1 51.911 314 142 2 115 426 24 330 2.60e-113 335
MsaG039434 AT3G12250.3 51.911 314 142 2 115 426 18 324 1.12e-112 333
MsaG039434 AT3G12250.5 52.597 308 137 2 121 426 3 303 2.76e-112 332
MsaG039434 AT3G12250.4 52.229 314 141 3 115 426 49 355 4.80e-112 333
MsaG039434 AT5G06960.2 54.762 294 124 2 135 426 44 330 1.28e-108 323
MsaG039434 AT5G06960.1 54.762 294 124 2 135 426 44 330 1.28e-108 323
MsaG039434 AT5G06960.3 54.762 294 124 2 135 426 24 310 1.65e-108 323
MsaG039434 AT1G68640.1 53.268 306 136 3 122 425 151 451 1.73e-105 320
MsaG039434 AT5G10030.5 50.508 295 138 3 132 426 76 362 4.44e-99 300
MsaG039434 AT5G10030.3 50.508 295 138 3 132 426 76 362 4.44e-99 300
MsaG039434 AT5G10030.1 50.508 295 138 3 132 426 76 362 4.44e-99 300
MsaG039434 AT5G10030.4 50.508 295 138 3 132 426 76 362 4.44e-99 300
MsaG039434 AT5G10030.2 50.508 295 138 3 132 426 76 362 4.44e-99 300
MsaG039434 AT1G77920.1 49.508 305 138 2 122 426 78 366 1.29e-98 299
MsaG039434 AT1G22070.1 51.623 308 137 5 122 426 84 382 1.42e-98 300
MsaG039434 AT5G65210.6 49.175 303 141 4 124 426 7 296 3.06e-96 291
MsaG039434 AT5G65210.5 47.335 319 157 4 111 426 56 366 1.10e-95 292
MsaG039434 AT5G65210.7 47.335 319 157 4 111 426 56 366 1.10e-95 292
MsaG039434 AT5G65210.3 47.335 319 157 4 111 426 56 366 1.10e-95 292
MsaG039434 AT5G65210.1 47.335 319 157 4 111 426 56 366 1.10e-95 292
MsaG039434 AT5G65210.2 47.335 319 157 4 111 426 56 366 1.10e-95 292
MsaG039434 AT5G65210.4 47.335 319 157 4 111 426 56 366 1.10e-95 292
MsaG039434 AT1G58330.1 26.840 231 140 5 205 416 3 223 2.22e-16 78.6

Find 91 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GATATATTTCATCTTGTTTC+TGG 0.146768 7:-89035711 MsaT039434.1:CDS
GTCCATTAAGATAGAGAAAA+AGG 0.218834 7:+89037757 None:intergenic
TAAACCTTCTGAACTCATTA+AGG 0.258020 7:-89035640 MsaT039434.1:intron
CAACAAATAATGGGCATATA+TGG 0.268804 7:-89034737 MsaT039434.1:CDS
AATGTTTGTGGACAAATTCT+TGG 0.284617 7:-89035781 MsaT039434.1:CDS
GTCCATGTAGTTGGTCATAT+TGG 0.290454 7:+89034607 None:intergenic
AGCTTATGATTTGGGTGAAT+TGG 0.294739 7:-89037787 MsaT039434.1:CDS
ATTGACCGAGCAACAAATAA+TGG 0.298535 7:-89034747 MsaT039434.1:CDS
GATTCGGGAGCTTATGATTT+GGG 0.302566 7:-89037795 MsaT039434.1:CDS
TGTACGTGCCTTAACAGCTT+TGG 0.332582 7:+89036879 None:intergenic
CACATGAAGCAACGTTCAAT+TGG 0.341843 7:+89035675 None:intergenic
TCCATGTAGTTGGTCATATT+GGG 0.346409 7:+89034608 None:intergenic
TATTAATTACACCTTAGAAT+TGG 0.350406 7:+89037048 None:intergenic
GTACGTGCCTTAACAGCTTT+GGG 0.362416 7:+89036880 None:intergenic
TGTTCATGGCCCTTGCCATT+TGG 0.365190 7:+89034585 None:intergenic
GCCATCATCGTCCAATTCTA+AGG 0.366357 7:-89037059 MsaT039434.1:intron
GGGTGGCTCTGATCCTCTCT+TGG 0.372781 7:+89036900 None:intergenic
TGCCATTTGGTCCATGTAGT+TGG 0.373834 7:+89034598 None:intergenic
TTCATCTTGTTTCTGGCATG+TGG 0.389553 7:-89035704 MsaT039434.1:CDS
TTTGGTGGAGGTGCAATGTT+GGG 0.390194 7:-89036031 MsaT039434.1:CDS
AGATTCGGGAGCTTATGATT+TGG 0.391428 7:-89037796 MsaT039434.1:CDS
AAGAGTGGAGAGTTTGTTCA+TGG 0.395292 7:+89034571 None:intergenic
ACATGAAGCAACGTTCAATT+GGG 0.406516 7:+89035676 None:intergenic
ATTATTTGTTGCTCGGTCAA+TGG 0.410343 7:+89034749 None:intergenic
GTCAGCAGAAATAAAGATTC+GGG 0.416098 7:-89037810 MsaT039434.1:intron
TCTTCATCACCCTCTGTCCT+TGG 0.418587 7:-89037962 MsaT039434.1:CDS
CTCTTGGATCCACTTGTTTG+CGG 0.419959 7:+89036916 None:intergenic
AGAGCCACCCAAAGCTGTTA+AGG 0.425349 7:-89036887 MsaT039434.1:CDS
AGAGATCACACCTGAGCTAA+TGG 0.429073 7:+89035979 None:intergenic
TTGCTGCTTGACGCGTCGTT+AGG 0.434401 7:+89032116 None:intergenic
GAGCTAATGGTATTCATAGA+AGG 0.438872 7:+89035992 None:intergenic
TGTCAGCAGAAATAAAGATT+CGG 0.439709 7:-89037811 MsaT039434.1:intron
TATGCCCATTATTTGTTGCT+CGG 0.446315 7:+89034742 None:intergenic
CTTTGGTGGAGGTGCAATGT+TGG 0.447414 7:-89036032 MsaT039434.1:CDS
GACCAACTACATGGACCAAA+TGG 0.454379 7:-89034600 MsaT039434.1:CDS
TTGACCGAGCAACAAATAAT+GGG 0.460762 7:-89034746 MsaT039434.1:CDS
TAGGGCATGTTCTTTGGTGG+AGG 0.462298 7:-89036043 MsaT039434.1:CDS
GATCTGATTCAGACGATGAA+TGG 0.463347 7:+89032138 None:intergenic
TCATGTTCAGAACTTGAAGT+TGG 0.464502 7:+89036604 None:intergenic
AAAGAGTTAACCTTAGGATC+TGG 0.468362 7:+89036568 None:intergenic
TCCACAGAAAATTCAACATC+AGG 0.468688 7:-89037133 MsaT039434.1:intron
TAAACTTAATCAGATGGAAC+AGG 0.470502 7:-89036170 MsaT039434.1:CDS
CTCTTAGTTCACATACTAAA+CGG 0.475671 7:+89035841 None:intergenic
CGTTGCTTCATGTGGATTGG+TGG 0.475727 7:-89035666 MsaT039434.1:CDS
GAATGAGCTTAGAATGTTTG+TGG 0.479362 7:-89035793 MsaT039434.1:CDS
ACCTTAGAATTGGACGATGA+TGG 0.485367 7:+89037058 None:intergenic
AACATTCTAAGCTCATTCTC+AGG 0.491670 7:+89035798 None:intergenic
ACCTAAAACACCAGATCCTA+AGG 0.513193 7:-89036578 MsaT039434.1:intron
CAATTGAACGTTGCTTCATG+TGG 0.518218 7:-89035674 MsaT039434.1:CDS
TCATCTTGTTTCTGGCATGT+GGG 0.519428 7:-89035703 MsaT039434.1:CDS
CAGAATTAAACTTAATCAGA+TGG 0.528140 7:-89036176 MsaT039434.1:CDS
GAACGTTGCTTCATGTGGAT+TGG 0.530260 7:-89035669 MsaT039434.1:CDS
GATTCAGACGATGAATGGTT+TGG 0.540713 7:+89032143 None:intergenic
TTTGGTCTTGAACACTGGAT+GGG 0.540777 7:+89037727 None:intergenic
GCTACCTTAATGAGTTCAGA+AGG 0.549582 7:+89035636 None:intergenic
TCCCAATATGACCAACTACA+TGG 0.555270 7:-89034609 MsaT039434.1:CDS
GAACTCACATGTAGTTTCCA+AGG 0.555892 7:+89037945 None:intergenic
GGAGAAGATGCTCTCTCTCA+AGG 0.558918 7:-89034692 MsaT039434.1:CDS
TGCTCTCTCTCAAGGACTTG+AGG 0.560629 7:-89034684 MsaT039434.1:CDS
AAAATTCAACATCAGGAATG+AGG 0.564641 7:-89037126 MsaT039434.1:CDS
AACTCAATGCTCGCATACGA+TGG 0.565611 7:+89032065 None:intergenic
TCTACATGCATAGGCTGAGA+AGG 0.566999 7:+89037082 None:intergenic
TCTATGAATACCATTAGCTC+AGG 0.570910 7:-89035989 MsaT039434.1:intron
TCTTGAAAGTTTCGTGAGAG+AGG 0.574448 7:-89034552 MsaT039434.1:intron
GCAATGTTGGGAGGAGAACA+AGG 0.577141 7:-89036019 MsaT039434.1:CDS
GGAATATGCGAGGTGGCTTG+AGG 0.581832 7:-89035871 MsaT039434.1:CDS
TTAGTTTCTCCGCAAACAAG+TGG 0.585262 7:-89036925 MsaT039434.1:CDS
GATGATGGCTCTACATGCAT+AGG 0.601506 7:+89037073 None:intergenic
GGTGGAGGTGCAATGTTGGG+AGG 0.609507 7:-89036028 MsaT039434.1:CDS
TCTCACGAAACTTTCAAGAG+TGG 0.621714 7:+89034556 None:intergenic
GCGAGCATTGAGTTCTCTGT+GGG 0.622812 7:-89032056 MsaT039434.1:CDS
TAACGACGCGTCAAGCAGCA+AGG 0.625480 7:-89032114 MsaT039434.1:CDS
TAATGGTATTCATAGAAGGA+AGG 0.626256 7:+89035996 None:intergenic
ACTACATGGACCAAATGGCA+AGG 0.628760 7:-89034595 MsaT039434.1:CDS
ATGTAGTTTCCAAGGACAGA+GGG 0.634416 7:+89037953 None:intergenic
CATGAAGCAACGTTCAATTG+GGG 0.638346 7:+89035677 None:intergenic
ATGTAGTTGGTCATATTGGG+AGG 0.641383 7:+89034611 None:intergenic
CAAACAAGTGGATCCAAGAG+AGG 0.644811 7:-89036913 MsaT039434.1:CDS
CGTGCCTTAACAGCTTTGGG+TGG 0.648085 7:+89036883 None:intergenic
AGCATTGAGTTCTCTGTGGG+TGG 0.652494 7:-89032053 MsaT039434.1:CDS
ACGATGGAAGTACTCAGCCA+TGG 0.660105 7:+89032081 None:intergenic
ACTTCAAGTTCTGAACATGA+AGG 0.660838 7:-89036601 MsaT039434.1:CDS
TGCGAGCATTGAGTTCTCTG+TGG 0.661165 7:-89032057 MsaT039434.1:CDS
CATGTAGTTTCCAAGGACAG+AGG 0.674553 7:+89037952 None:intergenic
CTACATGGACCAAATGGCAA+GGG 0.682858 7:-89034594 MsaT039434.1:CDS
TTGCAACAATCTACACAACA+AGG 0.684828 7:-89034713 MsaT039434.1:CDS
TGTTCGACGTGGAATATGCG+AGG 0.686245 7:-89035881 MsaT039434.1:CDS
AGAGGCTGCAATGTTCGACG+TGG 0.690011 7:-89035892 MsaT039434.1:CDS
ACTGAATGCTATTCTTGACG+CGG 0.733529 7:+89032025 None:intergenic
TCGACGTGGAATATGCGAGG+TGG 0.738111 7:-89035878 MsaT039434.1:CDS
TTAGTTCACATACTAAACGG+TGG 0.740777 7:+89035844 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr7 gene 89032033 89037996 89032033 ID=MsaG039434
Chr7 mRNA 89032033 89037996 89032033 ID=MsaT039434.1;Parent=MsaG039434
Chr7 exon 89032033 89032182 89032033 ID=MsaT039434.1.exon11;Parent=MsaT039434.1
Chr7 CDS 89032033 89032182 89032033 ID=cds.MsaT039434.1;Parent=MsaT039434.1
Chr7 exon 89034553 89034792 89034553 ID=MsaT039434.1.exon10;Parent=MsaT039434.1
Chr7 CDS 89034553 89034792 89034553 ID=cds.MsaT039434.1;Parent=MsaT039434.1
Chr7 exon 89035641 89035912 89035641 ID=MsaT039434.1.exon9;Parent=MsaT039434.1
Chr7 CDS 89035641 89035912 89035641 ID=cds.MsaT039434.1;Parent=MsaT039434.1
Chr7 exon 89035990 89036062 89035990 ID=MsaT039434.1.exon8;Parent=MsaT039434.1
Chr7 CDS 89035990 89036062 89035990 ID=cds.MsaT039434.1;Parent=MsaT039434.1
Chr7 exon 89036147 89036224 89036147 ID=MsaT039434.1.exon7;Parent=MsaT039434.1
Chr7 CDS 89036147 89036224 89036147 ID=cds.MsaT039434.1;Parent=MsaT039434.1
Chr7 exon 89036346 89036405 89036346 ID=MsaT039434.1.exon6;Parent=MsaT039434.1
Chr7 CDS 89036346 89036405 89036346 ID=cds.MsaT039434.1;Parent=MsaT039434.1
Chr7 exon 89036579 89036650 89036579 ID=MsaT039434.1.exon5;Parent=MsaT039434.1
Chr7 CDS 89036579 89036650 89036579 ID=cds.MsaT039434.1;Parent=MsaT039434.1
Chr7 exon 89036855 89036959 89036855 ID=MsaT039434.1.exon4;Parent=MsaT039434.1
Chr7 CDS 89036855 89036959 89036855 ID=cds.MsaT039434.1;Parent=MsaT039434.1
Chr7 exon 89037060 89037148 89037060 ID=MsaT039434.1.exon3;Parent=MsaT039434.1
Chr7 CDS 89037060 89037148 89037060 ID=cds.MsaT039434.1;Parent=MsaT039434.1
Chr7 exon 89037724 89037824 89037724 ID=MsaT039434.1.exon2;Parent=MsaT039434.1
Chr7 CDS 89037724 89037824 89037724 ID=cds.MsaT039434.1;Parent=MsaT039434.1
Chr7 exon 89037953 89037996 89037953 ID=MsaT039434.1.exon1;Parent=MsaT039434.1
Chr7 CDS 89037953 89037996 89037953 ID=cds.MsaT039434.1;Parent=MsaT039434.1
Gene Sequence

>MsaT039434.1

ATGATGCAATCTTCTTCATCACCCTCTGTCCTTGGAAACTACATAAATAAAGATTCGGGAGCTTATGATTTGGGTGAATTGGATCAAGCCCTTTTTCTCTATCTTAATGGACAAACTGACCCATCCAGTGTTCAAGACCAAAAACAAAATTCAACATCAGGAATGAGGCCACCAACTCTCAACATTTTTCCTTCTCAGCCTATGCATGTAGAGCCATCATCGTCCAATTCTAAGGCTAGCATGGAGTTAGTTTCTCCGCAAACAAGTGGATCCAAGAGAGGATCAGAGCCACCCAAAGCTGTTAAGGCACGTACAAAAATCATTATATTAAACCAATATCGAGAGAAAAATCATGGCAAGGGTCCAACTTCAAGTTCTGAACATGAAGGACCTAAAACACCAGATCCTAAGATACTGAGAAGACTTGCTCAGAATAGAGAAGCAGCTAGAAAAAGCAGGCTTAGGAAAAAGGCATATATTCAGCAGCTTGAGTCAAGCAGAATTAAACTTAATCAGATGGAACAGGAGCTACATCATGCTAGAAATCAAGGCATGTTCTTTGGTGGAGGTGCAATGTTGGGAGGAGAACAAGGCCTTCCTTCTATGAATACCATTAGCTCAGAGGCTGCAATGTTCGACGTGGAATATGCGAGGTGGCTTGAGGAGCACCACCGTTTAGTATGTGAACTAAGAGCTGCAGTTCATGAGCACATTCCTGAGAATGAGCTTAGAATGTTTGTGGACAAATTCTTGGCTCAATATGATCAAGTAGCTCATCTAAAGAGCTTAGTTGCAAAAGCAGATATATTTCATCTTGTTTCTGGCATGTGGGTTACCCCAATTGAACGTTGCTTCATGTGGATTGGTGGATTTAAACCTTCTGAACTCATTAAGATCATTGTGAGTCAAATTGAACCATTGACCGAGCAACAAATAATGGGCATATATGGATTGCAACAATCTACACAACAAGGAGAAGATGCTCTCTCTCAAGGACTTGAGGCTCTCAATCAAAATCTTTCTGAAACTATAACATCAGATTCATTGAGCTATCCTCCCAATATGACCAACTACATGGACCAAATGGCAAGGGCCATGAACAAACTCTCCACTCTTGAAAGTTTCGTGAGAGAGGCAGATAATCTACGACACCAAACCATTCATCGTCTGAATCAGATCCTAACGACGCGTCAAGCAGCAAGGTGTTTTCTTGCCATGGCTGAGTACTTCCATCGTATGCGAGCATTGAGTTCTCTGTGGGTGGCACGACCGCGTCAAGAATAG
Protein sequence

>MsaT039434.1

MMQSSSSPSVLGNYINKDSGAYDLGELDQALFLYLNGQTDPSSVQDQKQNSTSGMRPPTLNIFPSQPMHVEPSSSNSKASMELVSPQTSGSKRGSEPPKAVKARTKIIILNQYREKNHGKGPTSSSEHEGPKTPDPKILRRLAQNREAARKSRLRKKAYIQQLESSRIKLNQMEQELHHARNQGMFFGGGAMLGGEQGLPSMNTISSEAAMFDVEYARWLEEHHRLVCELRAAVHEHIPENELRMFVDKFLAQYDQVAHLKSLVAKADIFHLVSGMWVTPIERCFMWIGGFKPSELIKIIVSQIEPLTEQQIMGIYGLQQSTQQGEDALSQGLEALNQNLSETITSDSLSYPPNMTNYMDQMARAMNKLSTLESFVREADNLRHQTIHRLNQILTTRQAARCFLAMAEYFHRMRALSSLWVARPRQE*