AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG014968

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG014968 MtrunA17_Chr3g0112601 91.051 514 10 3 1 479 1 513 0.0 954
MsaG014968 MtrunA17_Chr5g0436051 68.605 516 113 6 1 479 113 616 0.0 674
MsaG014968 MtrunA17_Chr8g0373781 51.230 447 174 6 71 478 90 531 6.82e-137 405
MsaG014968 MtrunA17_Chr1g0154501 46.653 493 192 13 32 478 1 468 2.22e-134 396
MsaG014968 MtrunA17_Chr5g0403301 53.061 294 105 7 191 478 40 306 9.09e-86 266
MsaG014968 MtrunA17_Chr5g0403271 67.320 153 50 0 326 478 1 153 1.50e-60 195
MsaG014968 MtrunA17_Chr5g0403261 34.409 372 125 10 32 290 1 366 1.42e-51 179
MsaG014968 MtrunA17_Chr5g0403291 49.333 75 38 0 143 217 381 455 5.35e-20 92.8
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG014968 AT2G39830.1 60.194 515 155 7 8 479 21 528 0.0 580
MsaG014968 AT2G39830.2 59.846 518 155 8 8 479 21 531 0.0 574
MsaG014968 AT2G39830.3 59.417 515 150 8 8 479 21 519 0.0 565
MsaG014968 AT2G39830.4 57.178 404 127 5 8 370 21 419 6.20e-154 445
MsaG014968 AT4G36860.1 52.715 442 152 6 74 478 132 553 1.55e-141 417
MsaG014968 AT4G36860.3 52.715 442 152 6 74 478 156 577 2.24e-141 418
MsaG014968 AT1G19270.1 43.228 539 208 7 32 479 1 532 1.77e-139 412
MsaG014968 AT1G19270.2 43.228 539 208 7 32 479 1 532 1.77e-139 412
MsaG014968 AT4G36860.2 49.701 334 114 5 74 370 132 448 1.80e-100 309
MsaG014968 AT5G66620.1 35.882 510 253 13 8 471 159 640 3.83e-85 275
MsaG014968 AT5G66620.3 35.882 510 253 13 8 471 150 631 4.71e-85 274
MsaG014968 AT5G66620.4 35.882 510 253 13 8 471 150 631 4.71e-85 274
MsaG014968 AT5G66610.3 39.810 422 212 9 80 472 16 424 2.50e-82 261
MsaG014968 AT5G66610.1 40.047 422 211 10 80 472 143 551 1.56e-81 263
MsaG014968 AT5G66610.2 37.639 449 211 11 80 472 143 578 1.02e-75 249
MsaG014968 AT5G17890.1 38.571 420 194 10 104 478 1208 1608 1.11e-73 253
MsaG014968 AT5G66630.1 38.674 362 178 8 145 471 346 698 1.12e-70 238
MsaG014968 AT5G66640.1 38.395 349 170 6 166 471 92 438 6.36e-66 219
MsaG014968 AT5G66640.7 38.395 349 170 6 166 471 92 438 6.36e-66 219
MsaG014968 AT5G66640.4 38.506 348 169 6 167 471 124 469 9.97e-66 219
MsaG014968 AT5G66640.5 38.506 348 169 6 167 471 125 470 1.22e-65 219
MsaG014968 AT5G66640.3 40.244 328 168 9 166 471 10 331 9.42e-64 210
MsaG014968 AT5G66640.6 34.195 348 180 7 167 471 125 466 5.98e-50 177
MsaG014968 AT5G66640.2 34.195 348 180 7 167 471 124 465 7.20e-50 177
MsaG014968 AT5G66620.2 29.223 373 192 12 8 336 150 494 1.78e-37 144

Find 114 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AGGCATAACCCTCTTGTTTC+TGG 0.157651 3:-80866034 None:intergenic
CTTTCACACCCTTGCATATA+TGG 0.193810 3:+80863191 MsaT014968.1:CDS
ATTGGAGGTCATCGATTAAT+AGG 0.218874 3:+80866197 MsaT014968.1:CDS
CAGCTTATGGTGGAGGCTTT+AGG 0.246390 3:+80866962 MsaT014968.1:CDS
TGATGGCAAACTTCACATTT+AGG 0.259711 3:-80865106 None:intergenic
CTGTATCCACGGGGATAAAA+AGG 0.263907 3:-80864347 None:intergenic
ATCCAAAGTTGAGAATAAAT+TGG 0.266485 3:+80866900 MsaT014968.1:CDS
GATACTCTATGGTAATTGTT+TGG 0.269551 3:+80864722 MsaT014968.1:CDS
TTAAAACAATACTTGTGATA+TGG 0.272849 3:-80865070 None:intergenic
ACGGCTATTCTTGTTCTCTA+TGG 0.281959 3:+80866263 MsaT014968.1:CDS
AATACCTCACGCTCAGTAAT+AGG 0.302681 3:-80864801 None:intergenic
AATGATTCTTCTCCAGCTTA+TGG 0.306927 3:+80866949 MsaT014968.1:CDS
CACTTGCAGATACCTATAAA+TGG 0.315905 3:+80865493 MsaT014968.1:intron
CAGATACCTATAAATGGTTC+TGG 0.327287 3:+80865499 MsaT014968.1:intron
ACCGCCACCCCTTCCTCTAT+TGG 0.349455 3:-80863682 None:intergenic
ACCCAATTTATTCTCAACTT+TGG 0.354011 3:-80866902 None:intergenic
ATACTCTATGGTAATTGTTT+GGG 0.355449 3:+80864723 MsaT014968.1:CDS
ATCAAACCAGAACCATTTAT+AGG 0.366116 3:-80865505 None:intergenic
GAATCTGCTATAACAGATAC+TGG 0.369119 3:+80865784 MsaT014968.1:CDS
ACTGACCAGTCAAACGAATA+TGG 0.374788 3:-80867032 None:intergenic
TTTCTCGTTAAGGATATAGA+TGG 0.392201 3:+80864243 MsaT014968.1:intron
TTCAAAATTGGATCCAATAG+AGG 0.394023 3:+80863669 MsaT014968.1:CDS
AATGCAGCTGTTAATAAATA+CGG 0.395213 3:+80866991 MsaT014968.1:CDS
GAGAAGAATCATTGGCAATC+TGG 0.404259 3:-80866939 None:intergenic
GTTCTGTTTACCAAGGATCT+AGG 0.408729 3:-80863753 None:intergenic
CTCGTAAAGATACTTTAGAT+TGG 0.409632 3:+80865729 MsaT014968.1:intron
TCATACTCAGAGAGGAAGTC+TGG 0.418210 3:+80863621 MsaT014968.1:CDS
TTTATAAATATAAACCTTTG+AGG 0.423130 3:-80866632 None:intergenic
TCCAAAGTTGAGAATAAATT+GGG 0.442486 3:+80866901 MsaT014968.1:CDS
ACTGATGATGATTATGCAAA+AGG 0.448006 3:+80864275 MsaT014968.1:CDS
CTCGACCATATTCGTTTGAC+TGG 0.450760 3:+80867027 MsaT014968.1:CDS
GTTCTGGTTTGATTGAGTAT+AGG 0.459803 3:+80865515 MsaT014968.1:CDS
TCTTCTCCAGCTTATGGTGG+AGG 0.460658 3:+80866955 MsaT014968.1:CDS
TTGGAGGTCATCGATTAATA+GGG 0.465099 3:+80866198 MsaT014968.1:CDS
TGCAACAAGGAGATACTCTA+TGG 0.469294 3:+80864711 MsaT014968.1:CDS
TGTTGTTTCAGATACATAGA+TGG 0.470430 3:+80866168 MsaT014968.1:intron
GAGATGAGTGCATGCGATCC+TGG 0.470780 3:-80864301 None:intergenic
GTCAGGTTCTTTCTTACATG+TGG 0.478393 3:+80866773 MsaT014968.1:CDS
GATTAGAAAATGTGAAGTTA+CGG 0.482008 3:+80866244 MsaT014968.1:CDS
GAGTGACACCGAAAGCAGTC+TGG 0.486184 3:-80864768 None:intergenic
GCGAGCTCCGCCTAGATCCT+TGG 0.490552 3:+80863743 MsaT014968.1:CDS
TACATTCTTCTCTCCGACGA+TGG 0.490881 3:-80865917 None:intergenic
CTAAAGCCTCCACCATAAGC+TGG 0.492632 3:-80866961 None:intergenic
CAAATCCCCATGCTTCTAGT+TGG 0.496791 3:+80865874 MsaT014968.1:CDS
TCCAATAGAGGAAGGGGTGG+CGG 0.500442 3:+80863681 MsaT014968.1:CDS
TCTCTAATAGCATGATAAAG+AGG 0.502415 3:-80865817 None:intergenic
CTCTTGTTTCTGGCATGTGA+TGG 0.503693 3:-80866024 None:intergenic
TAGAACTAGGAAGGAGGAAG+AGG 0.505835 3:+80864086 MsaT014968.1:CDS
CACATACCTTCCTCGACTGC+AGG 0.506229 3:-80866751 None:intergenic
AGGATAACCGTGCTAGAACT+AGG 0.513141 3:+80864073 MsaT014968.1:intron
GAAGTTGTTCTTATTACAGT+GGG 0.516770 3:-80867056 None:intergenic
ATAAGCTGGAGAAGAATCAT+TGG 0.517979 3:-80866947 None:intergenic
TAAGGATATAGATGGCGAAC+GGG 0.518979 3:+80864251 MsaT014968.1:intron
GCCTCCTACTCGTCAAAGAA+AGG 0.519130 3:+80866871 MsaT014968.1:CDS
CTTGAAGCAGAAGTTATGTC+AGG 0.522730 3:+80866796 MsaT014968.1:CDS
TCTCTTCCAACTAGAAGCAT+GGG 0.524105 3:-80865880 None:intergenic
CTTCCTCGACTGCAGGATCA+AGG 0.524983 3:-80866744 None:intergenic
TTCTCTTCCAACTAGAAGCA+TGG 0.528812 3:-80865881 None:intergenic
GAAGCTGCGGCTGATGTTGA+TGG 0.531468 3:-80866832 None:intergenic
CACACGAATTGATGCATGGT+TGG 0.536922 3:+80866604 MsaT014968.1:CDS
CCATCGCATAACAGAATATG+TGG 0.542226 3:+80864684 MsaT014968.1:CDS
CATGGTTGGTTACGCCTCAA+AGG 0.543559 3:+80866618 MsaT014968.1:CDS
AATTGGATCCAATAGAGGAA+GGG 0.544250 3:+80863674 MsaT014968.1:CDS
AGAATATTGATATCTGATGA+AGG 0.544355 3:-80863170 None:intergenic
GAAGATTTAAAGATACCAGC+AGG 0.544900 3:+80864141 MsaT014968.1:CDS
CGCGCCTTTCTTTGACGAGT+AGG 0.545826 3:-80866875 None:intergenic
CTTGATCCTGCAGTCGAGGA+AGG 0.549426 3:+80866745 MsaT014968.1:CDS
AGATACTTTAGATTGGATGA+TGG 0.549937 3:+80865736 MsaT014968.1:intron
TGACGGTCTGTTCTTCTGAA+AGG 0.550865 3:-80866054 None:intergenic
CCTCCTTCCTAGTTCTAGCA+CGG 0.551271 3:-80864080 None:intergenic
TGATTATGCAAAAGGACTCC+AGG 0.551524 3:+80864283 MsaT014968.1:CDS
AGTCGAGGAAGGTATGTGTC+AGG 0.552796 3:+80866756 MsaT014968.1:CDS
CTTTGACGAGTAGGAGGCGG+AGG 0.559142 3:-80866866 None:intergenic
CGACTGCAGGATCAAGGTTG+CGG 0.559913 3:-80866738 None:intergenic
TATGGGTGCAGGTTACTGAC+AGG 0.560288 3:+80866570 MsaT014968.1:intron
ACTTTAGATTGGATGATGGA+CGG 0.560406 3:+80865740 MsaT014968.1:CDS
AGAAAATACCATATATGCAA+GGG 0.562357 3:-80863199 None:intergenic
AAGAAAATACCATATATGCA+AGG 0.562532 3:-80863200 None:intergenic
GAAAATTTACCTGTATCCAC+GGG 0.565783 3:-80864357 None:intergenic
GGCAAACTTCACATTTAGGA+TGG 0.567891 3:-80865102 None:intergenic
CAACCTTGATCCTGCAGTCG+AGG 0.569513 3:+80866741 MsaT014968.1:CDS
AAATTGGATCCAATAGAGGA+AGG 0.570246 3:+80863673 MsaT014968.1:CDS
GATTCTTCTCCAGCTTATGG+TGG 0.571199 3:+80866952 MsaT014968.1:CDS
GGAAAATTTACCTGTATCCA+CGG 0.572390 3:-80864358 None:intergenic
CATGCATCAATTCGTGTGCA+AGG 0.577759 3:-80866599 None:intergenic
AAGGTAAAGGAGCGCATGGA+GGG 0.580876 3:-80864328 None:intergenic
ATTGGATCCAATAGAGGAAG+GGG 0.580906 3:+80863675 MsaT014968.1:CDS
GCCTTTCTTTGACGAGTAGG+AGG 0.581137 3:-80866872 None:intergenic
CCACATATTCTGTTATGCGA+TGG 0.593174 3:-80864684 None:intergenic
AGAAGTTGTTCTTATTACAG+TGG 0.596071 3:-80867057 None:intergenic
TTGTTCTCTATGGTCTTCCG+AGG 0.596093 3:+80866273 MsaT014968.1:CDS
CTGTAGACGAAAACATGGCT+TGG 0.602540 3:+80863721 MsaT014968.1:CDS
CATCACATGCCAGAAACAAG+AGG 0.608056 3:+80866025 MsaT014968.1:CDS
GCTATTAGAGACTATTACGA+AGG 0.610014 3:+80865829 MsaT014968.1:CDS
TTTCTTTGACGAGTAGGAGG+CGG 0.611450 3:-80866869 None:intergenic
TGAAAATCATACACTGGTGA+CGG 0.612264 3:-80866071 None:intergenic
TTAAGGATATAGATGGCGAA+CGG 0.616195 3:+80864250 MsaT014968.1:intron
TAACCGTGCTAGAACTAGGA+AGG 0.619072 3:+80864077 MsaT014968.1:CDS
GGTAGAAGAAGAAGAAGCTG+CGG 0.625167 3:-80866845 None:intergenic
CTCTTCCAACTAGAAGCATG+GGG 0.633927 3:-80865879 None:intergenic
GCACTTAATGAAGCCATCGT+CGG 0.646144 3:+80865904 MsaT014968.1:CDS
TCATCCTATTACTGAGCGTG+AGG 0.648329 3:+80864797 MsaT014968.1:CDS
TTTCTTCTTCATACTCAGAG+AGG 0.657884 3:+80863613 MsaT014968.1:CDS
ATCACATGCCAGAAACAAGA+GGG 0.660956 3:+80866026 MsaT014968.1:CDS
CTTGCACACGAATTGATGCA+TGG 0.666672 3:+80866600 MsaT014968.1:CDS
CCGTGCTAGAACTAGGAAGG+AGG 0.672994 3:+80864080 MsaT014968.1:CDS
GCAACCTGTAGACGAAAACA+TGG 0.674646 3:+80863716 MsaT014968.1:CDS
AATATGTGGAGGATGCAACA+AGG 0.680326 3:+80864698 MsaT014968.1:CDS
GGATCCAATAGAGGAAGGGG+TGG 0.681667 3:+80863678 MsaT014968.1:CDS
AAAGGTAAAGGAGCGCATGG+AGG 0.686908 3:-80864329 None:intergenic
TCGCATAACAGAATATGTGG+AGG 0.700111 3:+80864687 MsaT014968.1:CDS
CTGTTTACCAAGGATCTAGG+CGG 0.702697 3:-80863750 None:intergenic
ATATTGATATCTGATGAAGG+AGG 0.767738 3:-80863167 None:intergenic
AAAATTTACCTGTATCCACG+GGG 0.784877 3:-80864356 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr3 gene 80863161 80867065 80863161 ID=MsaG014968
Chr3 mRNA 80863161 80867065 80863161 ID=MsaT014968.1;Parent=MsaG014968
Chr3 exon 80863161 80863212 80863161 ID=MsaT014968.1.exon1;Parent=MsaT014968.1
Chr3 CDS 80863161 80863212 80863161 ID=cds.MsaT014968.1;Parent=MsaT014968.1
Chr3 exon 80863607 80863764 80863607 ID=MsaT014968.1.exon2;Parent=MsaT014968.1
Chr3 CDS 80863607 80863764 80863607 ID=cds.MsaT014968.1;Parent=MsaT014968.1
Chr3 exon 80864075 80864162 80864075 ID=MsaT014968.1.exon3;Parent=MsaT014968.1
Chr3 CDS 80864075 80864162 80864075 ID=cds.MsaT014968.1;Parent=MsaT014968.1
Chr3 exon 80864255 80864369 80864255 ID=MsaT014968.1.exon4;Parent=MsaT014968.1
Chr3 CDS 80864255 80864369 80864255 ID=cds.MsaT014968.1;Parent=MsaT014968.1
Chr3 exon 80864680 80864818 80864680 ID=MsaT014968.1.exon5;Parent=MsaT014968.1
Chr3 CDS 80864680 80864818 80864680 ID=cds.MsaT014968.1;Parent=MsaT014968.1
Chr3 exon 80865049 80865132 80865049 ID=MsaT014968.1.exon6;Parent=MsaT014968.1
Chr3 CDS 80865049 80865132 80865049 ID=cds.MsaT014968.1;Parent=MsaT014968.1
Chr3 exon 80865502 80865536 80865502 ID=MsaT014968.1.exon7;Parent=MsaT014968.1
Chr3 CDS 80865502 80865536 80865502 ID=cds.MsaT014968.1;Parent=MsaT014968.1
Chr3 exon 80865738 80865936 80865738 ID=MsaT014968.1.exon8;Parent=MsaT014968.1
Chr3 CDS 80865738 80865936 80865738 ID=cds.MsaT014968.1;Parent=MsaT014968.1
Chr3 exon 80866019 80866081 80866019 ID=MsaT014968.1.exon9;Parent=MsaT014968.1
Chr3 CDS 80866019 80866081 80866019 ID=cds.MsaT014968.1;Parent=MsaT014968.1
Chr3 exon 80866179 80866294 80866179 ID=MsaT014968.1.exon10;Parent=MsaT014968.1
Chr3 CDS 80866179 80866294 80866179 ID=cds.MsaT014968.1;Parent=MsaT014968.1
Chr3 exon 80866581 80866639 80866581 ID=MsaT014968.1.exon11;Parent=MsaT014968.1
Chr3 CDS 80866581 80866639 80866581 ID=cds.MsaT014968.1;Parent=MsaT014968.1
Chr3 exon 80866734 80867065 80866734 ID=MsaT014968.1.exon12;Parent=MsaT014968.1
Chr3 CDS 80866734 80867065 80866734 ID=cds.MsaT014968.1;Parent=MsaT014968.1
Gene Sequence

>MsaT014968.1

ATGGCACCTCCTTCATCAGATATCAATATTCTTTCACACCCTTGCATATATGGGGATTTTTCTTCTTCATACTCAGAGAGGAAGTCTGGTTTTATGAAATGGTTTGGCAAGATTTTCAAAATTGGATCCAATAGAGGAAGGGGTGGCGGTCATCTTTTACAGCAACCTGTAGACGAAAACATGGCTTGGCGAGCTCCGCCTAGATCCTTGGATAACCGTGCTAGAACTAGGAAGGAGGAAGAGGATTTAAACAAAGCAATTGCACTTTCTTTAAGTGAAGATTTAAAGATACCAGCAGGATATAGATGGCGAACGGGAACTGATGATGATTATGCAAAAGGACTCCAGGATCGCATGCACTCATCTCTACACCCTCCATGCGCTCCTTTACCTTTTTATCCCCGTGGATACAGCATGCCATCGCATAACAGAATATGTGGAGGATGCAACAAGGAGATACTCTATGGTAATTGTTTGGGAGTCGAACATAGTTATTTTCATCCAGACTGCTTTCGGTGTCACTCATGTCATCATCCTATTACTGAGCGTGAGTTTTCTTTGTCAGGGAAGCATCCATATCACAAGTATTGTTTTAAGGAATTGAGCCATCCTAAATGTGAAGTTTGCCATCATTATATACCTATAAATGGTTCTGGTTTGATTGAGTATAGATACTTTAGATTGGATGATGGACGGATTTTGTGCTTTGAATGCATGGAATCTGCTATAACAGATACTGGTGAATGTCAGCCTCTTTATCATGCTATTAGAGACTATTACGAAGGAATGAATATGAGAATCGATCAACAAATCCCCATGCTTCTAGTTGGAAGAGAAGCACTTAATGAAGCCATCGTCGGAGAGAAGAATGGTTTCCATCACATGCCAGAAACAAGAGGGTTATGCCTTTCAGAAGAACAGACCGTCACCAGTATACATAGATGGTCAAAAATTGGAGGTCATCGATTAATAGGGATGCGCAGTCAACCTCAAAAATTGATTAGAAAATGTGAAGTTACGGCTATTCTTGTTCTCTATGGTCTTCCGAGGTTACTGACAGGTGCTATCCTTGCACACGAATTGATGCATGGTTGGTTACGCCTCAAAGGTTACCGCAACCTTGATCCTGCAGTCGAGGAAGGTATGTGTCAGGTTCTTTCTTACATGTGGCTTGAAGCAGAAGTTATGTCAGGTTCTAGAAACATGCCATCAACATCAGCCGCAGCTTCTTCTTCTTCTACCTCCGCCTCCTACTCGTCAAAGAAAGGCGCGATATCCAAAGTTGAGAATAAATTGGGTGAATTTTTCATGAACCAGATTGCCAATGATTCTTCTCCAGCTTATGGTGGAGGCTTTAGGTCAGCTAATGCAGCTGTTAATAAATACGGTTTACGTTGTACTCTCGACCATATTCGTTTGACTGGTCAGTTCCCACTGTAA
Protein sequence

>MsaT014968.1

MAPPSSDINILSHPCIYGDFSSSYSERKSGFMKWFGKIFKIGSNRGRGGGHLLQQPVDENMAWRAPPRSLDNRARTRKEEEDLNKAIALSLSEDLKIPAGYRWRTGTDDDYAKGLQDRMHSSLHPPCAPLPFYPRGYSMPSHNRICGGCNKEILYGNCLGVEHSYFHPDCFRCHSCHHPITEREFSLSGKHPYHKYCFKELSHPKCEVCHHYIPINGSGLIEYRYFRLDDGRILCFECMESAITDTGECQPLYHAIRDYYEGMNMRIDQQIPMLLVGREALNEAIVGEKNGFHHMPETRGLCLSEEQTVTSIHRWSKIGGHRLIGMRSQPQKLIRKCEVTAILVLYGLPRLLTGAILAHELMHGWLRLKGYRNLDPAVEEGMCQVLSYMWLEAEVMSGSRNMPSTSAAASSSSTSASYSSKKGAISKVENKLGEFFMNQIANDSSPAYGGGFRSANAAVNKYGLRCTLDHIRLTGQFPL*