AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG015619

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG015619 MtrunA17_Chr3g0120711 99.270 411 3 0 1 411 1 411 0.0 846
MsaG015619 MtrunA17_Chr5g0429341 68.916 415 118 7 1 410 1 409 0.0 514
MsaG015619 MtrunA17_Chr2g0322941 51.818 110 52 1 1 110 40 148 8.10e-33 124
MsaG015619 MtrunA17_Chr7g0268691 48.544 103 53 0 5 107 20 122 1.84e-29 117
MsaG015619 MtrunA17_Chr7g0268691 62.500 48 18 0 348 395 322 369 7.35e-12 66.6
MsaG015619 MtrunA17_Chr1g0209071 44.860 107 57 1 1 107 1 105 1.03e-24 103
MsaG015619 MtrunA17_Chr2g0322951 49.550 111 40 3 303 405 41 143 1.45e-24 98.6
MsaG015619 MtrunA17_Chr7g0251781 35.971 139 81 2 1 132 1 138 9.29e-22 96.3
MsaG015619 MtrunA17_Chr7g0251781 56.061 66 29 0 331 396 318 383 1.34e-14 75.1
MsaG015619 MtrunA17_Chr1g0150471 44.048 84 46 1 4 86 5 88 4.71e-17 81.6
MsaG015619 MtrunA17_Chr3g0136701 39.216 102 61 1 4 104 5 106 4.19e-16 78.2
MsaG015619 MtrunA17_Chr3g0136701 45.833 72 36 1 333 401 208 279 3.44e-11 63.5
MsaG015619 MtrunA17_Chr4g0072871 38.889 90 54 1 4 92 21 110 4.02e-15 76.3
MsaG015619 MtrunA17_Chr7g0220721 41.758 91 52 1 5 94 26 116 1.39e-14 75.1
MsaG015619 MtrunA17_Chr4g0033641 38.542 96 49 2 1 86 1 96 9.46e-14 70.5
MsaG015619 MtrunA17_Chr5g0405151 38.095 84 44 1 1 76 1 84 1.94e-11 62.8
MsaG015619 MtrunA17_Chr1g0155811 34.021 97 53 2 1 86 1 97 3.07e-11 63.5
MsaG015619 MtrunA17_Chr4g0035651 35.052 97 52 2 1 86 1 97 4.30e-11 62.4
MsaG015619 MtrunA17_Chr3g0142221 33.673 98 53 2 1 86 1 98 6.76e-11 62.0
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG015619 AT3G07650.3 52.955 423 136 10 1 411 1 372 9.40e-143 411
MsaG015619 AT3G07650.2 52.955 423 136 10 1 411 1 372 9.40e-143 411
MsaG015619 AT3G07650.4 52.955 423 136 10 1 411 1 372 9.40e-143 411
MsaG015619 AT3G07650.1 52.955 423 136 10 1 411 1 372 9.40e-143 411
MsaG015619 AT5G48250.1 53.699 419 140 10 1 411 1 373 1.37e-140 406
MsaG015619 AT3G21880.3 34.063 411 210 11 5 408 9 365 2.21e-61 203
MsaG015619 AT3G21880.2 34.063 411 210 11 5 408 9 365 2.21e-61 203
MsaG015619 AT3G21880.1 34.063 411 210 11 5 408 5 361 2.28e-61 202
MsaG015619 AT4G15250.1 53.153 111 50 2 5 115 5 113 6.87e-34 129
MsaG015619 AT4G15250.1 51.020 98 45 1 307 404 232 326 8.63e-20 90.1
MsaG015619 AT2G33500.1 47.170 106 55 1 5 109 12 117 2.85e-30 120
MsaG015619 AT2G33500.1 60.784 51 20 0 346 396 349 399 1.43e-12 69.3
MsaG015619 AT2G33500.2 47.170 106 55 1 5 109 12 117 2.99e-30 120
MsaG015619 AT2G33500.2 60.784 51 20 0 346 396 348 398 1.42e-12 69.3
MsaG015619 AT1G28050.1 39.041 146 86 2 5 147 9 154 5.62e-29 117
MsaG015619 AT1G28050.1 61.111 54 21 0 346 399 377 430 4.42e-13 70.9
MsaG015619 AT1G68190.1 46.847 111 57 2 1 110 10 119 5.83e-29 116
MsaG015619 AT1G68190.3 46.847 111 57 2 1 110 10 119 5.83e-29 116
MsaG015619 AT1G68190.2 46.847 111 57 2 1 110 39 148 1.03e-28 116
MsaG015619 AT2G47890.2 35.795 176 103 4 4 177 12 179 8.86e-26 105
MsaG015619 AT2G47890.3 36.420 162 95 3 4 165 12 165 3.20e-25 105
MsaG015619 AT2G47890.1 36.420 162 95 3 4 165 12 165 4.10e-25 105
MsaG015619 AT5G24930.1 43.333 90 50 1 4 92 5 94 4.10e-17 82.8
MsaG015619 AT5G24930.1 55.769 52 23 0 344 395 285 336 3.22e-11 64.7
MsaG015619 AT2G24790.1 42.222 90 51 1 4 92 7 96 8.61e-16 77.8
MsaG015619 AT2G24790.1 50.877 57 28 0 347 403 222 278 5.18e-11 63.5
MsaG015619 AT2G24790.2 42.222 90 51 1 4 92 7 96 8.70e-16 76.6
MsaG015619 AT5G15840.1 43.956 91 50 1 5 94 20 110 9.50e-15 75.9
MsaG015619 AT5G15840.2 43.956 91 50 1 5 94 20 110 1.60e-14 73.9
MsaG015619 AT5G15850.1 44.186 86 47 1 5 89 12 97 2.49e-14 74.3
MsaG015619 AT3G02380.1 40.000 100 53 2 5 97 16 115 1.44e-13 72.0
MsaG015619 AT3G02380.1 62.500 48 18 0 348 395 272 319 5.26e-12 67.0
MsaG015619 AT5G57660.1 30.216 139 92 2 5 142 22 156 2.34e-12 68.2
MsaG015619 AT2G31380.1 36.458 96 51 2 1 86 1 96 2.45e-12 66.6
MsaG015619 AT1G06040.2 37.500 96 50 2 1 86 1 96 3.92e-12 65.1
MsaG015619 AT1G06040.1 37.500 96 50 2 1 86 1 96 4.27e-12 66.2
MsaG015619 AT2G21320.1 39.286 84 43 1 1 76 1 84 5.81e-11 61.6
MsaG015619 AT4G38960.1 36.905 84 45 1 1 76 1 84 6.10e-11 61.6
MsaG015619 AT4G38960.6 36.905 84 45 1 1 76 1 84 6.10e-11 61.6
MsaG015619 AT1G75540.1 34.343 99 52 2 1 86 1 99 8.86e-11 63.2

Find 90 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GGTGGATTTAACAGTTTATT+TGG 0.095234 3:-89157229 MsaT015619.1:CDS
GTGGATTTAACAGTTTATTT+GGG 0.284402 3:-89157228 MsaT015619.1:CDS
CGCGGTTCTTTGCTTGATTC+GGG 0.298118 3:+89157674 None:intergenic
AGCTACTGATCTACCTGATT+TGG 0.310422 3:-89157726 MsaT015619.1:CDS
TCATCATCATCACTTGCTTC+AGG 0.322324 3:+89157358 None:intergenic
ACGCGGTTCTTTGCTTGATT+CGG 0.327280 3:+89157673 None:intergenic
CGGCCGAACTTTCTTCGATA+TGG 0.346888 3:-89157877 MsaT015619.1:CDS
GGATGAAATGGATATAAATA+TGG 0.347846 3:-89157311 MsaT015619.1:CDS
CGATTTCGATATGGATGAAA+TGG 0.355447 3:-89157323 MsaT015619.1:CDS
TACCTTTGGTACACATTCAT+TGG 0.361210 3:+89157625 None:intergenic
GATGCTGCAGTGCTGCATGC+TGG 0.368884 3:+89156727 None:intergenic
TATGTTCAGGGTTCATCAAT+TGG 0.370264 3:-89156769 MsaT015619.1:intron
ACCGGCCCTTCACGCGCCTT+CGG 0.385614 3:+89156083 None:intergenic
GATCGTTTGCCTCTTATGAT+TGG 0.395417 3:+89157925 None:intergenic
CACTTTGTCAGAATTGTGAT+TGG 0.398736 3:-89157973 MsaT015619.1:CDS
TTTGCTTGATTCGGGCTTTG+AGG 0.401934 3:+89157682 None:intergenic
ATGCAGTTCACAACCTGCTT+TGG 0.404101 3:-89158020 MsaT015619.1:CDS
GTTCACAACCTGCTTTGGTT+AGG 0.412214 3:-89158015 MsaT015619.1:CDS
CATTCATTGGTAGATCCATC+TGG 0.421154 3:+89157638 None:intergenic
AGCTTCTTCAATGCTTCTCA+TGG 0.422785 3:-89156578 MsaT015619.1:CDS
AGCTTCTCGTTTGGCTCAAA+GGG 0.426520 3:+89156029 None:intergenic
CTACATCTTCCAATCATAAG+AGG 0.437225 3:-89157934 MsaT015619.1:CDS
CAGAAAAGGAAAGGCTCGAT+TGG 0.437549 3:+89156644 None:intergenic
GCTCAAAGGGTCATAATCAT+AGG 0.437780 3:+89156042 None:intergenic
AGCATTAGCATCTTGACAAT+TGG 0.444014 3:+89157180 None:intergenic
TGTCAGAATTGTGATTGGTT+AGG 0.444655 3:-89157968 MsaT015619.1:CDS
ACACTCAGTAGCTTCTCGTT+TGG 0.446801 3:+89156020 None:intergenic
GCGAAAGACTTATCCAAATC+AGG 0.451210 3:+89157713 None:intergenic
TAGCTTCTCGTTTGGCTCAA+AGG 0.451884 3:+89156028 None:intergenic
TGTAGTTGTAGCTCATTCTC+AGG 0.468722 3:+89156529 None:intergenic
CATCATCATCACTTGCTTCA+GGG 0.475636 3:+89157359 None:intergenic
TCCGAAGGCGCGTGAAGGGC+CGG 0.483385 3:-89156084 MsaT015619.1:CDS
TTTGCAGTAATACAAAGATT+CGG 0.484517 3:+89156673 None:intergenic
GGGGCAAAAGCCATGTCTGC+TGG 0.484909 3:-89157208 MsaT015619.1:CDS
TAATGAGAATAGGAGTGCTT+GGG 0.485947 3:-89157786 MsaT015619.1:CDS
TTCTCATGGGAGAACCTCCT+TGG 0.487490 3:-89156564 MsaT015619.1:CDS
TCATGAGTATTAATGAGAAT+AGG 0.491713 3:-89157796 MsaT015619.1:CDS
TCTGTATGGCGATTTCGATA+TGG 0.492638 3:-89157332 MsaT015619.1:CDS
AGACCATATCGAAGAAAGTT+CGG 0.494435 3:+89157874 None:intergenic
GCTTCAGGGCAATTTGTAGC+AGG 0.495109 3:+89157373 None:intergenic
AGAAAAGGAAAGGCTCGATT+GGG 0.501130 3:+89156645 None:intergenic
TTAATGAGAATAGGAGTGCT+TGG 0.501567 3:-89157787 MsaT015619.1:CDS
ATTAATGAAGACGGTGGTGC+TGG 0.505210 3:-89156619 MsaT015619.1:CDS
GTCTTCATTAATACCAGAAA+AGG 0.513355 3:+89156630 None:intergenic
ATATGCCTCTCGCAAGGAAA+GGG 0.514733 3:-89156113 MsaT015619.1:CDS
CCCTTGCTCGAAGACATTCA+AGG 0.516832 3:-89158060 MsaT015619.1:CDS
TGATGTCCGAAGGCGCGTGA+AGG 0.519956 3:-89156089 MsaT015619.1:CDS
GTCATAATCATAGGCCTCGC+CGG 0.520189 3:+89156051 None:intergenic
CAAACGATCAATTGCTACTC+AGG 0.524349 3:-89157911 MsaT015619.1:CDS
CCTCGCCGGCTTTAACAAAC+CGG 0.526175 3:+89156065 None:intergenic
ACTACATGTGAGCAAGAACT+AGG 0.526382 3:-89157821 MsaT015619.1:CDS
TTGTGGAGATCAACGGTCCA+TGG 0.528039 3:-89158149 MsaT015619.1:CDS
TCCTTGAATGTCTTCGAGCA+AGG 0.533062 3:+89158059 None:intergenic
TTCGGGCTTTGAGGATGTAC+CGG 0.533096 3:+89157691 None:intergenic
GATGTCCGAAGGCGCGTGAA+GGG 0.533693 3:-89156088 MsaT015619.1:CDS
AAGGGCCGGTTTGTTAAAGC+CGG 0.538044 3:-89156070 MsaT015619.1:CDS
CGTATGCTCGACCGCCCAGA+TGG 0.548257 3:-89157653 MsaT015619.1:CDS
AATTGTGATTGGTTAGGTCA+TGG 0.558365 3:-89157962 MsaT015619.1:CDS
CTACTCAGGTTGCCCTTCGT+CGG 0.563208 3:-89157897 MsaT015619.1:CDS
GCTTCTTCAATGCTTCTCAT+GGG 0.566506 3:-89156577 MsaT015619.1:CDS
TCAGAACACCTAACCAAAGC+AGG 0.567607 3:+89158007 None:intergenic
ATTGGAATCTCCAGCAGACA+TGG 0.567887 3:+89157198 None:intergenic
AAGAAAGTTCGGCCGACGAA+GGG 0.569995 3:+89157885 None:intergenic
CATGTAGTTTCACTCAGAGA+AGG 0.576596 3:+89157836 None:intergenic
TAGTGCTGTTATGCGATACA+AGG 0.579883 3:-89156491 MsaT015619.1:CDS
TACCAATGAATGTGTACCAA+AGG 0.580738 3:-89157627 MsaT015619.1:intron
CCTTGAATGTCTTCGAGCAA+GGG 0.583830 3:+89158060 None:intergenic
GATATGCCTCTCGCAAGGAA+AGG 0.583865 3:-89156114 MsaT015619.1:CDS
TGGATTTAACAGTTTATTTG+GGG 0.588596 3:-89157227 MsaT015619.1:CDS
GATTTGGATAAGTCTTTCGC+CGG 0.589605 3:-89157710 MsaT015619.1:CDS
CATTAATACCAGAAAAGGAA+AGG 0.592524 3:+89156635 None:intergenic
GAAGAAAGTTCGGCCGACGA+AGG 0.593920 3:+89157884 None:intergenic
AGGAAAGGGCTGATGTCCGA+AGG 0.595717 3:-89156099 MsaT015619.1:CDS
ATGTAGTTTCACTCAGAGAA+GGG 0.599442 3:+89157837 None:intergenic
ATCAGCCCTTTCCTTGCGAG+AGG 0.604664 3:+89156108 None:intergenic
ATTCATTGGTAGATCCATCT+GGG 0.610627 3:+89157639 None:intergenic
AAAGCTCTTCAGAATGAGTG+AGG 0.617795 3:+89157260 None:intergenic
GCTGGAGACTATCAAGATTG+TGG 0.619737 3:-89156601 MsaT015619.1:CDS
AGTGAGATATGCCTCTCGCA+AGG 0.625277 3:-89156119 MsaT015619.1:CDS
TCTGGTATTAATGAAGACGG+TGG 0.629157 3:-89156625 MsaT015619.1:CDS
CCGGTTTGTTAAAGCCGGCG+AGG 0.638136 3:-89156065 MsaT015619.1:CDS
TCAAGATGCTAATGCTGCTG+AGG 0.640291 3:-89157173 MsaT015619.1:intron
GGTGTACTGTCGCTCAGATG+CGG 0.641096 3:-89158128 MsaT015619.1:CDS
TCTGGGCGGTCGAGCATACG+CGG 0.641340 3:+89157656 None:intergenic
TCAGGACAAGTGTTTAACCA+AGG 0.666255 3:+89156547 None:intergenic
AAGCTCTTCAGAATGAGTGA+GGG 0.667176 3:+89157261 None:intergenic
GGACAAGTGTTTAACCAAGG+AGG 0.698616 3:+89156550 None:intergenic
ATCGCATAACAGCACTACAG+CGG 0.703445 3:+89156497 None:intergenic
ATCTGAGCGACAGTACACCA+TGG 0.755518 3:+89158132 None:intergenic
CATTGGTAGATCCATCTGGG+CGG 0.761162 3:+89157642 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr3 gene 89156024 89158191 89156024 ID=MsaG015619
Chr3 mRNA 89156024 89158191 89156024 ID=MsaT015619.1;Parent=MsaG015619
Chr3 exon 89156024 89156153 89156024 ID=MsaT015619.1.exon4;Parent=MsaT015619.1
Chr3 CDS 89156024 89156153 89156024 ID=cds.MsaT015619.1;Parent=MsaT015619.1
Chr3 exon 89156472 89156782 89156472 ID=MsaT015619.1.exon3;Parent=MsaT015619.1
Chr3 CDS 89156472 89156782 89156472 ID=cds.MsaT015619.1;Parent=MsaT015619.1
Chr3 exon 89157174 89157404 89157174 ID=MsaT015619.1.exon2;Parent=MsaT015619.1
Chr3 CDS 89157174 89157404 89157174 ID=cds.MsaT015619.1;Parent=MsaT015619.1
Chr3 exon 89157628 89158191 89157628 ID=MsaT015619.1.exon1;Parent=MsaT015619.1
Chr3 CDS 89157628 89158191 89157628 ID=cds.MsaT015619.1;Parent=MsaT015619.1
Gene Sequence

>MsaT015619.1

ATGGGTTACATATGTGATTTTTGTGGAGATCAACGGTCCATGGTGTACTGTCGCTCAGATGCGGCTTGTTTATGTTTGTCGTGTGATCGAAATGTTCATTCAGCAAATACCCTTGCTCGAAGACATTCAAGGACTCTTTTGTGTGAGAGATGCAGTTCACAACCTGCTTTGGTTAGGTGTTCTGAAGAGAAAGTTTCACTTTGTCAGAATTGTGATTGGTTAGGTCATGGTAACTCTACATCTTCCAATCATAAGAGGCAAACGATCAATTGCTACTCAGGTTGCCCTTCGTCGGCCGAACTTTCTTCGATATGGTCTTTTGTGTTAGATATCCCTTCTCTGAGTGAAACTACATGTGAGCAAGAACTAGGTTTCATGAGTATTAATGAGAATAGGAGTGCTTGGGTTGATCCGAAAAATCAGAACGTGTCTGATTCAGATAAAGCTACTGATCTACCTGATTTGGATAAGTCTTTCGCCGGTACATCCTCAAAGCCCGAATCAAGCAAAGAACCGCGTATGCTCGACCGCCCAGATGGATCTACCAATGAATGTGTACCAAAGGTATACTGTCCTGCTACAAATTGCCCTGAAGCAAGTGATGATGATGATGATCTGTATGGCGATTTCGATATGGATGAAATGGATATAAATATGGAGAACTATGACGAACTTTTTGGTATGGCCCTCACTCATTCTGAAGAGCTTTTTGAAAATGGTGGATTTAACAGTTTATTTGGGGCAAAAGCCATGTCTGCTGGAGATTCCAATTGTCAAGATGCTAATGCTGCTGAGGGTTCATCAATTGGACATGTCAATGCAGCACAACCAGCATGCAGCACTGCAGCATCTGCAGATTCCATATTGAGCACTAAAACTGAACCGAATCTTTGTATTACTGCAAAGCAATCCCAATCGAGCCTTTCCTTTTCTGGTATTAATGAAGACGGTGGTGCTGGAGACTATCAAGATTGTGGAGCTTCTTCAATGCTTCTCATGGGAGAACCTCCTTGGTTAAACACTTGTCCTGAGAATGAGCTACAACTACAATCTGCAAACCGCTGTAGTGCTGTTATGCGATACAAGGAAAAGAAAAAGACACGCAAGTTTGACAAGAGAGTGAGATATGCCTCTCGCAAGGAAAGGGCTGATGTCCGAAGGCGCGTGAAGGGCCGGTTTGTTAAAGCCGGCGAGGCCTATGATTATGACCCTTTGAGCCAAACGAGAAGCTACTGA
Protein sequence

>MsaT015619.1

MGYICDFCGDQRSMVYCRSDAACLCLSCDRNVHSANTLARRHSRTLLCERCSSQPALVRCSEEKVSLCQNCDWLGHGNSTSSNHKRQTINCYSGCPSSAELSSIWSFVLDIPSLSETTCEQELGFMSINENRSAWVDPKNQNVSDSDKATDLPDLDKSFAGTSSKPESSKEPRMLDRPDGSTNECVPKVYCPATNCPEASDDDDDLYGDFDMDEMDINMENYDELFGMALTHSEELFENGGFNSLFGAKAMSAGDSNCQDANAAEGSSIGHVNAAQPACSTAASADSILSTKTEPNLCITAKQSQSSLSFSGINEDGGAGDYQDCGASSMLLMGEPPWLNTCPENELQLQSANRCSAVMRYKEKKKTRKFDKRVRYASRKERADVRRRVKGRFVKAGEAYDYDPLSQTRSY*