AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG025115

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG025115 MtrunA17_Chr5g0397881 95.592 363 10 2 1 363 1 357 0.0 707
MsaG025115 MtrunA17_Chr6g0472421 45.745 376 119 14 5 353 7 324 2.61e-81 251
MsaG025115 MtrunA17_Chr1g0203601 45.773 343 117 11 6 347 5 279 2.37e-74 232
MsaG025115 MtrunA17_Chr3g0134031 46.087 230 113 4 1 219 1 230 5.75e-60 197
MsaG025115 MtrunA17_Chr5g0402291 50.495 202 83 4 17 215 2 189 1.27e-59 194
MsaG025115 MtrunA17_Chr5g0441531 44.248 226 101 4 14 239 15 215 5.66e-58 189
MsaG025115 MtrunA17_Chr7g0257331 44.724 199 75 3 18 216 16 179 3.20e-48 162
MsaG025115 MtrunA17_Chr5g0410881 72.000 100 26 1 22 121 30 127 7.32e-46 163
MsaG025115 MtrunA17_Chr8g0375041 42.211 199 85 3 17 215 2 170 7.65e-45 154
MsaG025115 MtrunA17_Chr6g0467041 60.952 105 41 0 24 128 22 126 6.88e-43 151
MsaG025115 MtrunA17_Chr7g0260331 65.957 94 32 0 22 115 47 140 3.57e-42 150
MsaG025115 MtrunA17_Chr1g0185131 67.021 94 31 0 22 115 30 123 5.59e-42 149
MsaG025115 MtrunA17_Chr8g0379701 64.356 101 35 1 15 115 4 103 1.46e-41 150
MsaG025115 MtrunA17_Chr4g0039891 63.265 98 36 0 24 121 12 109 1.68e-40 149
MsaG025115 MtrunA17_Chr4g0047421 37.624 202 89 3 21 218 30 198 2.58e-40 141
MsaG025115 MtrunA17_Chr8g0378061 60.577 104 41 0 25 128 23 126 5.51e-40 147
MsaG025115 MtrunA17_Chr3g0135831 62.500 96 36 0 22 117 44 139 3.11e-38 140
MsaG025115 MtrunA17_Chr4g0071051 63.441 93 34 0 22 114 99 191 4.92e-38 140
MsaG025115 MtrunA17_Chr1g0204741 63.830 94 34 0 22 115 38 131 1.27e-37 137
MsaG025115 MtrunA17_Chr6g0485571 59.184 98 40 0 18 115 5 102 4.01e-37 137
MsaG025115 MtrunA17_Chr2g0330821 52.137 117 56 0 12 128 67 183 7.21e-37 136
MsaG025115 MtrunA17_Chr2g0284481 51.240 121 58 1 11 131 3 122 1.40e-36 136
MsaG025115 MtrunA17_Chr8g0392001 59.140 93 37 1 24 115 22 114 2.60e-32 124
MsaG025115 MtrunA17_Chr1g0179321 63.636 66 24 0 18 83 43 108 2.02e-24 96.3
MsaG025115 MtrunA17_Chr4g0023771 54.054 74 32 2 11 83 3 75 3.04e-19 82.4
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG025115 AT4G11660.1 49.573 351 134 7 16 355 51 369 2.42e-90 276
MsaG025115 AT5G62020.1 46.302 311 116 8 1 305 1 266 9.81e-82 251
MsaG025115 AT4G36990.1 50.242 207 86 3 12 218 2 191 1.17e-61 199
MsaG025115 AT1G46264.1 37.248 298 172 5 19 306 29 321 3.98e-59 195
MsaG025115 AT2G41690.1 40.930 215 110 2 4 218 20 217 1.33e-48 164
MsaG025115 AT1G32330.1 65.289 121 38 2 1 121 16 132 7.24e-47 166
MsaG025115 AT1G32330.2 65.289 121 38 2 1 121 16 132 7.53e-47 166
MsaG025115 AT4G17750.1 61.667 120 46 0 2 121 30 149 1.34e-46 166
MsaG025115 AT3G02990.1 66.355 107 34 2 9 115 10 114 9.34e-43 155
MsaG025115 AT3G22830.1 68.750 96 30 0 20 115 57 152 5.71e-42 151
MsaG025115 AT4G13980.1 60.000 110 38 1 25 128 24 133 3.12e-40 148
MsaG025115 AT5G16820.1 67.708 96 30 1 20 115 24 118 7.40e-40 147
MsaG025115 AT5G16820.2 67.708 96 30 1 20 115 24 118 7.40e-40 147
MsaG025115 AT5G43840.1 63.830 94 34 0 22 115 17 110 2.67e-39 141
MsaG025115 AT2G26150.1 61.702 94 36 0 22 115 42 135 5.17e-39 142
MsaG025115 AT2G26150.4 61.702 94 36 0 22 115 42 135 5.17e-39 142
MsaG025115 AT3G63350.1 58.763 97 40 0 18 114 22 118 1.49e-38 139
MsaG025115 AT5G03720.2 64.211 95 33 1 21 115 53 146 5.05e-38 141
MsaG025115 AT5G03720.1 64.211 95 33 1 21 115 53 146 5.05e-38 141
MsaG025115 AT3G51910.1 60.215 93 37 0 22 114 27 119 1.00e-37 137
MsaG025115 AT5G54070.1 60.638 94 37 0 21 114 68 161 1.06e-37 138
MsaG025115 AT3G24520.1 65.217 92 32 0 24 115 17 108 1.19e-36 135
MsaG025115 AT4G18880.1 58.824 119 46 2 17 135 9 124 3.08e-35 133
MsaG025115 AT5G45710.3 58.621 116 44 3 20 135 10 121 1.35e-34 130
MsaG025115 AT5G45710.1 58.621 116 44 3 20 135 10 121 1.35e-34 130
MsaG025115 AT1G67970.1 60.215 93 36 1 24 115 19 111 1.12e-33 128
MsaG025115 AT4G18870.1 45.263 95 49 1 20 111 139 233 1.10e-22 97.1
MsaG025115 AT4G18870.1 47.191 89 42 3 25 111 14 99 3.62e-20 89.7
MsaG025115 AT1G77570.1 39.326 89 49 3 25 109 27 114 2.84e-13 67.0

Find 90 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CTCATGTTCCTAAGCTGTTT+GGG 0.212139 5:+4087502 MsaT025115.1:CDS
TGTAACAGAAGGGAAAATTT+TGG 0.225929 5:+4087359 MsaT025115.1:CDS
GCTAATGAAACATTCCTTAT+AGG 0.235307 5:-4087390 None:intergenic
GTGTTTATTTCTAGGGATTT+CGG 0.268121 5:+4086878 MsaT025115.1:intron
AAGCTGTTTGGGGTTTCAAT+TGG 0.272470 5:+4087513 MsaT025115.1:CDS
CCTCATGTTCCTAAGCTGTT+TGG 0.282001 5:+4087501 MsaT025115.1:CDS
ATGATGAGTAATTATGCTTC+TGG 0.326687 5:+4087282 MsaT025115.1:CDS
ATGGAACAAGCTTCATAGTT+TGG 0.332696 5:+4086673 MsaT025115.1:CDS
CCGTTGATGATTTGGTTTCA+TGG 0.341139 5:+4086643 MsaT025115.1:CDS
ATTGAGTTGACGAACGAAAC+TGG 0.358502 5:-4086754 None:intergenic
ATGGTGTCTCCAGCAACTTC+TGG 0.358649 5:+4087072 MsaT025115.1:CDS
TGATTCTTCCGTTGATGATT+TGG 0.364300 5:+4086635 MsaT025115.1:CDS
GAAGTTGATGGCGACATTAC+CGG 0.375837 5:+4086527 None:intergenic
AGCTGTTTGGGGTTTCAATT+GGG 0.377393 5:+4087514 MsaT025115.1:CDS
AGCAACTTCTGGTGATGAAC+AGG 0.397317 5:+4087083 MsaT025115.1:CDS
TTATTGTGTTTGAAATACTT+TGG 0.401377 5:-4086726 None:intergenic
TGCTGCGACGGCACGGGGCG+TGG 0.405775 5:+4087335 MsaT025115.1:CDS
CTTAATGTGGGTGGAGCTGC+TGG 0.418056 5:+4087429 MsaT025115.1:CDS
TACGAGTGCTGCGACGGCAC+GGG 0.438079 5:+4087329 MsaT025115.1:CDS
GACGGAGAATGAGGTTGAAC+CGG 0.444512 5:+4087551 MsaT025115.1:CDS
ACATGAGGTGCCTCAACCTC+TGG 0.453623 5:-4087486 None:intergenic
CGGATGATCAAGAGCGTCGT+TGG 0.460641 5:+4087703 MsaT025115.1:CDS
ATGTGAGACGACGAGTTTGA+TGG 0.466931 5:+4087461 MsaT025115.1:CDS
GCCATAGCTGTTCCTGCTGC+CGG 0.467534 5:-4086994 None:intergenic
TTGGTTTCATGGAATGAAGA+TGG 0.472004 5:+4086654 MsaT025115.1:CDS
TGTTCATCACCAGAAGTTGC+TGG 0.476217 5:-4087081 None:intergenic
GCACCATTGTTCACCGCAAT+CGG 0.477786 5:-4087126 None:intergenic
GATTCACCTGTTTGCTCCAC+CGG 0.494684 5:-4086546 None:intergenic
ACATTACCGGTGGAGCAAAC+AGG 0.498008 5:+4086540 MsaT025115.1:CDS
TGAACCGGAGAGAGAGGAAC+GGG 0.498202 5:+4087566 MsaT025115.1:CDS
GCTGGAGACACCATTCTAAC+CGG 0.500615 5:-4087063 None:intergenic
GTCGAATTCATCTCCGATTG+CGG 0.505685 5:+4087113 MsaT025115.1:CDS
ATTGAAACCCCAAACAGCTT+AGG 0.506033 5:-4087510 None:intergenic
CAATTGGGCTTAAACGATGT+AGG 0.509913 5:+4087529 MsaT025115.1:CDS
TTAGCAAATTCCCACCGGTC+AGG 0.510367 5:-4086910 None:intergenic
TCATTCTCTTCAACTAACTC+CGG 0.512986 5:-4087183 None:intergenic
TTCGGAAAGTTGTACCTGAC+CGG 0.514506 5:+4086896 MsaT025115.1:CDS
CTACGAGTGCTGCGACGGCA+CGG 0.515613 5:+4087328 MsaT025115.1:CDS
ATCTTCTACGAGTGCTGCGA+CGG 0.517274 5:+4087323 MsaT025115.1:CDS
TGTTCCCGTTCCTCTCTCTC+CGG 0.518493 5:-4087570 None:intergenic
TATGGCGGCACCGGTTAGAA+TGG 0.532149 5:+4087053 MsaT025115.1:CDS
TCATGTTCCTAAGCTGTTTG+GGG 0.536796 5:+4087503 MsaT025115.1:CDS
AACAGTAGCTATGGCGGCAC+CGG 0.542259 5:+4087044 MsaT025115.1:CDS
TGAGGTTGAACCGGAGAGAG+AGG 0.546548 5:+4087560 MsaT025115.1:CDS
CATGAGTTGCACCACTGCGC+CGG 0.546633 5:+4087164 MsaT025115.1:CDS
CGGTGGGAATTTGCTAATGA+CGG 0.547176 5:+4086916 MsaT025115.1:CDS
GGTGGAGCAAACAGGTGAAT+CGG 0.547365 5:+4086548 MsaT025115.1:CDS
GCCGGCAGCAGGAACAGCTA+TGG 0.547975 5:+4086993 MsaT025115.1:CDS
TAATACTGTAACAGTAGCTA+TGG 0.548334 5:+4087035 MsaT025115.1:CDS
ACGATGTAGGACGGAGAATG+AGG 0.556638 5:+4087542 MsaT025115.1:CDS
ACGAGTGCTGCGACGGCACG+GGG 0.561173 5:+4087330 MsaT025115.1:CDS
TTTGATGGAACCAGAGGTTG+AGG 0.561367 5:+4087476 MsaT025115.1:CDS
AAATCTCTAGCAAATTCAGC+AGG 0.569125 5:-4086699 None:intergenic
TGGTGATGGTGATGGTGACT+CGG 0.574712 5:+4087683 MsaT025115.1:CDS
TCTCCGATTGCGGTGAACAA+TGG 0.579507 5:+4087123 MsaT025115.1:CDS
CGGGGCGTGGTTGTAACAGA+AGG 0.579523 5:+4087348 MsaT025115.1:CDS
AACAGGTGAATCGGCGACGG+CGG 0.583900 5:+4086557 MsaT025115.1:CDS
AATGAGCTAAGTCAATTGAA+AGG 0.584859 5:+4087237 MsaT025115.1:CDS
AAGGAATGTTTCATTAGCTG+AGG 0.585509 5:+4087395 MsaT025115.1:CDS
CCTCGTGATGGTGATGGTGA+TGG 0.588325 5:+4087675 MsaT025115.1:CDS
ATCAAACTCGTCGTCTCACA+TGG 0.592517 5:-4087459 None:intergenic
GCAAACAGGTGAATCGGCGA+CGG 0.608757 5:+4086554 MsaT025115.1:CDS
AACTTCTGGTGATGAACAGG+TGG 0.612326 5:+4087086 MsaT025115.1:CDS
AGTTAGTTGAAGAGAATGAA+AGG 0.612844 5:+4087187 MsaT025115.1:CDS
CCATGAAACCAAATCATCAA+CGG 0.613347 5:-4086643 None:intergenic
GGAAAGTTGTACCTGACCGG+TGG 0.614886 5:+4086899 MsaT025115.1:CDS
TCTGAACCTCGTGATGGTGA+TGG 0.617342 5:+4087669 MsaT025115.1:CDS
ATTTGCTTCGAGATATTCAG+CGG 0.621869 5:+4086959 MsaT025115.1:CDS
TTCAACTAACTCCGGCGCAG+TGG 0.622278 5:-4087175 None:intergenic
GATGCAAACACAATCCTCGC+AGG 0.623759 5:+4087620 MsaT025115.1:CDS
GCAGGAGACTGATCGAGGAT+CGG 0.626303 5:+4087638 MsaT025115.1:CDS
TCCTCGCAGGAGACTGATCG+AGG 0.628520 5:+4087633 MsaT025115.1:CDS
GAAAGTTGTACCTGACCGGT+GGG 0.631205 5:+4086900 MsaT025115.1:CDS
TACTGTAACAGTAGCTATGG+CGG 0.634074 5:+4087038 MsaT025115.1:CDS
AATGTGGGTGGAGCTGCTGG+CGG 0.634893 5:+4087432 MsaT025115.1:CDS
GGAAAATGTAGTGCTTAATG+TGG 0.635559 5:+4087416 MsaT025115.1:CDS
TTGAACCGGAGAGAGAGGAA+CGG 0.637385 5:+4087565 MsaT025115.1:CDS
AATGTAGTGCTTAATGTGGG+TGG 0.639772 5:+4087420 MsaT025115.1:CDS
GAAAATGTAGTGCTTAATGT+GGG 0.644997 5:+4087417 MsaT025115.1:CDS
CGTCATTAGCAAATTCCCAC+CGG 0.646656 5:-4086915 None:intergenic
GACGAGTTTGATGGAACCAG+AGG 0.648812 5:+4087470 MsaT025115.1:CDS
CCAAACAGCTTAGGAACATG+AGG 0.651312 5:-4087501 None:intergenic
TGGGCTTAAACGATGTAGGA+CGG 0.657843 5:+4087533 MsaT025115.1:CDS
TCCTCGATCAGTCTCCTGCG+AGG 0.667916 5:-4087634 None:intergenic
AGGAACAGCTATGGCGACAG+CGG 0.668564 5:+4087002 MsaT025115.1:CDS
GGGGCGTGGTTGTAACAGAA+GGG 0.668865 5:+4087349 MsaT025115.1:CDS
GTTGATGGCGACATTACCGG+TGG 0.679162 5:+4086530 None:intergenic
GCTAATGACGGATTTCGACG+AGG 0.685443 5:+4086928 MsaT025115.1:CDS
GTGAAATCTGAACCTCGTGA+TGG 0.700758 5:+4087663 MsaT025115.1:CDS
CCATCACCATCACCATCACG+AGG 0.701913 5:-4087675 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr5 gene 4086534 4087734 4086534 ID=MsaG025115
Chr5 mRNA 4086534 4087734 4086534 ID=MsaT025115.1;Parent=MsaG025115
Chr5 exon 4086534 4086782 4086534 ID=MsaT025115.1.exon1;Parent=MsaT025115.1
Chr5 CDS 4086534 4086782 4086534 ID=cds.MsaT025115.1;Parent=MsaT025115.1
Chr5 exon 4086892 4087734 4086892 ID=MsaT025115.1.exon2;Parent=MsaT025115.1
Chr5 CDS 4086892 4087734 4086892 ID=cds.MsaT025115.1;Parent=MsaT025115.1
Gene Sequence

>MsaT025115.1

ATGGCGACATTACCGGTGGAGCAAACAGGTGAATCGGCGACGGCGGAGTCGCAGAGATCGATTCCGACGCCGTTTCTGACGAAAACGTATCAACTTGTTGATGATTCTTCCGTTGATGATTTGGTTTCATGGAATGAAGATGGAACAAGCTTCATAGTTTGGAAGCCTGCTGAATTTGCTAGAGATTTGCTTCCAAAGTATTTCAAACACAATAATTTCTCCAGTTTCGTTCGTCAACTCAATACTTATGGATTTCGGAAAGTTGTACCTGACCGGTGGGAATTTGCTAATGACGGATTTCGACGAGGCGAGAAAAATTTGCTTCGAGATATTCAGCGGAGAAAAATATTGCCGGCAGCAGGAACAGCTATGGCGACAGCGGTAGCTGCAGCTAATACTGTAACAGTAGCTATGGCGGCACCGGTTAGAATGGTGTCTCCAGCAACTTCTGGTGATGAACAGGTGGTTTCGTCGAATTCATCTCCGATTGCGGTGAACAATGGTGCTACAGTGCAGCGTAGCATGAGTTGCACCACTGCGCCGGAGTTAGTTGAAGAGAATGAAAGGCTTAAGAAAGAGAATATGCAATTGAGTAATGAGCTAAGTCAATTGAAAGGTCTTTGTAATAATATACTTGCTATGATGAGTAATTATGCTTCTGGTTTTAGTAGACAGTTAGAATCTTCTACGAGTGCTGCGACGGCACGGGGCGTGGTTGTAACAGAAGGGAAAATTTTGGATCTTTTGCCTATAAGGAATGTTTCATTAGCTGAGGAAAATGTAGTGCTTAATGTGGGTGGAGCTGCTGGCGGTGTGCCATGTGAGACGACGAGTTTGATGGAACCAGAGGTTGAGGCACCTCATGTTCCTAAGCTGTTTGGGGTTTCAATTGGGCTTAAACGATGTAGGACGGAGAATGAGGTTGAACCGGAGAGAGAGGAACGGGAACAGCATCAACAAATTCGAATGCAAGTGCAGATGCAAACACAATCCTCGCAGGAGACTGATCGAGGATCGGATGTGAAATCTGAACCTCGTGATGGTGATGGTGATGGTGACTCGGATGATCAAGAGCGTCGTTGGAAATTGTGA
Protein sequence

>MsaT025115.1

MATLPVEQTGESATAESQRSIPTPFLTKTYQLVDDSSVDDLVSWNEDGTSFIVWKPAEFARDLLPKYFKHNNFSSFVRQLNTYGFRKVVPDRWEFANDGFRRGEKNLLRDIQRRKILPAAGTAMATAVAAANTVTVAMAAPVRMVSPATSGDEQVVSSNSSPIAVNNGATVQRSMSCTTAPELVEENERLKKENMQLSNELSQLKGLCNNILAMMSNYASGFSRQLESSTSAATARGVVVTEGKILDLLPIRNVSLAEENVVLNVGGAAGGVPCETTSLMEPEVEAPHVPKLFGVSIGLKRCRTENEVEPEREEREQHQQIRMQVQMQTQSSQETDRGSDVKSEPRDGDGDGDSDDQERRWKL*