AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG036193

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG036193 MtrunA17_Chr7g0223471 91.111 405 32 1 1 401 1 405 0.0 747
MsaG036193 MtrunA17_Chr4g0046231 57.265 351 116 7 66 404 1 329 9.51e-111 328
MsaG036193 MtrunA17_Chr2g0283141 42.105 437 186 12 1 401 1 406 4.35e-79 251
MsaG036193 MtrunA17_Chr4g0046241 57.303 178 61 3 163 334 1 169 2.89e-57 185
MsaG036193 MtrunA17_Chr4g0046251 67.164 67 22 0 335 401 19 85 2.27e-25 99.0
MsaG036193 MtrunA17_Chr6g0460691 63.333 60 22 0 39 98 24 83 2.68e-22 96.3
MsaG036193 MtrunA17_Chr7g0254251 66.667 60 20 0 37 96 18 77 3.33e-22 95.5
MsaG036193 MtrunA17_Chr4g0043891 45.714 70 38 0 42 111 3 72 4.87e-17 80.5
MsaG036193 MtrunA17_Chr5g0436661 41.250 80 47 0 29 108 15 94 6.37e-16 75.5
MsaG036193 MtrunA17_Chr8g0392991 50.000 62 31 0 47 108 96 157 8.94e-16 78.2
MsaG036193 MtrunA17_Chr5g0405351 48.438 64 32 1 47 109 30 93 7.27e-15 74.7
MsaG036193 MtrunA17_Chr1g0212511 42.857 77 40 1 30 106 72 144 3.40e-14 72.4
MsaG036193 MtrunA17_Chr4g0031341 45.161 62 34 0 47 108 25 86 2.20e-13 69.7
MsaG036193 MtrunA17_Chr1g0153171 46.774 62 33 0 47 108 90 151 4.75e-13 68.6
MsaG036193 MtrunA17_Chr3g0144021 44.444 63 35 0 45 107 80 142 6.13e-13 67.8
MsaG036193 MtrunA17_Chr7g0238431 39.726 73 44 0 41 113 2 74 2.70e-12 65.9
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG036193 AT2G33880.2 64.000 125 33 2 1 115 1 123 8.99e-47 165
MsaG036193 AT2G33880.1 64.000 125 33 2 1 115 1 123 9.13e-47 165
MsaG036193 AT5G45980.1 52.344 128 53 1 1 120 1 128 4.46e-40 145
MsaG036193 AT5G45980.1 39.560 91 46 2 320 401 235 325 7.35e-11 63.5
MsaG036193 AT3G03660.1 68.519 54 17 0 45 98 31 84 1.30e-21 94.0
MsaG036193 AT3G03660.2 68.519 54 17 0 45 98 31 84 2.32e-21 94.0
MsaG036193 AT3G03660.4 66.102 59 19 1 41 98 26 84 2.96e-21 93.6
MsaG036193 AT3G03660.3 66.102 59 19 1 41 98 26 84 4.27e-21 94.0
MsaG036193 AT5G17810.3 66.667 54 18 0 45 98 19 72 9.72e-21 91.7
MsaG036193 AT5G17810.1 66.667 54 18 0 45 98 19 72 1.05e-20 91.7
MsaG036193 AT5G17810.2 66.667 54 18 0 45 98 19 72 1.05e-20 91.7
MsaG036193 AT5G05770.1 40.000 75 45 0 47 121 29 103 4.69e-15 71.6
MsaG036193 AT3G18010.1 38.384 99 52 2 47 145 76 165 5.05e-15 76.3
MsaG036193 AT3G11260.1 45.312 64 35 0 47 110 24 87 2.96e-14 71.2
MsaG036193 AT4G35550.1 46.032 63 34 0 45 107 97 159 4.75e-14 72.4
MsaG036193 AT2G17950.1 48.438 64 32 1 47 109 38 101 4.80e-14 72.8
MsaG036193 AT1G46480.2 46.774 62 33 0 47 108 90 151 1.35e-13 69.3
MsaG036193 AT1G20700.2 44.444 63 35 0 45 107 31 93 1.69e-13 68.2
MsaG036193 AT1G20700.1 44.444 63 35 0 45 107 93 155 3.33e-13 68.9
MsaG036193 AT1G20700.3 44.444 63 35 0 45 107 93 155 3.35e-13 68.6
MsaG036193 AT1G46480.1 46.774 62 33 0 47 108 90 151 6.43e-13 68.9
MsaG036193 AT5G59340.1 41.935 62 36 0 47 108 14 75 2.33e-12 67.4
MsaG036193 AT2G28610.1 41.176 68 40 0 41 108 2 69 4.15e-12 66.2
MsaG036193 AT2G01500.1 39.241 79 40 1 31 101 37 115 8.31e-12 65.9
MsaG036193 AT5G46010.1 46.154 65 34 1 43 106 50 114 2.50e-11 60.8

Find 108 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TTCCATCTTGGCTTTGGTTC+TGG 0.191744 7:-28967082 None:intergenic
CAAGACCCACAACTTAATTT+TGG 0.218741 7:+28967820 MsaT036193.1:CDS
ATGAACTATGGAAGTGTTAA+TGG 0.219154 7:+28967628 MsaT036193.1:CDS
CACCATCCCTGTGTTGAAAA+TGG 0.220373 7:-28967137 None:intergenic
GGGTGTGGGTGGTTGTAAAT+TGG 0.233407 7:-28967524 None:intergenic
ATGCGAATTTGTTGTGGTTT+TGG 0.249723 7:-28967106 None:intergenic
AAAGGATGCACGAACGTTAA+AGG 0.277456 7:-28968428 None:intergenic
AATAAGCATCAACTTGGTTT+TGG 0.278040 7:-28967483 None:intergenic
TTAGGCACTACTTCTTCATT+AGG 0.295012 7:-28967562 None:intergenic
CATAGGTTTAATCACATATC+TGG 0.299449 7:+28967601 MsaT036193.1:CDS
CTCAACTCTTCTCTCTTAAC+TGG 0.309596 7:+28966197 MsaT036193.1:CDS
AATTAAGTTGTGGGTCTTGC+TGG 0.313309 7:-28967816 None:intergenic
TTGACGTTGATGATCAATAA+TGG 0.324294 7:-28967935 None:intergenic
TCATCATCGTCGTCTTCTTC+TGG 0.333828 7:+28967352 MsaT036193.1:CDS
TTTGGGTTCCATCTTGGCTT+TGG 0.347448 7:-28967088 None:intergenic
ATATCTGGTTTCATGAACTA+TGG 0.350239 7:+28967616 MsaT036193.1:CDS
TAAACAAAGCAAATGTTATA+AGG 0.351791 7:-28968565 None:intergenic
TTTAACGTTCGTGCATCCTT+TGG 0.359074 7:+28968430 MsaT036193.1:CDS
CGTGAACAATTACAAGAGTT+TGG 0.359135 7:+28967190 MsaT036193.1:CDS
ATTGTAATTTCTAACAATAT+CGG 0.371493 7:+28967400 MsaT036193.1:CDS
CATGAGCTCATCATGAACTA+TGG 0.376168 7:+28967709 MsaT036193.1:CDS
TGACGTTGATGATCAATAAT+GGG 0.378539 7:-28967934 None:intergenic
ATCTTCGTAATTTCCTCCCT+TGG 0.380246 7:-28967166 None:intergenic
TACTAAGGACGCCTCATTCA+TGG 0.386072 7:+28968393 MsaT036193.1:CDS
TAGGCACTACTTCTTCATTA+GGG 0.391137 7:-28967561 None:intergenic
TCCAGTTCTAACCGATGAAT+GGG 0.405372 7:+28968486 MsaT036193.1:CDS
TGTGGTGTTGTCATGGCATT+AGG 0.415749 7:-28967580 None:intergenic
GGATTCTCCAATGCTAATGA+TGG 0.428470 7:+28967421 MsaT036193.1:CDS
TCAGGATTTGGCGTGGAAGA+TGG 0.430982 7:+28968349 MsaT036193.1:intron
ATGGGGAATGGAACAGCAAC+AGG 0.432330 7:-28967916 None:intergenic
CCCCATTCATCGGTTAGAAC+TGG 0.434360 7:-28968487 None:intergenic
GCCTTGAGAATTCCGTTGGT+TGG 0.439358 7:-28966174 None:intergenic
TTCGTAATTTCCTCCCTTGG+TGG 0.441626 7:-28967163 None:intergenic
GTTGTAAATTGGTTTCAGTC+GGG 0.445592 7:-28967513 None:intergenic
CCATGGTGCTACTTATTACC+TGG 0.446959 7:+28968531 MsaT036193.1:CDS
AAGGATGCACGAACGTTAAA+GGG 0.448612 7:-28968427 None:intergenic
TTAGAAATTACAATTTCATC+GGG 0.455420 7:-28967391 None:intergenic
CTCCAGTTCTAACCGATGAA+TGG 0.457716 7:+28968485 MsaT036193.1:CDS
CGCCTCATTCATGGTTGATG+TGG 0.462527 7:+28968402 MsaT036193.1:CDS
GCAGTTCTCTTTGACTCCTC+TGG 0.463999 7:+28968460 MsaT036193.1:CDS
GCCTCATTCATGGTTGATGT+GGG 0.464076 7:+28968403 MsaT036193.1:CDS
CCTCTTCCTCCGACTACCAT+TGG 0.468440 7:+28967889 MsaT036193.1:CDS
CACCATGGTGGAGCGAATCA+AGG 0.472512 7:-28968516 None:intergenic
GGTTGTAAATTGGTTTCAGT+CGG 0.475867 7:-28967514 None:intergenic
TCGTAATTTCCTCCCTTGGT+GGG 0.478421 7:-28967162 None:intergenic
GTTAGAAATTACAATTTCAT+CGG 0.486033 7:-28967392 None:intergenic
CTCCAGAACCAAAGCCAAGA+TGG 0.487752 7:+28967080 MsaT036193.1:CDS
AGAAGACGACGATGATGAGT+TGG 0.493094 7:-28967347 None:intergenic
GTGTTTCTCGTTTCTTGTTG+TGG 0.496273 7:-28967288 None:intergenic
AATTACAATTTCATCGGGAG+AGG 0.500444 7:-28967386 None:intergenic
CCAATGGTAGTCGGAGGAAG+AGG 0.504535 7:-28967889 None:intergenic
ATTCCGTTGGTTGGACGCAT+TGG 0.507387 7:-28966165 None:intergenic
CAACACCAAAATTAAGTTGT+GGG 0.508001 7:-28967825 None:intergenic
GACTCTTCTCTTGATCATAT+CGG 0.515755 7:-28967762 None:intergenic
AAATATTGTTTAGGTGGAGA+TGG 0.518896 7:+28967046 MsaT036193.1:intron
CACCATCCCATCATTAGCAT+TGG 0.520729 7:-28967428 None:intergenic
GAAGACGACGATGATGAGTT+GGG 0.524684 7:-28967346 None:intergenic
ATCATATCGGTCATCGATTG+TGG 0.526068 7:-28967749 None:intergenic
TTGAAACCAGTAAAAGACAT+TGG 0.529718 7:-28967227 None:intergenic
TGAGGCCTTGAGAATTCCGT+TGG 0.536803 7:-28966178 None:intergenic
AGGTAAGGGTTGAACCATTG+AGG 0.538283 7:-28967656 None:intergenic
TGATGATCAATAATGGGGAA+TGG 0.544295 7:-28967928 None:intergenic
TCGAGAATGCGAATTTGTTG+TGG 0.549826 7:-28967112 None:intergenic
GCTAGGCCAATGTTTGTTCG+AGG 0.550853 7:-28966126 None:intergenic
TGTTAATGGAAGCTCCTCAA+TGG 0.556181 7:+28967642 MsaT036193.1:CDS
TTACAAGAGTTTGGTCAAGT+TGG 0.556243 7:+28967199 MsaT036193.1:CDS
ACCATGGTGGAGCGAATCAA+GGG 0.565239 7:-28968515 None:intergenic
CCCCACATCAACCATGAATG+AGG 0.565657 7:-28968404 None:intergenic
GTAGACTTCTTGAACATGCT+AGG 0.571860 7:-28966143 None:intergenic
TGGCTTCCTCGAACAAACAT+TGG 0.573120 7:+28966120 MsaT036193.1:CDS
CGAGAAACACAACAAAACTC+TGG 0.574956 7:+28967301 MsaT036193.1:CDS
GCAACACCAAAATTAAGTTG+TGG 0.576573 7:-28967826 None:intergenic
TTTGTTTGCTTCTAGACTTG+CGG 0.582777 7:-28967252 None:intergenic
AAGGGTAACACCCCATTCAT+CGG 0.584993 7:-28968497 None:intergenic
AAACCTATGTGGTGTTGTCA+TGG 0.586615 7:-28967587 None:intergenic
TTGTAAATTGGTTTCAGTCG+GGG 0.588784 7:-28967512 None:intergenic
GATTCTCCAATGCTAATGAT+GGG 0.589822 7:+28967422 MsaT036193.1:CDS
AAAATGTACTGTGATTACTA+AGG 0.592453 7:+28968378 MsaT036193.1:CDS
CTCCAATGCTAATGATGGGA+TGG 0.594670 7:+28967426 MsaT036193.1:CDS
AACAGCAACAGGTGCACCAA+TGG 0.597910 7:-28967905 None:intergenic
TTGGTTCACCGAGACTGCGG+GGG 0.602191 7:-28967464 None:intergenic
TCCAACCAACGGAATTCTCA+AGG 0.602756 7:+28966173 MsaT036193.1:CDS
GAGAACTGCTCGATCTCCAA+AGG 0.604797 7:-28968446 None:intergenic
ATTATTGATCATCAACGTCA+AGG 0.607731 7:+28967937 MsaT036193.1:CDS
CTACCAATGCGTCCAACCAA+CGG 0.608541 7:+28966162 MsaT036193.1:CDS
ACCCTTGATTCGCTCCACCA+TGG 0.609559 7:+28968514 MsaT036193.1:CDS
TGTGAAAATAAGCATCAACT+TGG 0.611249 7:-28967489 None:intergenic
TGATCAAGAGAAGAGTCAAG+AGG 0.611568 7:+28967768 MsaT036193.1:CDS
TTTGGTTCACCGAGACTGCG+GGG 0.623412 7:-28967465 None:intergenic
GATGGTGAACCCACCAAGGG+AGG 0.632998 7:+28967153 MsaT036193.1:CDS
CAGTTAAGAGAGAAGAGTTG+AGG 0.637407 7:-28966196 None:intergenic
ATGCCATGACAACACCACAT+AGG 0.641572 7:+28967584 MsaT036193.1:CDS
ACAGGTGCACCAATGGTAGT+CGG 0.643930 7:-28967898 None:intergenic
GACGTTGATGATCAATAATG+GGG 0.644683 7:-28967933 None:intergenic
ATTTGGCGTGGAAGATGGAG+CGG 0.645210 7:+28968354 MsaT036193.1:CDS
CAGGGATGGTGAACCCACCA+AGG 0.647061 7:+28967149 MsaT036193.1:CDS
GGTAATAAGTAGCACCATGG+TGG 0.650858 7:-28968528 None:intergenic
CAATGCTAATGATGGGATGG+TGG 0.652306 7:+28967429 MsaT036193.1:CDS
CCTCATTCATGGTTGATGTG+GGG 0.657797 7:+28968404 MsaT036193.1:CDS
ATGAGCTCATGATTAACTAG+AGG 0.665512 7:-28967697 None:intergenic
AGGGATGGTGAACCCACCAA+GGG 0.665906 7:+28967150 MsaT036193.1:CDS
GATATGTGATTAAACCTATG+TGG 0.669059 7:-28967598 None:intergenic
CCAGTTCTAACCGATGAATG+GGG 0.682383 7:+28968487 MsaT036193.1:CDS
GGTTAGAACTGGAGTACCAG+AGG 0.692890 7:-28968476 None:intergenic
GTGTTTGTCAGGATTTGGCG+TGG 0.696978 7:+28968342 MsaT036193.1:intron
CCAGGTAATAAGTAGCACCA+TGG 0.700447 7:-28968531 None:intergenic
GGTGCACCAATGGTAGTCGG+AGG 0.701339 7:-28967895 None:intergenic
GACGACGATGATGAGTTGGG+TGG 0.782556 7:-28967343 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr7 gene 28966119 28968591 28966119 ID=MsaG036193
Chr7 mRNA 28966119 28968591 28966119 ID=MsaT036193.1;Parent=MsaG036193
Chr7 exon 28966119 28966218 28966119 ID=MsaT036193.1.exon1;Parent=MsaT036193.1
Chr7 CDS 28966119 28966218 28966119 ID=cds.MsaT036193.1;Parent=MsaT036193.1
Chr7 exon 28967059 28967958 28967059 ID=MsaT036193.1.exon2;Parent=MsaT036193.1
Chr7 CDS 28967059 28967958 28967059 ID=cds.MsaT036193.1;Parent=MsaT036193.1
Chr7 exon 28968353 28968591 28968353 ID=MsaT036193.1.exon3;Parent=MsaT036193.1
Chr7 CDS 28968353 28968591 28968353 ID=cds.MsaT036193.1;Parent=MsaT036193.1
Gene Sequence

>MsaT036193.1

ATGGCTTCCTCGAACAAACATTGGCCTAGCATGTTCAAGAAGTCTACCAATGCGTCCAACCAACGGAATTCTCAAGGCCTCAACTCTTCTCTCTTAACTGGTGGAGATGGTGAAGAGAGAACTCCAGAACCAAAGCCAAGATGGAACCCAAAACCACAACAAATTCGCATTCTCGAAGCCATTTTCAACACAGGGATGGTGAACCCACCAAGGGAGGAAATTACGAAGATACGTGAACAATTACAAGAGTTTGGTCAAGTTGGTGATGCCAATGTCTTTTACTGGTTTCAAAACCGCAAGTCTAGAAGCAAACAAAAGAAAAGATTCATCCACAACAAGAAACGAGAAACACAACAAAACTCTGGTCATCAAGCACTCACATCACCACCCAACTCATCATCGTCGTCTTCTTCTGGTCATCAAAAAGCCTCTCCCGATGAAATTGTAATTTCTAACAATATCGGATTCTCCAATGCTAATGATGGGATGGTGGTGTTTTCTAATTCCCCCGCAGTCTCGGTGAACCAAAACCAAGTTGATGCTTATTTTCACACCCCGACTGAAACCAATTTACAACCACCCACACCCCCATTTTTCTCTTTCCCTAATGAAGAAGTAGTGCCTAATGCCATGACAACACCACATAGGTTTAATCACATATCTGGTTTCATGAACTATGGAAGTGTTAATGGAAGCTCCTCAATGGTTCAACCCTTACCTCAACAAAATGTTGATGTACCTCTAGTTAATCATGAGCTCATCATGAACTATGGAAGTAAAAATGGAATCTCCACAATCGATGACCGATATGATCAAGAGAAGAGTCAAGAGGAAGCAATGAATATGATTCACATGTACCAGCAAGACCCACAACTTAATTTTGGTGTTGCTACAACATCAAGTAATGATGATGAGTCAGTTGATCTTGCTCCTCTTCCTCCGACTACCATTGGTGCACCTGTTGCTGTTCCATTCCCCATTATTGATCATCAACGTCAAGGATTTGGCGTGGAAGATGGAGCGGAAAAATGTACTGTGATTACTAAGGACGCCTCATTCATGGTTGATGTGGGGCCCTTTAACGTTCGTGCATCCTTTGGAGATCGAGCAGTTCTCTTTGACTCCTCTGGTACTCCAGTTCTAACCGATGAATGGGGTGTTACCCTTGATTCGCTCCACCATGGTGCTACTTATTACCTGGTGCGTATTTTTCCTTATAACATTTGCTTTGTTTATTAA
Protein sequence

>MsaT036193.1

MASSNKHWPSMFKKSTNASNQRNSQGLNSSLLTGGDGEERTPEPKPRWNPKPQQIRILEAIFNTGMVNPPREEITKIREQLQEFGQVGDANVFYWFQNRKSRSKQKKRFIHNKKRETQQNSGHQALTSPPNSSSSSSSGHQKASPDEIVISNNIGFSNANDGMVVFSNSPAVSVNQNQVDAYFHTPTETNLQPPTPPFFSFPNEEVVPNAMTTPHRFNHISGFMNYGSVNGSSSMVQPLPQQNVDVPLVNHELIMNYGSKNGISTIDDRYDQEKSQEEAMNMIHMYQQDPQLNFGVATTSSNDDESVDLAPLPPTTIGAPVAVPFPIIDHQRQGFGVEDGAEKCTVITKDASFMVDVGPFNVRASFGDRAVLFDSSGTPVLTDEWGVTLDSLHHGATYYLVRIFPYNICFVY*