AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG038138

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG038138 MtrunA17_Chr5g0415031 87.619 105 6 1 130 227 28 132 2.07e-52 181
MsaG038138 MtrunA17_Chr8g0364231 61.947 113 31 2 127 227 19 131 2.64e-36 135
MsaG038138 MtrunA17_Chr6g0452001 63.542 96 28 1 139 227 57 152 2.95e-30 117
MsaG038138 MtrunA17_Chr6g0452021 61.458 96 28 3 139 227 37 130 5.73e-26 104
MsaG038138 MtrunA17_Chr1g0206781 59.091 66 27 0 150 215 23 88 5.89e-23 89.7
MsaG038138 MtrunA17_Chr1g0206771 56.757 74 32 0 131 204 9 82 6.63e-23 91.7
MsaG038138 MtrunA17_Chr1g0206771 49.254 67 34 0 140 206 97 163 1.89e-14 68.9
MsaG038138 MtrunA17_Chr1g0205811 61.429 70 27 0 146 215 22 91 9.44e-22 86.7
MsaG038138 MtrunA17_Chr8g0364021 47.674 86 38 1 135 213 34 119 1.57e-19 84.0
MsaG038138 MtrunA17_Chr1g0156171 90.244 41 4 0 168 208 17 57 1.71e-19 80.9
MsaG038138 MtrunA17_Chr3g0077861 59.722 72 23 2 146 216 98 164 1.07e-18 80.1
MsaG038138 MtrunA17_Chr3g0077861 42.857 77 43 1 151 227 18 93 2.61e-11 60.1
MsaG038138 MtrunA17_Chr7g0218911 50.746 67 33 0 141 207 1 67 6.99e-18 76.6
MsaG038138 MtrunA17_Chr3g0077911 63.492 63 22 1 146 207 98 160 1.00e-17 77.4
MsaG038138 MtrunA17_Chr3g0077911 42.857 77 43 1 151 227 18 93 5.79e-12 62.0
MsaG038138 MtrunA17_Chr4g0075861 58.209 67 28 0 144 210 178 244 1.05e-17 80.9
MsaG038138 MtrunA17_Chr4g0075861 50.000 60 30 0 154 213 25 84 8.36e-13 66.6
MsaG038138 MtrunA17_Chr4g0075861 42.857 77 44 0 130 206 81 157 2.26e-11 62.4
MsaG038138 MtrunA17_Chr4g0075971 58.209 67 28 0 144 210 178 244 1.09e-17 81.3
MsaG038138 MtrunA17_Chr4g0075971 48.571 70 33 1 144 213 18 84 5.36e-13 67.8
MsaG038138 MtrunA17_Chr1g0205821 45.977 87 45 1 129 215 6 90 1.26e-17 77.4
MsaG038138 MtrunA17_Chr1g0205821 37.363 91 57 0 118 208 79 169 3.25e-14 68.2
MsaG038138 MtrunA17_Chr3g0077891 48.810 84 35 2 135 210 89 172 3.34e-17 76.3
MsaG038138 MtrunA17_Chr3g0077891 55.357 56 25 0 152 207 23 78 1.17e-11 61.2
MsaG038138 MtrunA17_Chr8g0335501 82.500 40 7 0 1 40 170 209 3.24e-16 75.9
MsaG038138 MtrunA17_Chr1g0205861 44.048 84 39 1 138 213 8 91 1.61e-15 70.5
MsaG038138 MtrunA17_Chr1g0209201 48.052 77 35 2 145 217 23 98 1.12e-14 68.6
MsaG038138 MtrunA17_Chr3g0077941 49.351 77 31 2 138 206 91 167 2.47e-14 68.6
MsaG038138 MtrunA17_Chr3g0077941 53.571 56 26 0 152 207 23 78 2.74e-11 60.5
MsaG038138 MtrunA17_Chr1g0205801 43.478 69 39 0 145 213 19 87 7.26e-14 65.9
MsaG038138 MtrunA17_Chr2g0328701 47.143 70 34 1 144 213 35 101 1.52e-13 65.1
MsaG038138 MtrunA17_Chr3g0077881 47.500 80 34 2 135 206 89 168 3.56e-13 65.5
MsaG038138 MtrunA17_Chr3g0077881 55.357 56 25 0 152 207 23 78 1.13e-11 61.2
MsaG038138 MtrunA17_Chr1g0205831 47.692 65 34 0 143 207 7 71 6.85e-13 64.7
MsaG038138 MtrunA17_Chr1g0205831 42.857 70 40 0 146 215 81 150 3.33e-11 60.1
MsaG038138 MtrunA17_Chr3g0077811 57.143 56 24 0 152 207 28 83 1.29e-12 62.8
MsaG038138 MtrunA17_Chr7g0218891 43.836 73 39 1 143 213 104 176 8.28e-12 63.2
MsaG038138 MtrunA17_Chr7g0218891 42.424 66 38 0 152 217 201 266 1.59e-11 62.4
MsaG038138 MtrunA17_Chr7g0256011 47.368 57 30 0 150 206 28 84 5.46e-11 58.2
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG038138 AT1G70060.2 70.408 98 21 2 138 227 7 104 4.48e-34 129
MsaG038138 AT1G70060.1 70.408 98 21 2 138 227 7 104 4.48e-34 129
MsaG038138 AT1G24190.3 68.041 97 24 1 138 227 7 103 7.04e-34 129
MsaG038138 AT1G24190.1 68.041 97 24 1 138 227 7 103 8.37e-34 128
MsaG038138 AT1G24190.2 68.041 97 24 1 138 227 7 103 8.45e-34 128
MsaG038138 AT3G01320.1 63.000 100 27 3 136 227 48 145 3.77e-29 115
MsaG038138 AT3G01320.2 63.000 100 27 3 136 227 48 145 4.03e-29 115
MsaG038138 AT1G59890.2 70.370 81 22 1 146 226 53 131 9.25e-29 114
MsaG038138 AT1G59890.3 70.370 81 22 1 146 226 53 131 1.02e-28 114
MsaG038138 AT1G59890.1 70.370 81 22 1 146 226 53 131 1.02e-28 114
MsaG038138 AT1G59890.4 70.370 81 22 1 146 226 53 131 1.07e-28 114
MsaG038138 AT1G10450.2 67.105 76 25 0 146 221 41 116 2.61e-28 112
MsaG038138 AT1G10450.1 67.105 76 25 0 146 221 41 116 2.61e-28 112
MsaG038138 AT1G10450.3 67.105 76 25 0 146 221 92 167 2.74e-28 112
MsaG038138 AT5G15020.1 61.458 96 28 2 139 227 46 139 2.35e-27 110
MsaG038138 AT5G15020.2 61.458 96 28 2 139 227 46 139 2.46e-27 110
MsaG038138 AT1G70030.3 52.632 95 37 2 138 225 15 108 1.66e-21 86.7
MsaG038138 AT5G15025.1 50.515 97 39 2 123 212 27 121 1.74e-21 86.7
MsaG038138 AT1G70030.2 54.321 81 30 1 138 211 15 95 5.07e-21 85.9
MsaG038138 AT1G24200.1 49.485 97 39 2 138 227 7 100 9.41e-21 86.7
MsaG038138 AT1G70030.1 54.321 81 30 1 138 211 4 84 9.63e-21 85.5
MsaG038138 AT4G12020.1 57.971 69 28 1 146 214 316 383 4.13e-17 80.5
MsaG038138 AT4G12020.9 57.971 69 28 1 146 214 316 383 4.13e-17 80.5
MsaG038138 AT4G12020.7 57.971 69 28 1 146 214 316 383 4.17e-17 80.5
MsaG038138 AT4G12020.2 57.971 69 28 1 146 214 316 383 4.19e-17 80.5
MsaG038138 AT4G12020.6 57.971 69 28 1 146 214 316 383 4.29e-17 80.5
MsaG038138 AT4G12020.8 57.971 69 28 1 146 214 316 383 4.29e-17 80.5
MsaG038138 AT4G12020.4 57.971 69 28 1 146 214 316 383 4.35e-17 80.1
MsaG038138 AT4G12020.10 57.971 69 28 1 146 214 316 383 4.39e-17 80.1
MsaG038138 AT4G12020.11 57.971 69 28 1 146 214 316 383 4.41e-17 80.1
MsaG038138 AT4G12020.3 57.971 69 28 1 146 214 316 383 4.44e-17 80.1
MsaG038138 AT4G12020.5 57.971 69 28 1 146 214 249 316 4.55e-17 80.1
MsaG038138 AT1G27220.1 54.098 61 28 0 146 206 22 82 1.81e-16 75.1
MsaG038138 AT1G27250.1 53.333 60 28 0 146 205 29 88 1.08e-15 71.6
MsaG038138 AT5G15040.1 44.118 68 38 0 145 212 10 77 2.43e-13 63.9
MsaG038138 AT5G15040.3 44.118 68 38 0 145 212 10 77 2.43e-13 63.9
MsaG038138 AT5G15040.2 44.118 68 38 0 145 212 10 77 2.43e-13 63.9
MsaG038138 AT5G35610.1 55.000 60 27 0 146 205 18 77 3.01e-13 65.5

Find 58 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
ACAGTTGTGGTGGAGGAATT+TGG 0.147001 7:-71912751 MsaT038138.1:CDS
GGAATTTGGGGATGAGTTTA+AGG 0.154832 7:-71912737 MsaT038138.1:CDS
CAGTTGTGGTGGAGGAATTT+GGG 0.199651 7:-71912750 MsaT038138.1:CDS
TGCTCGTCGTCGACAGTCTA+TGG 0.290635 7:+71912560 None:intergenic
CGTCGTGGTTGGCTTGGATT+GGG 0.302427 7:-71912512 MsaT038138.1:CDS
CCGTCGTGGTTGGCTTGGAT+TGG 0.303571 7:-71912513 MsaT038138.1:CDS
CGTTGCGGGAGGAAGAGATT+TGG 0.369178 7:+71912615 None:intergenic
GAATGTGCCTTCTTATTTGA+AGG 0.371628 7:-71911636 MsaT038138.1:intron
TTCATCCGTCGTGGTTGGCT+TGG 0.382405 7:-71912518 MsaT038138.1:CDS
GTTGCGGGAGGAAGAGATTT+GGG 0.414572 7:+71912616 None:intergenic
ATTTGGGAACTGAGTGAGAG+TGG 0.419809 7:+71912632 None:intergenic
TAAGATCAAGTTTCAAGGTC+CGG 0.429714 7:-71910905 MsaT038138.1:intron
ATCTCGATTTGGCGGTTGCC+CGG 0.433695 7:+71910886 None:intergenic
GCTGATGGAGCTGTGGACTT+TGG 0.439632 7:-71911664 MsaT038138.1:CDS
TTCTCTAAGATCAAGTTTCA+AGG 0.445375 7:-71910910 MsaT038138.1:intron
AGGGTAATCTCATGGCCCTT+TGG 0.454966 7:+71910580 None:intergenic
GGCGATGAAAAGGTGGGGAT+TGG 0.457881 7:-71912686 MsaT038138.1:CDS
AGTTTATTGTGGCGATGAAA+AGG 0.460491 7:-71912696 MsaT038138.1:CDS
GGTCAGAGAGACTTGATCTT+GGG 0.460609 7:-71910619 MsaT038138.1:CDS
GAATTTGGGGATGAGTTTAA+GGG 0.462825 7:-71912736 MsaT038138.1:CDS
CTCATGGCCCTTTGGCAGAA+AGG 0.476655 7:+71910588 None:intergenic
TTCCTTTCATCCGTCGTGGT+TGG 0.478850 7:-71912523 MsaT038138.1:CDS
AGGTCAGAGAGACTTGATCT+TGG 0.484989 7:-71910620 MsaT038138.1:CDS
AACAATACCTTCAAATAAGA+AGG 0.490879 7:+71911629 None:intergenic
AAGATCAAGTTTCAAGGTCC+GGG 0.505302 7:-71910904 MsaT038138.1:CDS
TATTGTGGCGATGAAAAGGT+GGG 0.512236 7:-71912692 MsaT038138.1:CDS
TTTAACACCTTTCTGCCAAA+GGG 0.527079 7:-71910595 MsaT038138.1:CDS
CGCCTTCCTTTCATCCGTCG+TGG 0.530890 7:-71912527 MsaT038138.1:CDS
GATGAATACAGTTGTGGTGG+AGG 0.532963 7:-71912758 MsaT038138.1:CDS
AGATAAGAAGGAAAAGTATG+AGG 0.539361 7:-71910822 MsaT038138.1:CDS
ATTTAACACCTTTCTGCCAA+AGG 0.543196 7:-71910596 MsaT038138.1:CDS
AGCCAACCACGACGGATGAA+AGG 0.546711 7:+71912521 None:intergenic
TTGCTCATCCTCAGACGAAA+GGG 0.552798 7:+71910561 None:intergenic
TTATTGTGGCGATGAAAAGG+TGG 0.552807 7:-71912693 MsaT038138.1:CDS
TTTGGGAACTGAGTGAGAGT+GGG 0.553792 7:+71912633 None:intergenic
GTGGAGTGCTTGAGGCGAGA+GGG 0.553806 7:+71912582 None:intergenic
TGAGATTACCCTTTCGTCTG+AGG 0.555293 7:-71910569 MsaT038138.1:CDS
AATTTGGGGATGAGTTTAAG+GGG 0.576658 7:-71912735 MsaT038138.1:CDS
ACTGACTACTAATGATGTCA+AGG 0.576783 7:-71910855 MsaT038138.1:CDS
GGTGGAGTGCTTGAGGCGAG+AGG 0.579412 7:+71912581 None:intergenic
AGTTGTGGTGGAGGAATTTG+GGG 0.581437 7:-71912749 MsaT038138.1:CDS
AACCACGACGGATGAAAGGA+AGG 0.581908 7:+71912525 None:intergenic
AGTCTATGGTGGAGTGCTTG+AGG 0.584912 7:+71912574 None:intergenic
ATTGTGGCGATGAAAAGGTG+GGG 0.587522 7:-71912691 MsaT038138.1:CDS
CAGACGAAAGGGTAATCTCA+TGG 0.592774 7:+71910572 None:intergenic
GTTGCTCATCCTCAGACGAA+AGG 0.601293 7:+71910560 None:intergenic
GTCGTGGTTGGCTTGGATTG+GGG 0.606907 7:-71912511 MsaT038138.1:CDS
AAAGACGAAGGAGTTTATTG+TGG 0.626886 7:-71912707 MsaT038138.1:CDS
GGGCAACCGCCAAATCGAGA+TGG 0.627067 7:-71910884 MsaT038138.1:CDS
AAGGTGGGGATTGGATCCGA+CGG 0.628351 7:-71912677 MsaT038138.1:CDS
TAAGGGGAATGAAAAGACGA+AGG 0.630170 7:-71912719 MsaT038138.1:CDS
ATTTGTAGAGTTGATACTGA+TGG 0.633224 7:-71910673 MsaT038138.1:intron
AAGTGAGAGAGCTTCTCCGT+CGG 0.665311 7:+71912661 None:intergenic
CCAATCCAAGCCAACCACGA+CGG 0.670528 7:+71912513 None:intergenic
GGCGATGAATACAGTTGTGG+TGG 0.675796 7:-71912761 None:intergenic
TGCGGCGATGAATACAGTTG+TGG 0.683304 7:-71912764 None:intergenic
TGGTGTCATTGAAAGAGTGA+AGG 0.685356 7:-71910653 MsaT038138.1:CDS
TCGTCGTCGACAGTCTATGG+TGG 0.723257 7:+71912563 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr7 gene 71910516 71912779 71910516 ID=MsaG038138
Chr7 mRNA 71910516 71912779 71910516 ID=MsaT038138.1;Parent=MsaG038138
Chr7 exon 71910516 71910687 71910516 ID=MsaT038138.1.exon4;Parent=MsaT038138.1
Chr7 CDS 71910516 71910687 71910516 ID=cds.MsaT038138.1;Parent=MsaT038138.1
Chr7 exon 71910785 71910923 71910785 ID=MsaT038138.1.exon3;Parent=MsaT038138.1
Chr7 CDS 71910785 71910923 71910785 ID=cds.MsaT038138.1;Parent=MsaT038138.1
Chr7 exon 71911637 71911712 71911637 ID=MsaT038138.1.exon2;Parent=MsaT038138.1
Chr7 CDS 71911637 71911712 71911637 ID=cds.MsaT038138.1;Parent=MsaT038138.1
Chr7 exon 71912483 71912779 71912483 ID=MsaT038138.1.exon1;Parent=MsaT038138.1
Chr7 CDS 71912483 71912779 71912483 ID=cds.MsaT038138.1;Parent=MsaT038138.1
Gene Sequence

>MsaT038138.1

ATGAATACAGTTGTGGTGGAGGAATTTGGGGATGAGTTTAAGGGGAATGAAAAGACGAAGGAGTTTATTGTGGCGATGAAAAGGTGGGGATTGGATCCGACGGAGAAGCTCTCTCACTTTCACTCCCACTCTCACTCAGTTCCCAAATCTCTTCCTCCCGCAACGCACAAAAAAACCCTCTCGCCTCAAGCACTCCACCATAGACTGTCGACGACGAGCATTTCGAATGTCGCCTTCCTTTCATCCGTCGTGGTTGGCTTGGATTGGGGAGAGAAGAAAAGAAAAAACACAATGATGCTTTATTTTACAATTTACAGATTTTTGCTGATGGAGCTGTGGACTTTGGCTATTGAATGTGCCTTCTTATTTGAAGATCAAGTTTCAAGGTCCGGGCAACCGCCAAATCGAGATGGTCAAAAACTGACTACTAATGATGTCAAGGATATTTTTCAAGATAAGAAGGAAAAGTATGAGGACTTTTTGGAGGTTATGAAAGATTTTAAAGCACAAAGAGTTGATACTGATGGTGTCATTGAAAGAGTGAAGGAACTTTTTAGAGGTCAGAGAGACTTGATCTTGGGATTTAACACCTTTCTGCCAAAGGGCCATGAGATTACCCTTTCGTCTGAGGATGAGCAACCTCAACTAAAAAAGAAGTTTGAATTTTATGAAGCTATGAGTTAG
Protein sequence

>MsaT038138.1

MNTVVVEEFGDEFKGNEKTKEFIVAMKRWGLDPTEKLSHFHSHSHSVPKSLPPATHKKTLSPQALHHRLSTTSISNVAFLSSVVVGLDWGEKKRKNTMMLYFTIYRFLLMELWTLAIECAFLFEDQVSRSGQPPNRDGQKLTTNDVKDIFQDKKEKYEDFLEVMKDFKAQRVDTDGVIERVKELFRGQRDLILGFNTFLPKGHEITLSSEDEQPQLKKKFEFYEAMS*