AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG010811

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG010811 MtrunA17_Chr2g0329361 94.048 252 14 1 46 296 1 252 1.43e-175 484
MsaG010811 MtrunA17_Chr7g0233911 36.098 205 112 5 90 289 15 205 3.67e-40 139
MsaG010811 MtrunA17_Chr3g0078041 35.938 192 104 5 100 287 44 220 4.03e-33 121
MsaG010811 MtrunA17_Chr2g0329421 34.921 189 111 4 105 292 26 203 2.93e-32 118
MsaG010811 MtrunA17_Chr4g0033611 36.313 179 105 4 105 283 75 244 1.10e-29 113
MsaG010811 MtrunA17_Chr1g0202341 44.037 109 60 1 104 212 49 156 5.95e-24 101
MsaG010811 MtrunA17_Chr5g0448761 44.737 114 61 2 104 215 58 171 1.61e-20 91.7
MsaG010811 MtrunA17_Chr2g0287061 40.179 112 52 1 103 214 26 122 9.62e-19 86.7
MsaG010811 MtrunA17_Chr2g0287061 33.019 106 56 1 104 209 181 271 1.44e-14 73.9
MsaG010811 MtrunA17_Chr6g0458391 35.115 131 83 1 106 236 225 353 6.53e-18 84.0
MsaG010811 MtrunA17_Chr6g0458391 31.343 134 82 3 85 212 65 194 1.05e-12 68.6
MsaG010811 MtrunA17_Chr5g0440451 36.036 111 56 1 105 215 42 137 2.40e-17 82.4
MsaG010811 MtrunA17_Chr3g0080351 32.520 123 72 1 104 215 74 196 9.67e-16 77.4
MsaG010811 MtrunA17_Chr2g0329031 33.663 101 62 1 110 210 18 113 3.67e-13 69.7
MsaG010811 MtrunA17_Chr1g0203721 37.143 105 64 1 108 212 65 167 5.55e-13 69.3
MsaG010811 MtrunA17_Chr3g0082121 37.273 110 64 3 106 213 43 149 9.08e-13 68.6
MsaG010811 MtrunA17_Chr2g0291591 30.303 132 85 2 78 209 37 161 1.45e-12 67.8
MsaG010811 MtrunA17_Chr1g0203051 28.877 187 118 6 33 210 3 183 1.62e-11 64.7
MsaG010811 MtrunA17_Chr2g0291581 32.075 106 62 2 106 209 71 168 2.09e-11 64.3
MsaG010811 MtrunA17_Chr2g0294841 33.813 139 83 5 101 232 40 176 2.69e-11 64.3
MsaG010811 MtrunA17_Chr1g0171741 34.951 103 64 3 110 211 137 237 5.89e-11 61.6
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG010811 AT2G43280.1 42.268 194 91 6 99 287 15 192 1.02e-38 135
MsaG010811 AT3G07500.1 38.503 187 109 3 101 287 28 208 8.85e-37 130
MsaG010811 AT2G43280.2 43.605 172 76 6 121 287 2 157 2.15e-34 123
MsaG010811 AT3G59470.3 34.842 221 126 7 76 288 32 242 1.46e-33 123
MsaG010811 AT3G59470.1 34.842 221 126 7 76 288 32 242 1.46e-33 123
MsaG010811 AT3G59470.2 34.389 221 127 6 76 288 44 254 2.01e-33 123
MsaG010811 AT4G12850.1 34.973 183 104 4 105 287 10 177 6.82e-32 117
MsaG010811 AT4G38180.1 38.251 183 103 3 42 215 2 183 3.03e-25 105
MsaG010811 AT4G12850.2 39.048 105 59 1 105 209 10 109 5.38e-22 89.7
MsaG010811 AT4G12850.4 39.048 105 59 1 105 209 10 109 9.39e-22 89.4
MsaG010811 AT5G18960.2 41.071 112 51 1 104 215 41 137 6.96e-21 93.2
MsaG010811 AT5G18960.2 33.884 121 64 2 89 209 195 299 4.56e-15 75.9
MsaG010811 AT5G18960.1 41.071 112 51 1 104 215 41 137 6.96e-21 93.2
MsaG010811 AT5G18960.1 33.884 121 64 2 89 209 195 299 4.56e-15 75.9
MsaG010811 AT3G06250.2 41.509 106 47 1 104 209 26 116 5.84e-20 90.5
MsaG010811 AT3G06250.2 36.066 122 59 2 88 209 176 278 1.98e-16 80.1
MsaG010811 AT3G06250.1 41.509 106 47 1 104 209 26 116 5.84e-20 90.5
MsaG010811 AT3G06250.1 36.066 122 59 2 88 209 176 278 1.98e-16 80.1
MsaG010811 AT3G06250.3 41.509 106 47 1 104 209 26 116 5.84e-20 90.5
MsaG010811 AT3G06250.3 36.066 122 59 2 88 209 176 278 1.98e-16 80.1
MsaG010811 AT2G27110.2 37.008 127 62 3 86 211 28 137 1.10e-14 74.7
MsaG010811 AT2G27110.1 37.008 127 62 3 86 211 28 137 1.10e-14 74.7
MsaG010811 AT3G22170.2 31.707 123 73 1 104 215 68 190 1.17e-14 74.7
MsaG010811 AT3G22170.1 31.707 123 73 1 104 215 68 190 1.17e-14 74.7
MsaG010811 AT2G32250.5 34.653 101 61 1 109 209 41 136 1.55e-13 71.2
MsaG010811 AT2G32250.6 34.653 101 61 1 109 209 41 136 1.74e-13 71.2
MsaG010811 AT2G32250.1 34.653 101 61 1 109 209 41 136 1.74e-13 71.2
MsaG010811 AT2G32250.3 34.653 101 61 1 109 209 41 136 1.74e-13 71.2
MsaG010811 AT2G32250.2 34.653 101 61 1 109 209 41 136 1.76e-13 71.2
MsaG010811 AT2G32250.4 34.653 101 61 1 109 209 41 136 1.76e-13 71.2
MsaG010811 AT4G19990.3 31.405 121 72 1 102 211 17 137 6.17e-13 69.3
MsaG010811 AT4G19990.4 31.405 121 72 1 102 211 17 137 6.17e-13 69.3
MsaG010811 AT4G19990.7 31.405 121 72 1 102 211 31 151 6.21e-13 69.3
MsaG010811 AT4G19990.5 31.405 121 72 1 102 211 17 137 6.95e-13 69.3
MsaG010811 AT4G19990.6 31.405 121 72 1 102 211 17 137 7.84e-13 69.3
MsaG010811 AT4G19990.2 31.405 121 72 1 102 211 17 137 7.84e-13 69.3
MsaG010811 AT2G32250.8 34.000 100 61 1 110 209 1 95 1.28e-12 68.6
MsaG010811 AT2G32250.7 34.000 100 61 1 110 209 1 95 1.33e-12 68.6
MsaG010811 AT1G76320.3 30.159 126 82 2 110 235 1 120 2.37e-12 67.8
MsaG010811 AT1G76320.2 30.159 126 82 2 110 235 1 120 2.58e-12 67.8
MsaG010811 AT1G76320.1 30.159 126 82 2 110 235 1 120 2.66e-12 67.4
MsaG010811 AT1G76320.4 30.159 126 82 2 110 235 1 120 2.66e-12 67.4
MsaG010811 AT4G15090.1 31.776 107 71 1 104 210 49 153 4.75e-12 67.0
MsaG010811 AT4G15090.5 31.776 107 71 1 104 210 49 153 4.75e-12 67.0
MsaG010811 AT4G15090.3 31.776 107 71 1 104 210 49 153 4.75e-12 67.0
MsaG010811 AT4G15090.2 31.776 107 71 1 104 210 49 153 4.75e-12 67.0
MsaG010811 AT4G15090.4 31.776 107 71 1 104 210 49 153 4.75e-12 67.0
MsaG010811 AT1G80010.1 33.654 104 63 1 106 209 95 192 5.82e-12 66.6
MsaG010811 AT1G52520.1 32.692 104 64 1 106 209 85 182 1.50e-11 65.5

Find 73 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CATGATAAGGTTGGCTTTAC+GGG 0.249268 2:+78124912 MsaT010811.1:CDS
TGTATGTTCCTTCACAAATT+TGG 0.258446 2:-78124956 None:intergenic
CCATGATAAGGTTGGCTTTA+CGG 0.274945 2:+78124911 MsaT010811.1:CDS
TCTCGGGTGGCTGGTGGAGG+AGG 0.303392 2:-78124877 None:intergenic
CCTCAATCTCTCTGATATTT+CGG 0.319830 2:-78125973 None:intergenic
CTATTCGCTTTGCTTAAATC+TGG 0.323238 2:+78122661 MsaT010811.1:CDS
AAATACAATTCTGAACGATT+TGG 0.340360 2:+78125907 MsaT010811.1:CDS
TTACTCGCGAACGGCGGTTA+TGG 0.347299 2:-78124768 None:intergenic
CGAGTAAATAACAAGCTAAT+TGG 0.351629 2:+78124784 MsaT010811.1:CDS
TCATGGCTTGACAACCTTCT+CGG 0.378795 2:-78124894 None:intergenic
CCTTCTCGGGTGGCTGGTGG+AGG 0.389419 2:-78124880 None:intergenic
GACCGTTTGTGCAACTGAAT+GGG 0.392348 2:-78122436 None:intergenic
GAAGTTCCATGGCGAGGATC+CGG 0.395395 2:+78125000 MsaT010811.1:CDS
CTCACTAACCAAGTGCTTCC+CGG 0.404686 2:-78125019 None:intergenic
CATGGCTTGACAACCTTCTC+GGG 0.412731 2:-78124893 None:intergenic
TGACAACCTTCTCGGGTGGC+TGG 0.424878 2:-78124886 None:intergenic
TCCTCGCCATGGAACTTCAC+TGG 0.443266 2:-78124995 None:intergenic
AGGATGATGGATCACCAATC+TGG 0.443741 2:+78124493 MsaT010811.1:intron
GACACATTAGAACCATTCAT+AGG 0.454194 2:+78124664 MsaT010811.1:CDS
TGTCACAGGACGAGAAAGAT+AGG 0.454669 2:+78125807 MsaT010811.1:intron
AATCAAATCCCTGGCCAGAT+TGG 0.455766 2:-78124507 None:intergenic
CGAACAACCTGTAGCAGATT+CGG 0.459103 2:+78124642 MsaT010811.1:CDS
CCGAAATATCAGAGAGATTG+AGG 0.462386 2:+78125973 MsaT010811.1:CDS
CTCGGGTGGCTGGTGGAGGA+GGG 0.466145 2:-78124876 None:intergenic
AAATGGTTTACCTATTATCC+AGG 0.470951 2:-78122709 None:intergenic
GTGAAAGGCAAAAGTACAAA+AGG 0.485847 2:+78125858 MsaT010811.1:CDS
GATGGATCACCAATCTGGCC+AGG 0.492007 2:+78124498 MsaT010811.1:CDS
CAACCTTCTCGGGTGGCTGG+TGG 0.497367 2:-78124883 None:intergenic
AGGTTGGCTTTACGGGATGA+AGG 0.498475 2:+78124919 MsaT010811.1:CDS
TATTATCCAGGTTGAAAACT+AGG 0.501348 2:-78122697 None:intergenic
TGACCGTTTGTGCAACTGAA+TGG 0.502026 2:-78122437 None:intergenic
AAGTTCCATGGCGAGGATCC+GGG 0.502060 2:+78125001 MsaT010811.1:CDS
AAGGTTGTCAAGCCATGATA+AGG 0.504631 2:+78124899 MsaT010811.1:CDS
CTTTACGGGATGAAGGGAAG+TGG 0.510166 2:+78124926 MsaT010811.1:CDS
ACCGTTTGTGCAACTGAATG+GGG 0.512657 2:-78122435 None:intergenic
CCTCGCCATGGAACTTCACT+GGG 0.518653 2:-78124994 None:intergenic
AATGTGTCCGAATCTGCTAC+AGG 0.521451 2:-78124649 None:intergenic
AACAATTTAGAATTATGTAC+AGG 0.522470 2:+78124601 MsaT010811.1:CDS
AAGATGAAGTGTAGAAGCTC+CGG 0.523959 2:-78122460 None:intergenic
CCGTAAAGCCAACCTTATCA+TGG 0.524530 2:-78124911 None:intergenic
CTTCTGCTATAATAGGATGA+TGG 0.528986 2:+78124480 MsaT010811.1:intron
AATGGCCATGGTAGGAGGAT+AGG 0.534923 2:+78124727 MsaT010811.1:CDS
GCGAGGATCCGGGAAGCACT+TGG 0.541373 2:+78125011 MsaT010811.1:CDS
CCTCCACCAGCCACCCGAGA+AGG 0.543028 2:+78124880 MsaT010811.1:CDS
TGCTTCCCGGATCCTCGCCA+TGG 0.557183 2:-78125006 None:intergenic
TCAGTTGCACAAACGGTCAC+CGG 0.558306 2:+78122441 MsaT010811.1:CDS
TTTACGGGATGAAGGGAAGT+GGG 0.561477 2:+78124927 MsaT010811.1:CDS
GGCCAGGGATTTGATTCAGA+TGG 0.568231 2:+78124514 MsaT010811.1:CDS
GGTTGGCTTTACGGGATGAA+GGG 0.571058 2:+78124920 MsaT010811.1:CDS
TAGGCATGCAGTTCAACTCA+AGG 0.572467 2:+78124683 MsaT010811.1:CDS
TCTACAATGGCCATGGTAGG+AGG 0.572483 2:+78124722 MsaT010811.1:CDS
TACCATCTGAATCAAATCCC+TGG 0.581654 2:-78124516 None:intergenic
GCTTGTTATTTACTCGCGAA+CGG 0.583871 2:-78124777 None:intergenic
GGAGGATAGGATTTACAGTA+CGG 0.583900 2:+78124740 MsaT010811.1:CDS
TATCGCCGAGTTGCTGTGAA+AGG 0.583926 2:+78125843 MsaT010811.1:CDS
AGCAACTCGGCGATAGCTCA+CGG 0.584556 2:-78125835 None:intergenic
AGAGAATTCTACAATGGCCA+TGG 0.595180 2:+78124715 MsaT010811.1:CDS
TTGTCAAGCCATGATAAGGT+TGG 0.599156 2:+78124903 MsaT010811.1:CDS
CCCAGTGAAGTTCCATGGCG+AGG 0.602502 2:+78124994 MsaT010811.1:CDS
TAAATCCTATCCTCCTACCA+TGG 0.603101 2:-78124732 None:intergenic
TTGAACTGCATGCCTATGAA+TGG 0.604946 2:-78124676 None:intergenic
TGAGTCCCAGTGAAGTTCCA+TGG 0.607822 2:+78124989 MsaT010811.1:CDS
ATGGATCACCAATCTGGCCA+GGG 0.613451 2:+78124499 MsaT010811.1:CDS
AATTCTACAATGGCCATGGT+AGG 0.613869 2:+78124719 MsaT010811.1:CDS
CCGTTTGTGCAACTGAATGG+GGG 0.615514 2:-78122434 None:intergenic
GGCTTGACAACCTTCTCGGG+TGG 0.617601 2:-78124890 None:intergenic
CGTTTGTGCAACTGAATGGG+GGG 0.620782 2:-78122433 None:intergenic
GGTTGTCACCAAATTTGTGA+AGG 0.624088 2:+78124948 MsaT010811.1:CDS
CGGGAAGCACTTGGTTAGTG+AGG 0.627824 2:+78125020 MsaT010811.1:CDS
AGGCATGCAGTTCAACTCAA+GGG 0.634792 2:+78124684 MsaT010811.1:CDS
TGTTATTTACTCGCGAACGG+CGG 0.635708 2:-78124774 None:intergenic
GAAGCAAGAGAATTCTACAA+TGG 0.657489 2:+78124709 MsaT010811.1:CDS
CATGCAGTTCAACTCAAGGG+AGG 0.700261 2:+78124687 MsaT010811.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr2 gene 78122352 78126024 78122352 ID=MsaG010811
Chr2 mRNA 78122352 78126024 78122352 ID=MsaT010811.1;Parent=MsaG010811
Chr2 exon 78122352 78122354 78122352 ID=MsaT010811.1.exon1;Parent=MsaT010811.1
Chr2 CDS 78122352 78122354 78122352 ID=cds.MsaT010811.1;Parent=MsaT010811.1
Chr2 exon 78122424 78122488 78122424 ID=MsaT010811.1.exon2;Parent=MsaT010811.1
Chr2 CDS 78122424 78122488 78122424 ID=cds.MsaT010811.1;Parent=MsaT010811.1
Chr2 exon 78122655 78122720 78122655 ID=MsaT010811.1.exon3;Parent=MsaT010811.1
Chr2 CDS 78122655 78122720 78122655 ID=cds.MsaT010811.1;Parent=MsaT010811.1
Chr2 exon 78124495 78125041 78124495 ID=MsaT010811.1.exon4;Parent=MsaT010811.1
Chr2 CDS 78124495 78125041 78124495 ID=cds.MsaT010811.1;Parent=MsaT010811.1
Chr2 exon 78125815 78126024 78125815 ID=MsaT010811.1.exon5;Parent=MsaT010811.1
Chr2 CDS 78125815 78126024 78125815 ID=cds.MsaT010811.1;Parent=MsaT010811.1
Gene Sequence

>MsaT010811.1

ATGCAGCTAAAACCCCCCATTCAGTTGCACAAACGGTCACCGGAGCTTCTACACTTCATCTTATTCGTGTTCTTCTATTCGCTTTGCTTAAATCTGGTTGATAATCTTCTCCTAGTTTTCAACCTGGATAATAGGATGATGGATCACCAATCTGGCCAGGGATTTGATTCAGATGGTAGTGACTTTGATGTGTTAGCAGAAATCAGTGAGAAACATGAGAAAGTAGAAGATGAGTTTACAAACAATTTAGAATTATGTACAGGCGAAGATGAAAAGTTTGTCGAACAACCTGTAGCAGATTCGGACACATTAGAACCATTCATAGGCATGCAGTTCAACTCAAGGGAGGAAGCAAGAGAATTCTACAATGGCCATGGTAGGAGGATAGGATTTACAGTACGGATACACCATAACCGCCGTTCGCGAGTAAATAACAAGCTAATTGGTCAAGATTTTGTTTGCTCAAAAGAAGGTTTTCGTGCAAAAAAGTATGTGCACAGAAAAGATAGAGTGCTCCCTCCTCCACCAGCCACCCGAGAAGGTTGTCAAGCCATGATAAGGTTGGCTTTACGGGATGAAGGGAAGTGGGTTGTCACCAAATTTGTGAAGGAACATACACATAAACTGATGAGTCCCAGTGAAGTTCCATGGCGAGGATCCGGGAAGCACTTGGTTAGTGAGGACGAGAAAGATAGGAGAATCCGTGAGCTATCGCCGAGTTGCTGTGAAAGGCAAAAGTACAAAAGGCGTTGTGCAGCATATGAAGAACAGTTAAATACAATTCTGAACGATTTGGAAAAGCACACAGAACATATCTCTAAAAAAGTTGCTGATGTAGTCCGAAATATCAGAGAGATTGAGGAAGAAAAATCAGATTTAGATGGCAGGTAA
Protein sequence

>MsaT010811.1

MQLKPPIQLHKRSPELLHFILFVFFYSLCLNLVDNLLLVFNLDNRMMDHQSGQGFDSDGSDFDVLAEISEKHEKVEDEFTNNLELCTGEDEKFVEQPVADSDTLEPFIGMQFNSREEAREFYNGHGRRIGFTVRIHHNRRSRVNNKLIGQDFVCSKEGFRAKKYVHRKDRVLPPPPATREGCQAMIRLALRDEGKWVVTKFVKEHTHKLMSPSEVPWRGSGKHLVSEDEKDRRIRELSPSCCERQKYKRRCAAYEEQLNTILNDLEKHTEHISKKVADVVRNIREIEEEKSDLDGR*