AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG012621

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG012621 MtrunA17_Chr3g0086961 96.364 385 12 2 1 383 1 385 0.0 745
MsaG012621 MtrunA17_Chr4g0061561 69.048 126 33 3 1 123 1 123 6.74e-50 170
MsaG012621 MtrunA17_Chr7g0219461 47.739 199 66 7 37 225 39 209 2.67e-42 151
MsaG012621 MtrunA17_Chr6g0454781 72.093 86 22 1 37 122 31 114 1.33e-35 133
MsaG012621 MtrunA17_Chr8g0376571 65.278 72 25 0 47 118 51 122 1.36e-25 107
MsaG012621 MtrunA17_Chr8g0360441 58.824 68 28 0 51 118 48 115 2.67e-20 92.0
MsaG012621 MtrunA17_Chr2g0325171 58.824 68 28 0 51 118 18 85 1.80e-19 88.6
MsaG012621 MtrunA17_Chr2g0316391 57.353 68 29 0 51 118 14 81 3.85e-19 87.0
MsaG012621 MtrunA17_Chr4g0040921 33.333 228 110 9 51 275 16 204 1.06e-17 83.2
MsaG012621 MtrunA17_Chr4g0062691 33.099 142 87 2 58 196 133 269 2.73e-14 73.6
MsaG012621 MtrunA17_Chr6g0456881 51.724 58 28 0 58 115 127 184 2.47e-12 67.8
MsaG012621 MtrunA17_Chr7g0220931 49.123 57 29 0 59 115 122 178 2.06e-11 64.7
MsaG012621 MtrunA17_Chr1g0205131 48.333 60 31 0 56 115 108 167 2.43e-11 64.7
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG012621 AT5G60970.1 40.896 335 138 15 40 355 46 339 4.73e-52 177
MsaG012621 AT5G08070.2 77.273 88 20 0 40 127 16 103 1.61e-41 146
MsaG012621 AT5G08070.1 77.273 88 20 0 40 127 16 103 1.61e-41 146
MsaG012621 AT3G02150.1 70.213 94 25 2 44 136 61 152 2.54e-39 142
MsaG012621 AT3G02150.2 64.035 114 36 3 24 136 43 152 6.69e-39 142
MsaG012621 AT1G30210.2 62.651 83 28 1 36 118 32 111 6.39e-26 107
MsaG012621 AT1G30210.1 62.651 83 28 1 36 118 32 111 6.39e-26 107
MsaG012621 AT4G18390.1 63.889 72 26 0 47 118 32 103 3.02e-25 105
MsaG012621 AT4G18390.2 63.889 72 26 0 47 118 32 103 3.02e-25 105
MsaG012621 AT1G53230.1 60.294 68 27 0 51 118 43 110 2.01e-21 95.1
MsaG012621 AT1G53230.2 60.294 68 27 0 51 118 43 110 2.01e-21 95.1
MsaG012621 AT3G15030.2 58.824 68 28 0 51 118 39 106 7.51e-21 94.0
MsaG012621 AT3G15030.4 58.824 68 28 0 51 118 39 106 7.51e-21 94.0
MsaG012621 AT3G15030.3 58.824 68 28 0 51 118 39 106 7.51e-21 94.0
MsaG012621 AT3G15030.1 58.824 68 28 0 51 118 39 106 7.51e-21 94.0
MsaG012621 AT2G31070.1 60.000 65 26 0 51 115 23 87 6.15e-19 87.8
MsaG012621 AT1G68800.1 49.254 67 34 0 49 115 104 170 3.44e-14 73.6
MsaG012621 AT1G68800.2 49.254 67 34 0 49 115 104 170 3.51e-14 73.6
MsaG012621 AT1G67260.2 44.286 70 39 0 46 115 76 145 7.78e-14 72.4
MsaG012621 AT1G67260.3 44.286 70 39 0 46 115 76 145 7.78e-14 72.4
MsaG012621 AT1G67260.1 44.286 70 39 0 46 115 76 145 8.73e-14 72.4
MsaG012621 AT3G18550.1 41.573 89 51 1 59 146 150 238 4.04e-12 67.8
MsaG012621 AT3G18550.4 41.573 89 51 1 59 146 150 238 4.04e-12 67.8
MsaG012621 AT3G18550.3 41.573 89 51 1 59 146 150 238 5.12e-12 67.4
MsaG012621 AT3G18550.2 50.877 57 28 0 59 115 150 206 1.33e-11 66.2

Find 71 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TTATGGCAAGGTCAAAATTT+TGG 0.095121 3:+28637798 MsaT012621.1:CDS
TCAACTGGATTGTTCATAAA+AGG 0.187602 3:-28638214 None:intergenic
ATTCCAACAAATGTGGAATT+AGG 0.207117 3:-28637767 None:intergenic
ACCATTTAGCTCCAAGCTTC+TGG 0.216080 3:+28638366 MsaT012621.1:CDS
CTTGATACTCTCACAATTCT+TGG 0.226103 3:-28637431 None:intergenic
TTGCACTTCCCATTTCCTTT+TGG 0.260633 3:+28638124 MsaT012621.1:CDS
CCATTTCCATTACTTTGATT+TGG 0.264187 3:-28638100 None:intergenic
AGCAAAGTTTGTACAATAAG+AGG 0.267106 3:+28637479 MsaT012621.1:CDS
TGTTGGAATTCAAAATCTTA+TGG 0.268566 3:+28637781 MsaT012621.1:CDS
AAATGGTTGAATTGTATTCT+TGG 0.276038 3:-28638244 None:intergenic
TTGAGTTTATGAACTGAAAA+TGG 0.288622 3:-28638261 None:intergenic
AGTTTGTCTTTATCTCAATT+TGG 0.291167 3:+28638037 MsaT012621.1:CDS
CTTCAAGATAAACTTGGTTT+AGG 0.292497 3:+28637557 MsaT012621.1:CDS
TGTGAATTTCCAAAAGGAAA+TGG 0.323985 3:-28638133 None:intergenic
TCCAGAAGCTTGGAGCTAAA+TGG 0.342186 3:-28638367 None:intergenic
GATCCTAATTCCACATTTGT+TGG 0.359932 3:+28637764 MsaT012621.1:CDS
GGAAATTCACAATTATTGTT+TGG 0.370099 3:+28638145 MsaT012621.1:CDS
AACCAATCAATTACTTTACT+TGG 0.384521 3:-28637584 None:intergenic
GATCTACTTGTTGATGAGAT+TGG 0.388449 3:-28638078 None:intergenic
GTGAGAGTATCAAGAACATT+TGG 0.394961 3:+28637440 MsaT012621.1:CDS
GCTTCTCATGAACTTTCTCT+TGG 0.400555 3:+28637731 MsaT012621.1:CDS
GTGAATTTCCAAAAGGAAAT+GGG 0.404629 3:-28638132 None:intergenic
AAGAGAGTACTTTAGTGAAA+AGG 0.409808 3:+28637856 MsaT012621.1:CDS
AACCAAGTAAAGTAATTGAT+TGG 0.421109 3:+28637582 MsaT012621.1:CDS
ATTGATCATGAAAAGGAAGT+AGG 0.421778 3:-28637697 None:intergenic
AGAAGGAGGTGATACTAGTA+TGG 0.422169 3:+28637337 MsaT012621.1:CDS
GTTATTAAAATCCAGAAGCT+TGG 0.425560 3:-28638377 None:intergenic
GAGCTAAATGGTACCGGAAA+AGG 0.430903 3:-28638355 None:intergenic
TAAGAGGGTTAAGAGATAGA+AGG 0.432238 3:+28637495 MsaT012621.1:CDS
TGAAATTGTGAAAAGCTTTG+AGG 0.436803 3:-28637656 None:intergenic
TCTCAATTTGGAAGTAGTAA+TGG 0.439801 3:+28638049 MsaT012621.1:CDS
GTGGAATTAGGATCATATAA+AGG 0.445075 3:-28637755 None:intergenic
CCAAATCAAAGTAATGGAAA+TGG 0.449767 3:+28638100 MsaT012621.1:CDS
GAACATTTGGAGGCAAAGAT+AGG 0.452527 3:+28637453 MsaT012621.1:CDS
GGTACCGGAAAAGGTCTAAC+CGG 0.467145 3:-28638346 None:intergenic
TCATATAATTGAATTGCTGT+TGG 0.472619 3:-28637533 None:intergenic
TTACTTGATTGATCATGAAA+AGG 0.475662 3:-28637704 None:intergenic
CAATAACAATAGTAACCAAC+CGG 0.483604 3:+28638399 MsaT012621.1:CDS
TTGATCATGAAAAGGAAGTA+GGG 0.484366 3:-28637696 None:intergenic
GGTTAAGAGATAGAAGGATA+AGG 0.491272 3:+28637501 MsaT012621.1:CDS
TCACTCATTCAATTCACCTC+CGG 0.496606 3:+28638327 MsaT012621.1:CDS
AATAATTGTGAATTTCCAAA+AGG 0.497299 3:-28638139 None:intergenic
CATTGTCTTGATGTACTTGA+AGG 0.499610 3:-28637386 None:intergenic
TTGAATGAGTGATGAAAAGA+TGG 0.505850 3:-28638316 None:intergenic
GTAGATCCAAATCAAAGTAA+TGG 0.511396 3:+28638094 MsaT012621.1:CDS
GACATAGATTCAAGGACTAA+AGG 0.516620 3:+28637821 MsaT012621.1:CDS
AAAGATGGAATGAGAGGATG+AGG 0.519478 3:-28638301 None:intergenic
TATGATCTTCAAGATAAACT+TGG 0.527365 3:+28637551 MsaT012621.1:CDS
AATGAGGAAGAAAATCAAGT+TGG 0.535305 3:+28637896 MsaT012621.1:CDS
AAATTAGAATGAGTCTCCAT+AGG 0.541479 3:-28637968 None:intergenic
AGCTTGGAGCTAAATGGTAC+CGG 0.542441 3:-28638361 None:intergenic
AATTAGAATGAGTCTCCATA+GGG 0.543229 3:-28637967 None:intergenic
CTTTGAGGAAATTGAAGTGG+AGG 0.544948 3:-28637641 None:intergenic
GCAAAGTTTGTACAATAAGA+GGG 0.549035 3:+28637480 MsaT012621.1:CDS
ACAAACTAGAAGCTTCTGAA+TGG 0.549145 3:-28638021 None:intergenic
AAGCTTTGAGGAAATTGAAG+TGG 0.558131 3:-28637644 None:intergenic
TTTGAGGAAATTGAAGTGGA+GGG 0.564714 3:-28637640 None:intergenic
ACTTTAGTGAAAAGGATAAG+TGG 0.567465 3:+28637864 MsaT012621.1:CDS
CTACTCAAATGTGATGATGA+TGG 0.574262 3:-28638187 None:intergenic
GAATTCAAAATCTTATGGCA+AGG 0.581024 3:+28637786 MsaT012621.1:CDS
CGACGAGCACTATCATCATC+CGG 0.584897 3:-28638418 None:intergenic
AATTATCAAGCTAAGCAAGA+AGG 0.586890 3:+28637320 MsaT012621.1:CDS
AGAGTATCAAGAACATTTGG+AGG 0.590062 3:+28637443 MsaT012621.1:CDS
TAAGTGGATCAAAACAAATG+AGG 0.592313 3:+28637880 MsaT012621.1:CDS
GATGGTGTAGTAGAAGAAGA+AGG 0.597975 3:-28638169 None:intergenic
TGATGAAAAGATGGAATGAG+AGG 0.628080 3:-28638307 None:intergenic
ATGATGGCAAGTTCAAGAGA+AGG 0.630706 3:+28637296 MsaT012621.1:CDS
TATCAAGCTAAGCAAGAAGG+AGG 0.646358 3:+28637323 MsaT012621.1:CDS
GAGCACTATCATCATCCGGT+TGG 0.656995 3:-28638414 None:intergenic
CTTCAAGTACATCAAGACAA+TGG 0.691220 3:+28637387 MsaT012621.1:CDS
ACCGGAAAAGGTCTAACCGG+AGG 0.695953 3:-28638343 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr3 gene 28637296 28638447 28637296 ID=MsaG012621
Chr3 mRNA 28637296 28638447 28637296 ID=MsaT012621.1;Parent=MsaG012621
Chr3 exon 28637296 28638447 28637296 ID=MsaT012621.1.exon1;Parent=MsaT012621.1
Chr3 CDS 28637296 28638447 28637296 ID=cds.MsaT012621.1;Parent=MsaT012621.1
Gene Sequence

>MsaT012621.1

ATGATGGCAAGTTCAAGAGAAGGAAATTATCAAGCTAAGCAAGAAGGAGGTGATACTAGTATGGATAATATTGAAAAAAAATTCAAGGCACCTTCAAGTACATCAAGACAATGGTCAACATCAAGTTTAAGAAATCCAAGAATTGTGAGAGTATCAAGAACATTTGGAGGCAAAGATAGGCATAGCAAAGTTTGTACAATAAGAGGGTTAAGAGATAGAAGGATAAGGCTTTCAGTTCCAACAGCAATTCAATTATATGATCTTCAAGATAAACTTGGTTTAGGACAACCAAGTAAAGTAATTGATTGGTTACTTGAAGCAACAAAATTAGACATTGATAAACTCCCTCCACTTCAATTTCCTCAAAGCTTTTCACAATTTCATACTCTTCATTCACAAACCCTACTTCCTTTTCATGATCAATCAAGTAATATTGCTTCTCATGAACTTTCTCTTGGTCCTTTATATGATCCTAATTCCACATTTGTTGGAATTCAAAATCTTATGGCAAGGTCAAAATTTTGGGACATAGATTCAAGGACTAAAGGTAAAGAAGTTGAAAGAGAGTACTTTAGTGAAAAGGATAAGTGGATCAAAACAAATGAGGAAGAAAATCAAGTTGGAGAAGCTAGTTACAACAATTTTCATCAAGTTTCAACTCAAAAGCTTTTCCCTATGGAGACTCATTCTAATTTTCTTAACAATGCTATGTCATATAACAAATACCATTCAGAAGCTTCTAGTTTGTCTTTATCTCAATTTGGAAGTAGTAATGGATTGTTCCAATCTCATCAACAAGTAGATCCAAATCAAAGTAATGGAAATGGTTTGCACTTCCCATTTCCTTTTGGAAATTCACAATTATTGTTTGGTCCTTCTTCTTCTACTACACCATCATCATCACATTTGAGTAGTAGTCCTTTTATGAACAATCCAGTTGAAAATGATCCAAGAATACAATTCAACCATTTTCAGTTCATAAACTCAAGTTCTTCACAAACTATGCCTCATCCTCTCATTCCATCTTTTCATCACTCATTCAATTCACCTCCGGTTAGACCTTTTCCGGTACCATTTAGCTCCAAGCTTCTGGATTTTAATAACAATAACAATAGTAACCAACCGGATGATGATAGTGCTCGTCGTTCTTGA
Protein sequence

>MsaT012621.1

MMASSREGNYQAKQEGGDTSMDNIEKKFKAPSSTSRQWSTSSLRNPRIVRVSRTFGGKDRHSKVCTIRGLRDRRIRLSVPTAIQLYDLQDKLGLGQPSKVIDWLLEATKLDIDKLPPLQFPQSFSQFHTLHSQTLLPFHDQSSNIASHELSLGPLYDPNSTFVGIQNLMARSKFWDIDSRTKGKEVEREYFSEKDKWIKTNEEENQVGEASYNNFHQVSTQKLFPMETHSNFLNNAMSYNKYHSEASSLSLSQFGSSNGLFQSHQQVDPNQSNGNGLHFPFPFGNSQLLFGPSSSTTPSSSHLSSSPFMNNPVENDPRIQFNHFQFINSSSSQTMPHPLIPSFHHSFNSPPVRPFPVPFSSKLLDFNNNNNSNQPDDDSARRS*