AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG010856

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG010856 MtrunA17_Chr2g0329811 95.072 345 17 0 1 345 1 345 0.0 657
MsaG010856 MtrunA17_Chr8g0343451 51.176 340 121 12 23 345 7 318 1.38e-83 256
MsaG010856 MtrunA17_Chr2g0300261 55.147 136 49 4 121 253 19 145 6.64e-40 140
MsaG010856 MtrunA17_Chr2g0292411 52.294 109 48 1 168 276 95 199 3.88e-33 122
MsaG010856 MtrunA17_Chr8g0352251 56.311 103 40 1 144 246 117 214 8.64e-31 118
MsaG010856 MtrunA17_Chr3g0103391 49.624 133 52 3 114 246 112 229 1.24e-30 118
MsaG010856 MtrunA17_Chr7g0267581 51.000 100 40 3 147 246 136 226 3.61e-24 101
MsaG010856 MtrunA17_Chr1g0177091 41.844 141 67 4 108 245 95 223 4.84e-24 100
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG010856 AT1G17590.3 38.310 355 162 13 10 345 12 328 9.66e-53 177
MsaG010856 AT1G17590.2 38.310 355 162 13 10 345 12 328 9.66e-53 177
MsaG010856 AT1G17590.4 38.310 355 162 13 10 345 12 328 9.66e-53 177
MsaG010856 AT1G17590.1 38.310 355 162 13 10 345 12 328 9.66e-53 177
MsaG010856 AT1G72830.1 36.164 365 184 14 2 345 4 340 5.58e-49 167
MsaG010856 AT1G72830.2 36.066 366 184 15 2 345 4 341 4.04e-47 163
MsaG010856 AT1G54160.1 38.281 256 107 8 22 250 11 242 1.10e-39 142
MsaG010856 AT3G14020.2 37.576 330 135 16 20 319 13 301 1.91e-39 142
MsaG010856 AT3G14020.1 37.576 330 135 16 20 319 13 301 1.91e-39 142
MsaG010856 AT1G72830.3 34.066 364 168 14 2 345 4 315 3.11e-37 136
MsaG010856 AT1G30500.2 51.938 129 58 2 130 254 40 168 1.06e-36 131
MsaG010856 AT1G30500.1 52.381 126 58 2 130 254 40 164 1.76e-36 130
MsaG010856 AT2G34720.1 51.613 124 51 3 123 246 44 158 6.61e-33 121
MsaG010856 AT2G34720.2 52.941 119 47 3 128 246 14 123 1.44e-31 117
MsaG010856 AT2G34720.3 52.941 119 47 3 128 246 14 123 1.44e-31 117
MsaG010856 AT3G20910.1 45.926 135 59 4 117 251 111 231 1.46e-29 115
MsaG010856 AT5G12840.5 47.015 134 55 4 116 248 116 234 6.73e-29 113
MsaG010856 AT5G12840.3 47.015 134 55 4 116 248 116 234 6.73e-29 113
MsaG010856 AT5G12840.1 47.015 134 55 4 116 248 116 234 6.73e-29 113
MsaG010856 AT5G12840.4 47.015 134 55 4 116 248 115 233 7.22e-29 112
MsaG010856 AT5G12840.2 47.015 134 55 4 116 248 115 233 7.22e-29 112
MsaG010856 AT5G06510.4 48.214 112 46 4 149 259 9 109 4.85e-24 97.4
MsaG010856 AT5G06510.7 48.214 112 46 4 149 259 9 109 4.85e-24 97.4
MsaG010856 AT5G06510.1 47.788 113 47 4 149 260 104 205 1.20e-23 99.0
MsaG010856 AT5G06510.5 47.788 113 47 4 149 260 104 205 1.20e-23 99.0
MsaG010856 AT5G06510.2 47.788 113 47 4 149 260 104 205 1.20e-23 99.0
MsaG010856 AT5G06510.6 47.788 113 47 4 149 260 104 205 1.20e-23 99.0
MsaG010856 AT5G06510.3 47.788 113 47 4 149 260 55 156 2.07e-23 97.1
MsaG010856 AT3G05690.1 37.500 168 86 6 85 245 44 199 6.58e-20 89.0
MsaG010856 AT3G05690.2 37.500 168 86 6 85 245 81 236 8.44e-20 89.4

Find 81 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CTGCTTTGAATTCACATATA+TGG 0.180422 2:-78569725 None:intergenic
CACTTTGAAGCTCAAACTTT+TGG 0.192638 2:-78568038 None:intergenic
TTCAACCTGATCAAGCATTT+TGG 0.248710 2:-78570080 None:intergenic
GCGAATCAAGCTTTGATTCT+TGG 0.254868 2:-78569991 None:intergenic
TTCATATGGCCAACAATATA+AGG 0.305273 2:+78569161 MsaT010856.1:CDS
TATAGCTGGTGGAAACATTT+TGG 0.306979 2:-78570024 None:intergenic
GAGAACCGAGGAGAACAATA+TGG 0.321909 2:+78568920 MsaT010856.1:CDS
AAATTCTGACCAGCTTCTTC+AGG 0.334629 2:+78569642 MsaT010856.1:CDS
CTCATCGAATCATCATCTAT+TGG 0.336945 2:+78568948 MsaT010856.1:CDS
TGCTTTGAATTCACATATAT+GGG 0.338735 2:-78569724 None:intergenic
TTCCAGCATTGTTCTTCTAC+TGG 0.343547 2:+78568885 MsaT010856.1:CDS
GGAGGATGAACGGTGAGATT+TGG 0.353502 2:-78568975 None:intergenic
AATTCCCTTGCCATCTGATA+TGG 0.360890 2:+78569693 MsaT010856.1:CDS
GCTTCTTCAGGGCCAGCTAA+TGG 0.362306 2:+78569654 MsaT010856.1:CDS
GGCCTACTTTCTGCTTCATA+TGG 0.362322 2:+78569147 MsaT010856.1:CDS
CACCGTTCATCCTCCACTAA+TGG 0.364359 2:+78568983 MsaT010856.1:CDS
TATACTTGTTTGAATTTGAA+TGG 0.374199 2:+78570043 MsaT010856.1:CDS
TATCAGATGGCAAGGGAATT+CGG 0.376992 2:-78569690 None:intergenic
TACAAATTACCTTATATTGT+TGG 0.397767 2:-78569170 None:intergenic
TCATCGAATCATCATCTATT+GGG 0.410536 2:+78568949 MsaT010856.1:CDS
CAGAAGCAGTTTCCATTAGC+TGG 0.410914 2:-78569666 None:intergenic
TGTCGGGACTCGTGAAGATA+TGG 0.413042 2:-78569908 None:intergenic
TATATCTGCTTACAAGTGAT+TGG 0.427209 2:-78569013 None:intergenic
AGCACATAACAAACTCATAA+AGG 0.430383 2:+78569792 MsaT010856.1:CDS
TTGATCAGGTTGAAAACTAC+AGG 0.452306 2:+78570089 MsaT010856.1:CDS
TGAAATGTTTCAGCAGCAAC+AGG 0.453392 2:+78570150 MsaT010856.1:CDS
ATGTCACATACGGATCTCAT+AGG 0.460134 2:+78570125 MsaT010856.1:CDS
TTCCTTCCAGTCTGAGAAGA+AGG 0.473570 2:-78570199 None:intergenic
AATTCTGACCAGCTTCTTCA+GGG 0.474643 2:+78569643 MsaT010856.1:CDS
AGCAACAGGAGTTAGAGTTC+AGG 0.485902 2:+78570164 MsaT010856.1:CDS
CAAATTCAAACAAGTATAGC+TGG 0.488784 2:-78570038 None:intergenic
GAATTTGAATGGAAATATGT+CGG 0.489962 2:+78570054 MsaT010856.1:CDS
GGAATCCAAAATGCTTGATC+AGG 0.490416 2:+78570075 MsaT010856.1:CDS
CTTTAATGCATGTACATGTC+GGG 0.500813 2:-78569924 None:intergenic
TCGACTGGCTCATCACAATC+AGG 0.502357 2:+78568139 MsaT010856.1:CDS
GAAAGTAGGCCATTGTAGCC+TGG 0.505229 2:-78569135 None:intergenic
AACCAGTAGAAGAACAATGC+TGG 0.515161 2:-78568887 None:intergenic
TATGAGGCGAAGACAGTGTC+GGG 0.515554 2:+78569759 MsaT010856.1:CDS
GCACTCCACTATGCTGATCC+AGG 0.517924 2:+78569117 MsaT010856.1:CDS
TCAGAAGATCTTCCCCATGA+TGG 0.517971 2:-78567989 None:intergenic
AGCAGTACCATGCTATTATG+AGG 0.519657 2:+78569743 MsaT010856.1:CDS
TCTTTAATGCATGTACATGT+CGG 0.521057 2:-78569925 None:intergenic
AGAACCGAGGAGAACAATAT+GGG 0.525995 2:+78568921 MsaT010856.1:CDS
AACTCAGTGCTTTACTGTTG+TGG 0.539967 2:-78568081 None:intergenic
AGCATTGAGAAAACGGCCAC+CGG 0.542799 2:-78569960 None:intergenic
ACATCCCATATTGTTCTCCT+CGG 0.546379 2:-78568925 None:intergenic
CAAAAGTTTGAGCTTCAAAG+TGG 0.551748 2:+78568039 MsaT010856.1:CDS
TTCCGCCATATCAGATGGCA+AGG 0.552797 2:-78569698 None:intergenic
TTAGCTGGCCCTGAAGAAGC+TGG 0.554264 2:-78569651 None:intergenic
GTAGAAGAACAATGCTGGAA+AGG 0.555226 2:-78568882 None:intergenic
TTAAAGAGAGCTAGAGGTGC+CGG 0.556911 2:+78569941 MsaT010856.1:CDS
TCATCTTCAACTCAATCGAC+TGG 0.564458 2:+78568124 MsaT010856.1:CDS
GATTGGCTGTGATCCATTAG+TGG 0.569834 2:-78568996 None:intergenic
ACCCTTCTTCTCAGACTGGA+AGG 0.577435 2:+78570197 MsaT010856.1:CDS
CTCACATGCGGACGGATAGT+CGG 0.579968 2:-78570267 None:intergenic
TGTAGCCTGGATCAGCATAG+TGG 0.581932 2:-78569122 None:intergenic
ATGATGGACATCCGAAAACA+TGG 0.581989 2:-78567973 None:intergenic
TATGCTGATCCAGGCTACAA+TGG 0.586886 2:+78569126 MsaT010856.1:CDS
GGTTCTTCCGCCATATCAGA+TGG 0.587888 2:-78569703 None:intergenic
GATGCTTCTGATGTCACATA+CGG 0.595588 2:+78570115 MsaT010856.1:CDS
TCCCTTGCCATCTGATATGG+CGG 0.605293 2:+78569696 MsaT010856.1:CDS
AGTTACCCTTCTTCTCAGAC+TGG 0.606122 2:+78570193 MsaT010856.1:CDS
ATTCAAACAAGTATAGCTGG+TGG 0.610080 2:-78570035 None:intergenic
GGCCATATGAAGCAGAAAGT+AGG 0.615452 2:-78569149 None:intergenic
TACAAAGCTGACAAGAATGT+TGG 0.616527 2:+78570232 MsaT010856.1:CDS
TTATGAGGCGAAGACAGTGT+CGG 0.619331 2:+78569758 MsaT010856.1:CDS
ATCCATTAGTGGAGGATGAA+CGG 0.629213 2:-78568985 None:intergenic
TTACTGTTGTGGCATCCTTG+TGG 0.631295 2:-78568070 None:intergenic
ACAAGTCTCTCACATGCGGA+CGG 0.640777 2:-78570275 None:intergenic
GTCTTCGCCTCATAATAGCA+TGG 0.641090 2:-78569750 None:intergenic
TCCTTCCAGTCTGAGAAGAA+GGG 0.646710 2:-78570198 None:intergenic
CATGCATTAAAGAGAGCTAG+AGG 0.647089 2:+78569935 MsaT010856.1:CDS
TTCTACAAGTCTCTCACATG+CGG 0.648923 2:-78570279 None:intergenic
ATGGACATCCGAAAACATGG+TGG 0.675905 2:-78567970 None:intergenic
TCCGCCATATCAGATGGCAA+GGG 0.679431 2:-78569697 None:intergenic
AAGAGAGCTAGAGGTGCCGG+TGG 0.680129 2:+78569944 MsaT010856.1:CDS
TTCAACATTTAAGAGAACCG+AGG 0.691304 2:+78568908 MsaT010856.1:CDS
TGATCAGGTTGAAAACTACA+GGG 0.694394 2:+78570090 MsaT010856.1:CDS
TGGCTGTGATCCATTAGTGG+AGG 0.701564 2:-78568993 None:intergenic
AAAGTGGAAGCTCTACCACA+AGG 0.704797 2:+78568055 MsaT010856.1:CDS
TGGACATCCGAAAACATGGT+GGG 0.707024 2:-78567969 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr2 gene 78567929 78570288 78567929 ID=MsaG010856
Chr2 mRNA 78567929 78570288 78567929 ID=MsaT010856.1;Parent=MsaG010856
Chr2 exon 78567929 78568160 78567929 ID=MsaT010856.1.exon1;Parent=MsaT010856.1
Chr2 CDS 78567929 78568160 78567929 ID=cds.MsaT010856.1;Parent=MsaT010856.1
Chr2 exon 78568874 78569022 78568874 ID=MsaT010856.1.exon2;Parent=MsaT010856.1
Chr2 CDS 78568874 78569022 78568874 ID=cds.MsaT010856.1;Parent=MsaT010856.1
Chr2 exon 78569108 78569182 78569108 ID=MsaT010856.1.exon3;Parent=MsaT010856.1
Chr2 CDS 78569108 78569182 78569108 ID=cds.MsaT010856.1;Parent=MsaT010856.1
Chr2 exon 78569622 78569822 78569622 ID=MsaT010856.1.exon4;Parent=MsaT010856.1
Chr2 CDS 78569622 78569822 78569622 ID=cds.MsaT010856.1;Parent=MsaT010856.1
Chr2 exon 78569908 78570288 78569908 ID=MsaT010856.1.exon5;Parent=MsaT010856.1
Chr2 CDS 78569908 78570288 78569908 ID=cds.MsaT010856.1;Parent=MsaT010856.1
Gene Sequence

>MsaT010856.1

ATGAAGTGCTTATGTGAGAAAGACTCTGCTCATTCAACATCCCACCATGTTTTCGGATGTCCATCATGGGGAAGATCTTCTGAATCTGAAGTCCAACAAACATCCATGTCCAAAAGTTTGAGCTTCAAAGTGGAAGCTCTACCACAAGGATGCCACAACAGTAAAGCACTGAGTTTTCAATTTCAAGAACAGGATTCATCTTCAACTCAATCGACTGGCTCATCACAATCAGGTCACATTCCTTTCCAGCATTGTTCTTCTACTGGTTCAACATTTAAGAGAACCGAGGAGAACAATATGGGATGTCTCATCGAATCATCATCTATTGGGAGTCCAAATCTCACCGTTCATCCTCCACTAATGGATCACAGCCAATCACTTGCGCATGTTGCACTCCACTATGCTGATCCAGGCTACAATGGCCTACTTTCTGCTTCATATGGCCAACAATATAAGGCTTATAGCATCATGTCATCAAATTCTGACCAGCTTCTTCAGGGCCAGCTAATGGAAACTGCTTCTGTCCGAATTCCCTTGCCATCTGATATGGCGGAAGAACCCATATATGTGAATTCAAAGCAGTACCATGCTATTATGAGGCGAAGACAGTGTCGGGCAAAACTTGAAGCACATAACAAACTCATAAAGGATCGTAAACCATATCTTCACGAGTCCCGACATGTACATGCATTAAAGAGAGCTAGAGGTGCCGGTGGCCGTTTTCTCAATGCTAAAAAGCTCCAAGAATCAAAGCTTGATTCGCCAAACCATGACCAAAATGTTTCCACCAGCTATACTTGTTTGAATTTGAATGGAAATATGTCGGAATCCAAAATGCTTGATCAGGTTGAAAACTACAGGGATGATGCTTCTGATGTCACATACGGATCTCATAGGAATGAAATGTTTCAGCAGCAACAGGAGTTAGAGTTCAGGTTATGCAGTTACCCTTCTTCTCAGACTGGAAGGAACATGCATGATTACAAAGCTGACAAGAATGTTGGTGCGAATCAACGCCGACTATCCGTCCGCATGTGA
Protein sequence

>MsaT010856.1

MKCLCEKDSAHSTSHHVFGCPSWGRSSESEVQQTSMSKSLSFKVEALPQGCHNSKALSFQFQEQDSSSTQSTGSSQSGHIPFQHCSSTGSTFKRTEENNMGCLIESSSIGSPNLTVHPPLMDHSQSLAHVALHYADPGYNGLLSASYGQQYKAYSIMSSNSDQLLQGQLMETASVRIPLPSDMAEEPIYVNSKQYHAIMRRRQCRAKLEAHNKLIKDRKPYLHESRHVHALKRARGAGGRFLNAKKLQESKLDSPNHDQNVSTSYTCLNLNGNMSESKMLDQVENYRDDASDVTYGSHRNEMFQQQQELEFRLCSYPSSQTGRNMHDYKADKNVGANQRRLSVRM*