AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG040658

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG040658 MtrunA17_Chr7g0273081 87.692 325 11 4 1 318 14 316 0.0 567
MsaG040658 MtrunA17_Chr1g0191571 57.647 340 103 13 1 315 14 337 3.68e-109 321
MsaG040658 MtrunA17_Chr3g0132471 50.613 326 135 6 1 311 1 315 2.80e-101 300
MsaG040658 MtrunA17_Chr5g0426851 46.037 328 131 13 1 313 1 297 3.01e-82 251
MsaG040658 MtrunA17_Chr8g0366551 56.338 213 74 4 114 314 114 319 1.10e-72 227
MsaG040658 MtrunA17_Chr8g0345871 53.846 195 86 2 114 308 171 361 5.26e-57 188
MsaG040658 MtrunA17_Chr0c01g0489461 44.298 228 102 7 106 314 177 398 1.33e-49 169
MsaG040658 MtrunA17_Chr2g0287761 40.761 184 104 3 124 303 1 183 8.21e-35 125
MsaG040658 MtrunA17_Chr1g0158941 35.088 228 120 5 101 303 66 290 1.10e-31 120
MsaG040658 MtrunA17_Chr5g0400661 25.225 222 142 7 98 305 122 333 1.29e-13 70.5
MsaG040658 MtrunA17_Chr3g0126361 48.438 64 29 1 96 155 69 132 2.25e-11 61.2
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG040658 AT1G72210.1 48.204 334 140 7 1 315 1 320 5.37e-83 254
MsaG040658 AT1G22490.1 44.615 325 146 8 1 312 1 304 4.80e-74 230
MsaG040658 AT1G72210.2 48.013 302 128 6 1 285 1 290 9.73e-72 224
MsaG040658 AT1G22490.2 45.000 300 127 8 1 285 1 277 3.25e-63 203
MsaG040658 AT4G01460.1 48.309 207 93 3 114 311 105 306 4.90e-56 184
MsaG040658 AT4G01460.2 48.309 207 93 3 114 311 105 306 4.90e-56 184
MsaG040658 AT5G65320.1 47.980 198 97 3 120 311 98 295 1.33e-52 175
MsaG040658 AT2G46810.2 47.150 193 95 3 115 306 112 298 1.71e-51 172
MsaG040658 AT2G46810.3 47.150 193 95 3 115 306 172 358 9.06e-51 172
MsaG040658 AT2G46810.1 47.150 193 95 3 115 306 184 370 1.56e-50 172
MsaG040658 AT5G46690.1 44.828 232 87 5 114 311 78 302 8.76e-50 169
MsaG040658 AT3G24140.1 41.850 227 115 3 104 314 177 402 8.30e-49 168
MsaG040658 AT3G24140.2 41.410 227 116 3 104 314 177 402 2.25e-48 167
MsaG040658 AT3G61950.2 46.154 195 97 2 113 306 116 303 1.15e-47 162
MsaG040658 AT3G61950.1 46.154 195 97 2 113 306 167 354 7.61e-47 162
MsaG040658 AT2G46810.4 41.629 221 94 4 115 306 112 326 8.11e-46 158
MsaG040658 AT5G65320.2 49.708 171 81 2 120 285 98 268 1.06e-45 156
MsaG040658 AT3G61950.6 46.875 160 78 1 113 272 116 268 4.51e-40 142
MsaG040658 AT3G61950.3 46.875 160 78 1 113 272 167 319 2.66e-39 142
MsaG040658 AT5G46690.2 43.689 206 75 5 114 285 78 276 1.35e-38 138
MsaG040658 AT3G06120.1 38.095 189 105 3 124 301 1 188 3.79e-32 119
MsaG040658 AT5G53210.2 61.538 65 25 0 122 186 100 164 2.84e-20 90.5
MsaG040658 AT5G53210.1 61.538 65 25 0 122 186 100 164 3.54e-20 90.1
MsaG040658 AT3G61950.4 72.093 43 12 0 113 155 167 209 4.27e-14 70.9
MsaG040658 AT3G61950.5 72.093 43 12 0 113 155 167 209 4.27e-14 70.9

Find 43 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AGAATTATGCTTATGGAAAT+TGG 0.223168 7:+102499703 MsaT040658.1:CDS
ACCATCTTCAAGAGCTGTTT+TGG 0.261447 7:-102500430 None:intergenic
GGTGATCAAGCATCAATTAT+TGG 0.265730 7:+102500154 MsaT040658.1:CDS
GTTGAATTCTTTCCAACATT+TGG 0.301786 7:-102500756 None:intergenic
GAGCAGAAGCTACAATTTCT+TGG 0.311027 7:+102500205 MsaT040658.1:CDS
GTGATCAAGCATCAATTATT+GGG 0.314095 7:+102500155 MsaT040658.1:CDS
CATCAGCTGTAGTGACATTA+AGG 0.320979 7:-102500489 None:intergenic
ACCCTTTGGACGTAAGATTC+AGG 0.337296 7:-102499966 None:intergenic
TTGCTTCAGAATCTGTTAAC+AGG 0.346873 7:-102499599 None:intergenic
CAAACAGAGAATTATGCTTA+TGG 0.362320 7:+102499696 MsaT040658.1:CDS
CTTCTATTCTATCAGCGTTA+AGG 0.373348 7:+102500519 MsaT040658.1:CDS
AAGCATAATTCTCTGTTTGT+TGG 0.375728 7:-102499692 None:intergenic
GTTGAAGATGATTGCAAGCT+TGG 0.385709 7:+102500703 MsaT040658.1:CDS
ACAATCATTGTTGCCACAAA+TGG 0.405629 7:+102499761 MsaT040658.1:CDS
CCACAAGACCCTTTCACCTA+TGG 0.431613 7:+102499549 MsaT040658.1:CDS
TTAACAGGTTGTAATTGTAA+TGG 0.451750 7:-102499584 None:intergenic
ACCAAAACAGCTCTTGAAGA+TGG 0.460812 7:+102500429 MsaT040658.1:CDS
ACATTGCTGTAGAACGCAAC+AGG 0.469202 7:+102499898 MsaT040658.1:CDS
TTCTTACTTTGAGATTTGCA+TGG 0.473698 7:-102500396 None:intergenic
GAAATTGAACTATCTAAAGA+TGG 0.481389 7:-102499798 None:intergenic
TGTTGAATCCATAGGTGAAA+GGG 0.493303 7:-102499557 None:intergenic
AAGATGGTTTCTAGTTTGCA+TGG 0.504712 7:+102500445 MsaT040658.1:CDS
GGCAACAATGATTGTGGTGG+TGG 0.505665 7:-102499753 None:intergenic
TTTGACACTTCATCCATTTG+TGG 0.511454 7:-102499774 None:intergenic
TGCCTGAATCTTACGTCCAA+AGG 0.512531 7:+102499964 MsaT040658.1:CDS
GCCTGAATCTTACGTCCAAA+GGG 0.523230 7:+102499965 MsaT040658.1:CDS
TCTTGTGGATATAGTAGAGT+TGG 0.525531 7:-102499534 None:intergenic
AACAATGATTGTGGTGGTGG+TGG 0.531255 7:-102499750 None:intergenic
CTGTCACTTGTTGAGTATTG+TGG 0.536473 7:-102500289 None:intergenic
TTGTTGAATCCATAGGTGAA+AGG 0.539793 7:-102499558 None:intergenic
TAGAGTTGGTTCTAGTGCCA+TGG 0.564316 7:-102499520 None:intergenic
CCATAGGTGAAAGGGTCTTG+TGG 0.567251 7:-102499549 None:intergenic
ATGGTCTTTGTTGAATCCAT+AGG 0.572517 7:-102499565 None:intergenic
TGCAGCTGTATACCAAATGT+TGG 0.583918 7:+102500744 MsaT040658.1:CDS
TGATTGCAAGCTTGGATCAG+TGG 0.587540 7:+102500711 MsaT040658.1:CDS
CAGAAGCTACAATTTCTTGG+TGG 0.593039 7:+102500208 MsaT040658.1:CDS
TGATCAAGCATCAATTATTG+GGG 0.599410 7:+102500156 MsaT040658.1:CDS
AACCTTCAAAATCAAGAACA+AGG 0.614022 7:+102499642 MsaT040658.1:CDS
TGCTGATATTGAAGTGACAA+TGG 0.646131 7:+102500366 MsaT040658.1:CDS
ATTTGTGGCAACAATGATTG+TGG 0.649128 7:-102499759 None:intergenic
ACTTGTTGAGTATTGTGGAA+AGG 0.653314 7:-102500284 None:intergenic
TGTGGCAACAATGATTGTGG+TGG 0.680500 7:-102499756 None:intergenic
GATCAAGCATCAATTATTGG+GGG 0.757063 7:+102500157 MsaT040658.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr7 gene 102499522 102500807 102499522 ID=MsaG040658
Chr7 mRNA 102499522 102500807 102499522 ID=MsaT040658.1;Parent=MsaG040658
Chr7 exon 102499522 102499986 102499522 ID=MsaT040658.1.exon1;Parent=MsaT040658.1
Chr7 CDS 102499522 102499986 102499522 ID=cds.MsaT040658.1;Parent=MsaT040658.1
Chr7 exon 102500154 102500540 102500154 ID=MsaT040658.1.exon2;Parent=MsaT040658.1
Chr7 CDS 102500154 102500540 102500154 ID=cds.MsaT040658.1;Parent=MsaT040658.1
Chr7 exon 102500703 102500807 102500703 ID=MsaT040658.1.exon3;Parent=MsaT040658.1
Chr7 CDS 102500703 102500807 102500703 ID=cds.MsaT040658.1;Parent=MsaT040658.1
Gene Sequence

>MsaT040658.1

ATGGCACTAGAACCAACTCTACTATATCCACAAGACCCTTTCACCTATGGATTCAACAAAGACCATTACAATTACAACCTGTTAACAGATTCTGAAGCAAACTTTGACTACACCAACTTCAACCTTCAAAATCAAGAACAAGGTTCTATTTCTACTTTTCTCATCAAGAACCAACAAACAGAGAATTATGCTTATGGAAATTGGAGTAACAATTGTTCATCTTCTTCACCACCACCACCACAATCATTGTTGCCACAAATGGATGAAGTGTCAAATCCATCTTTAGATAGTTCAATTTCAACTCGTTCTCGTTCCAAGAAACGCAGAGTCAAAACAAGTAAGAATAAAGAAGAAATTGAGAATCAGAGAATGACTCACATTGCTGTAGAACGCAACAGGAGAAAACAAATGAATGAGTATCTCTCTGTTCTTAGATCTCTCATGCCTGAATCTTACGTCCAAAGGGGTGATCAAGCATCAATTATTGGGGGTGCTATTAACTTTGTTAAGAAGCTTGAGCAGAAGCTACAATTTCTTGGTGGTGTTCAGAAACAAAAAGAGGAAAATAAAAACAAGCCCTTTTCTGAATTTTTCACCTTTCCACAATACTCAACAAGTGACAGTGTGTGTGAGAGTTCTGAGACAAAAATGGGTGGTGAGGTTCAATCTCGCAATATTGCTGATATTGAAGTGACAATGGTTGAAAGCCATGCAAATCTCAAAGTAAGAACAAAGAAAAGACCAAAACAGCTCTTGAAGATGGTTTCTAGTTTGCATGGATTGTGTCTCACAATCTTGCACCTTAATGTCACTACAGCTGATGAATTTGTCTTCTATTCTATCAGCGTTAAGGTTGAAGATGATTGCAAGCTTGGATCAGTGGATGAGATAGCTGCAGCTGTATACCAAATGTTGGAAAGAATTCAACAAGAGTCATCAATCAATATATTGAATTAA
Protein sequence

>MsaT040658.1

MALEPTLLYPQDPFTYGFNKDHYNYNLLTDSEANFDYTNFNLQNQEQGSISTFLIKNQQTENYAYGNWSNNCSSSSPPPPQSLLPQMDEVSNPSLDSSISTRSRSKKRRVKTSKNKEEIENQRMTHIAVERNRRKQMNEYLSVLRSLMPESYVQRGDQASIIGGAINFVKKLEQKLQFLGGVQKQKEENKNKPFSEFFTFPQYSTSDSVCESSETKMGGEVQSRNIADIEVTMVESHANLKVRTKKRPKQLLKMVSSLHGLCLTILHLNVTTADEFVFYSISVKVEDDCKLGSVDEIAAAVYQMLERIQQESSINILN*