AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG003938


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG003938 MtrunA17_Chr1g0191571 92.962 341 14 5 1 335 1 337 0.0 608
MsaG003938 MtrunA17_Chr7g0273081 56.609 348 103 10 1 335 1 313 5.20e-124 358
MsaG003938 MtrunA17_Chr3g0132471 50.303 330 137 7 14 331 1 315 1.71e-100 299
MsaG003938 MtrunA17_Chr5g0426851 43.344 323 152 7 14 332 1 296 2.32e-80 246
MsaG003938 MtrunA17_Chr8g0366551 53.738 214 86 2 126 334 114 319 9.81e-75 233
MsaG003938 MtrunA17_Chr0c01g0489461 48.198 222 98 5 118 328 177 392 1.17e-58 194
MsaG003938 MtrunA17_Chr8g0345871 51.232 203 87 2 126 328 171 361 8.13e-58 191
MsaG003938 MtrunA17_Chr1g0158941 33.564 289 145 8 54 323 30 290 7.74e-37 134
MsaG003938 MtrunA17_Chr2g0287761 40.426 188 107 2 136 323 1 183 5.54e-35 126
MsaG003938 MtrunA17_Chr3g0126381 27.273 198 104 4 165 323 1 197 2.09e-15 73.9
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG003938 AT1G72210.1 46.221 344 133 9 14 332 1 317 4.76e-82 252
MsaG003938 AT1G22490.1 44.118 340 131 11 14 331 1 303 5.34e-79 244
MsaG003938 AT1G72210.2 46.688 317 117 10 14 305 1 290 1.57e-72 227
MsaG003938 AT1G22490.2 43.631 314 118 11 14 305 1 277 1.29e-67 215
MsaG003938 AT3G24140.2 43.498 223 117 2 115 329 176 397 1.30e-54 184
MsaG003938 AT3G24140.1 43.498 223 117 2 115 329 176 397 1.42e-54 184
MsaG003938 AT4G01460.1 43.750 208 113 3 126 333 105 308 5.20e-53 177
MsaG003938 AT4G01460.2 43.750 208 113 3 126 333 105 308 5.20e-53 177
MsaG003938 AT5G46690.1 45.064 233 93 4 126 331 78 302 1.61e-51 174
MsaG003938 AT5G65320.1 45.024 211 108 4 124 331 90 295 3.83e-50 169
MsaG003938 AT2G46810.2 46.535 202 91 5 127 326 112 298 1.22e-48 165
MsaG003938 AT2G46810.3 46.535 202 91 5 127 326 172 358 3.62e-48 166
MsaG003938 AT2G46810.1 46.535 202 91 5 127 326 184 370 4.64e-48 166
MsaG003938 AT3G61950.2 45.000 200 94 3 126 324 117 301 3.18e-47 162
MsaG003938 AT3G61950.1 44.554 202 96 3 126 326 168 354 7.82e-47 162
MsaG003938 AT5G65320.2 46.196 184 92 3 124 305 90 268 3.70e-43 150
MsaG003938 AT2G46810.4 41.304 230 90 6 127 326 112 326 5.17e-43 151
MsaG003938 AT3G61950.6 46.108 167 75 2 126 292 117 268 3.95e-41 145
MsaG003938 AT3G61950.3 46.108 167 75 2 126 292 168 319 1.39e-40 145
MsaG003938 AT5G46690.2 43.961 207 81 4 126 305 78 276 3.97e-40 143
MsaG003938 AT3G06120.1 37.368 190 94 2 136 311 1 179 2.74e-32 119
MsaG003938 AT5G53210.1 56.923 65 28 0 134 198 100 164 5.17e-20 90.1
MsaG003938 AT5G53210.2 56.923 65 28 0 134 198 100 164 5.84e-20 89.7
MsaG003938 AT3G61950.4 71.429 42 12 0 126 167 168 209 4.81e-13 67.8
MsaG003938 AT3G61950.5 71.429 42 12 0 126 167 168 209 4.81e-13 67.8

Find 43 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TCTTTGATTCCATAACTAAA+AGG 0.292800 1:+63945996 None:intergenic
GGTGATCAAGCTTCTATAAT+TGG 0.293785 1:-63945288 MsaT003938.1:CDS
ACTCTATCTCTTTCCTCTTC+AGG 0.299868 1:+63946065 None:intergenic
CAGCTCTTGAAAATGGTATC+TGG 0.309667 1:-63944982 MsaT003938.1:CDS
AATGAAAAGAATTCAGAAAA+TGG 0.318161 1:+63945159 None:intergenic
GCCAAAACAGCTCTTGAAAA+TGG 0.324313 1:-63944989 MsaT003938.1:CDS
GTTGAAGATGATTGCAAGTT+GGG 0.350399 1:-63944768 MsaT003938.1:CDS
CATTTAAATGTTACTACTAC+TGG 0.355694 1:-63944931 MsaT003938.1:CDS
ATTGTCCTCCTTATGTAGAT+TGG 0.357399 1:-63945884 MsaT003938.1:CDS
TTTCTTGAACTTCATTCAAA+TGG 0.360903 1:+63945832 None:intergenic
CTAAAAGGATCTTGTGTTTG+TGG 0.365756 1:+63946011 None:intergenic
TTCTTGAACTTCATTCAAAT+GGG 0.379399 1:+63945833 None:intergenic
TCTTTACTCTCTCAGTGTTA+AGG 0.389543 1:-63944899 MsaT003938.1:intron
GTTGAATCCTATTGACCATC+TGG 0.393376 1:+63944715 None:intergenic
CTGTATACCAGATGGTCAAT+AGG 0.406963 1:-63944722 MsaT003938.1:CDS
TCTGCAGCTACTAATACTAT+TGG 0.408201 1:-63945105 MsaT003938.1:CDS
ACCCTTTGGATGTAAGAATC+TGG 0.440881 1:+63945594 None:intergenic
GGTTGAAGATGATTGCAAGT+TGG 0.450829 1:-63944769 MsaT003938.1:CDS
TTGTTATTCCAATCTACATA+AGG 0.465642 1:+63945876 None:intergenic
TTAAAATAAGATCAAGAAAG+AGG 0.490885 1:-63945011 MsaT003938.1:CDS
TGCCAGATTCTTACATCCAA+AGG 0.505226 1:-63945596 MsaT003938.1:CDS
GCCAGATTCTTACATCCAAA+GGG 0.516817 1:-63945595 MsaT003938.1:intron
TTAGTAATAGTATTACTACT+TGG 0.517777 1:+63945798 None:intergenic
TGTTATGTGTTTACCTGAAG+AGG 0.521964 1:-63946078 None:intergenic
ACACAGTTATTCGTCCGAAA+AGG 0.534814 1:-63945740 MsaT003938.1:CDS
GATCAAGCTTCTATAATTGG+AGG 0.557225 1:-63945285 MsaT003938.1:CDS
TGAACTTCATTCAAATGGGG+TGG 0.566537 1:+63945837 None:intergenic
ATTACTACTTGGATCAGTAG+TGG 0.576946 1:+63945809 None:intergenic
TGATTGCAAGTTGGGATCAG+TGG 0.579380 1:-63944760 MsaT003938.1:CDS
TTATCACTTGTTGAATACTG+TGG 0.584055 1:+63945135 None:intergenic
GGTCAATAGGATTCAACAAG+AGG 0.595940 1:-63944709 MsaT003938.1:CDS
AGCTTCAGCTGTATACCAGA+TGG 0.597796 1:-63944730 MsaT003938.1:CDS
TATGTAGATTGGAATAACAA+TGG 0.602597 1:-63945873 MsaT003938.1:CDS
AGACATGGCGCTAGAAGCAG+TGG 0.611321 1:-63946039 MsaT003938.1:CDS
TTATTCCAATCTACATAAGG+AGG 0.614549 1:+63945879 None:intergenic
TCTTGAACTTCATTCAAATG+GGG 0.614700 1:+63945834 None:intergenic
ACGAATAACTGTGTTCACAG+AGG 0.614740 1:+63945749 None:intergenic
CGAATAACTGTGTTCACAGA+GGG 0.620805 1:+63945750 None:intergenic
AAGAGATAGAGTGAAAGACA+TGG 0.652151 1:-63946054 MsaT003938.1:CDS
GTGAAATCTGATGAAGCTGG+TGG 0.684533 1:-63945195 MsaT003938.1:CDS
TGCTGACATAGAAGTGACAA+TGG 0.687267 1:-63945052 MsaT003938.1:CDS
GAAGTGAAATCTGATGAAGC+TGG 0.693568 1:-63945198 MsaT003938.1:CDS
TGACATAGAAGTGACAATGG+TGG 0.780182 1:-63945049 MsaT003938.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr1 gene 63944695 63946096 63944695 ID=MsaG003938
Chr1 mRNA 63944695 63946096 63944695 ID=MsaT003938.1;Parent=MsaG003938
Chr1 exon 63944695 63944790 63944695 ID=MsaT003938.1.exon3;Parent=MsaT003938.1
Chr1 CDS 63944695 63944790 63944695 ID=cds.MsaT003938.1;Parent=MsaT003938.1
Chr1 exon 63944900 63945310 63944900 ID=MsaT003938.1.exon2;Parent=MsaT003938.1
Chr1 CDS 63944900 63945310 63944900 ID=cds.MsaT003938.1;Parent=MsaT003938.1
Chr1 exon 63945596 63946096 63945596 ID=MsaT003938.1.exon1;Parent=MsaT003938.1
Chr1 CDS 63945596 63946096 63945596 ID=cds.MsaT003938.1;Parent=MsaT003938.1
Gene Sequence

>MsaT003938.1

ATGTGTTTACCTGAAGAGGAAAGAGATAGAGTGAAAGACATGGCGCTAGAAGCAGTGGTTTATCCACAAACACAAGATCCTTTTAGTTATGGAATCAAAGATTTTTACAACTTCAACTTCAACACTTTTGTTGCAAAAGAACAACAAGAACAGAGATCTTTCAGTTTTGTAGAAAACCAAACAGAAAATAATTGTCCTCCTTATGTAGATTGGAATAACAATGGTTCCACTTTTTCACCACCCCATTTGAATGAAGTTCAAGAAACCACTACTGATCCAAGTAGTAATACTATTACTAATAACACTCAAAACTTTCATGCTTCACCCTCTGTGAACACAGTTATTCGTCCGAAAAGGCGCAGAGCTAGAAGCAGAAAAAACAAAGAAGAAATTGAGAATCAGAGAATGACTCACATTGCTGTTGAGCGTAATAGAAGAAAGCAGATGAATGACTATCTTTCTATTCTTCGCTCTCTAATGCCAGATTCTTACATCCAAAGGGGTGATCAAGCTTCTATAATTGGAGGTGCTATTAACTTTGTTAAAGAGCTTGAGCACAAGTTTCATTTTCTTGGTACTAAGAAAGAAAGAGAAGTGAAATCTGATGAAGCTGGTGGATCAAACAACATGCCATTTTCTGAATTCTTTTCATTTCCACAGTATTCAACAAGTGATAATTCTAATTCTGCAGCTACTAATACTATTGGTGAAAAAGTTGGTGAGATTCAATCTTGCATTGCTGACATAGAAGTGACAATGGTGGAAAACCATGCAAATCTTAAAATAAGATCAAGAAAGAGGCCAAAACAGCTCTTGAAAATGGTATCTGGTTTGCAAAGCATGCGTCTCACAATCTTGCATTTAAATGTTACTACTACTGGTGAAATTGTTCTTTACTCTCTCAGTGTTAAGGTTGAAGATGATTGCAAGTTGGGATCAGTGGATGATATAGCTTCAGCTGTATACCAGATGGTCAATAGGATTCAACAAGAGGCAATGTTGAATTAA

Protein sequence

>MsaT003938.1

MCLPEEERDRVKDMALEAVVYPQTQDPFSYGIKDFYNFNFNTFVAKEQQEQRSFSFVENQTENNCPPYVDWNNNGSTFSPPHLNEVQETTTDPSSNTITNNTQNFHASPSVNTVIRPKRRRARSRKNKEEIENQRMTHIAVERNRRKQMNDYLSILRSLMPDSYIQRGDQASIIGGAINFVKELEHKFHFLGTKKEREVKSDEAGGSNNMPFSEFFSFPQYSTSDNSNSAATNTIGEKVGEIQSCIADIEVTMVENHANLKIRSRKRPKQLLKMVSGLQSMRLTILHLNVTTTGEIVLYSLSVKVEDDCKLGSVDDIASAVYQMVNRIQQEAMLN*