AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG001398

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG001398 MtrunA17_Chr1g0162821 100.000 279 0 0 1 279 1 279 0.0 566
MsaG001398 MtrunA17_Chr2g0320801 66.783 286 86 2 1 278 1 285 2.60e-126 362
MsaG001398 MtrunA17_Chr7g0265751 60.656 305 82 5 1 276 1 296 1.80e-118 342
MsaG001398 MtrunA17_Chr2g0276901 37.864 103 61 1 73 172 23 125 2.96e-19 87.4
MsaG001398 MtrunA17_Chr2g0276891 57.143 49 21 0 9 57 184 232 9.01e-13 66.6
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG001398 AT5G42820.1 73.944 284 64 2 1 277 1 281 7.05e-138 390
MsaG001398 AT5G42820.2 73.944 284 64 2 1 277 1 281 7.05e-138 390
MsaG001398 AT1G27650.1 68.041 291 68 4 1 272 1 285 7.19e-125 358
MsaG001398 AT1G27650.2 61.411 241 68 4 51 272 1 235 5.06e-83 249
MsaG001398 AT1G10320.2 38.922 167 97 2 9 172 228 392 1.12e-37 141
MsaG001398 AT1G10320.1 38.922 167 97 2 9 172 237 401 1.38e-37 141
MsaG001398 AT3G44785.1 81.481 54 10 0 1 54 1 54 3.15e-28 103

Find 84 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GTTGAATGTTTGTGATAATT+TGG 0.232510 1:-19484301 MsaT001398.1:CDS
AGAGATGGTGGGAGGAGAAA+TGG 0.261636 1:-19483853 MsaT001398.1:CDS
TTCACCGAGCTTTCGAAATT+CGG 0.280926 1:-19484336 MsaT001398.1:CDS
TGTTGGAGAGGAGGAGAGTT+GGG 0.288016 1:+19484463 None:intergenic
GGGAGAGGAAAAGAGATAGT+AGG 0.314372 1:-19483879 MsaT001398.1:CDS
ATAGGGTTAGGGATGGAGAT+AGG 0.323264 1:-19483906 MsaT001398.1:CDS
GAGGAGAGTTGGGGAGATTG+TGG 0.325267 1:+19484473 None:intergenic
GTAGTGATAGGGATAGGGTT+AGG 0.342152 1:-19483918 MsaT001398.1:CDS
TTTATGCATGTTAAGAAGAT+TGG 0.350465 1:-19484084 MsaT001398.1:CDS
GAGATGGTGGGAGGAGAAAT+GGG 0.363627 1:-19483852 MsaT001398.1:CDS
GGAGAGGAAAAGAGATAGTA+GGG 0.386799 1:-19483878 MsaT001398.1:CDS
CCAGGATTGAGCAATGGAAT+AGG 0.388115 1:-19483795 MsaT001398.1:CDS
CCTATTCCATTGCTCAATCC+TGG 0.388307 1:+19483795 None:intergenic
TGACCGTTTGGATCGACGCC+GGG 0.392644 1:+19484414 None:intergenic
GGAGAAATGGGAGGGAGGCA+AGG 0.399845 1:-19483840 MsaT001398.1:CDS
AGAAGATTGGTAGGGAGTTG+AGG 0.400429 1:-19484071 MsaT001398.1:CDS
GGGAGATTGTGGGACGGTTG+TGG 0.404937 1:+19484484 None:intergenic
AGGAGAGTTGGGGAGATTGT+GGG 0.405421 1:+19484474 None:intergenic
GAGAAATGGGAGGGAGGCAA+GGG 0.407109 1:-19483839 MsaT001398.1:CDS
CTGCTTCTTCTTCTCCTCCT+CGG 0.409481 1:+19483997 None:intergenic
GCCTCACGAAAATCCGTAAC+AGG 0.411096 1:+19484159 None:intergenic
AGAAATCTTCGAAGTGTTGT+TGG 0.412558 1:+19484370 None:intergenic
GTGGAAGACGAAGTAGTGAT+AGG 0.416019 1:-19483930 MsaT001398.1:CDS
GGATCGATTGGTTGACCGTT+TGG 0.421209 1:+19484402 None:intergenic
GATAGTAGGGATAGAGATGG+TGG 0.425369 1:-19483865 MsaT001398.1:CDS
CTTCGCAGCGGAGCAGGAGC+CGG 0.428582 1:-19484035 MsaT001398.1:CDS
AATTTGGCTGATCATATGAT+TGG 0.430238 1:-19484285 MsaT001398.1:CDS
TAGTGATAGGGATAGGGTTA+GGG 0.437566 1:-19483917 MsaT001398.1:CDS
GAAGCGAGGAAAGGCGAGCC+AGG 0.445458 1:-19483813 MsaT001398.1:CDS
AGCGGAGCAGGAGCCGGAGC+AGG 0.446956 1:-19484029 MsaT001398.1:CDS
ATGTTGGAGAGGAGGAGAGT+TGG 0.454313 1:+19484462 None:intergenic
TGGGAGGAGAAATGGGAGGG+AGG 0.457003 1:-19483845 MsaT001398.1:CDS
CAGGATTGAGCAATGGAATA+GGG 0.457097 1:-19483794 MsaT001398.1:CDS
GACGAAGTAGTGATAGGGAT+AGG 0.484651 1:-19483924 MsaT001398.1:CDS
AATGGGAGGGAGGCAAGGGA+AGG 0.490864 1:-19483835 MsaT001398.1:CDS
GCGCCGATCTTGAAGTAGAA+AGG 0.491890 1:+19484537 None:intergenic
ATTTGGCTGATCATATGATT+GGG 0.494169 1:-19484284 MsaT001398.1:CDS
TTAGGGATGGAGATAGGGAT+AGG 0.502553 1:-19483900 MsaT001398.1:CDS
TGGATCTGACGCGGATCGAT+TGG 0.504819 1:+19484390 None:intergenic
ACGAAGTAGTGATAGGGATA+GGG 0.505580 1:-19483923 MsaT001398.1:CDS
CGCCGATCTTGAAGTAGAAA+GGG 0.506625 1:+19484538 None:intergenic
TCGGACTATTACTCCTGCTC+CGG 0.509383 1:+19484016 None:intergenic
TAGGGTTAGGGATGGAGATA+GGG 0.510727 1:-19483905 MsaT001398.1:CDS
GGAGGCAAGGGAAGGAAGCG+AGG 0.519892 1:-19483827 MsaT001398.1:CDS
TGCCCTTTCTACTTCAAGAT+CGG 0.519944 1:-19484540 MsaT001398.1:CDS
GTTGGAGAGGAGGAGAGTTG+GGG 0.525720 1:+19484464 None:intergenic
GGCGACTTGTCGGCAATATG+AGG 0.530954 1:-19484139 MsaT001398.1:CDS
AGAGATAGTAGGGATAGAGA+TGG 0.530986 1:-19483868 MsaT001398.1:CDS
CAAGGGAAGGAAGCGAGGAA+AGG 0.534933 1:-19483822 MsaT001398.1:CDS
TGCATGTTAAGAAGATTGGT+AGG 0.545724 1:-19484080 MsaT001398.1:CDS
GAACACTTAGCATCAATCTT+CGG 0.547030 1:-19484585 MsaT001398.1:CDS
ATGGAGATAGGGATAGGGAG+AGG 0.548603 1:-19483894 MsaT001398.1:CDS
GCTGCGTTAGCGAGTTTGAG+AGG 0.550191 1:-19484222 MsaT001398.1:CDS
CGTTAGCGAGTTTGAGAGGG+AGG 0.554715 1:-19484218 MsaT001398.1:CDS
TAGGGATGGAGATAGGGATA+GGG 0.557714 1:-19483899 MsaT001398.1:CDS
AAGATCGGCGCGTGTCGTCA+CGG 0.559187 1:-19484525 MsaT001398.1:CDS
GATAGGGATAGGGTTAGGGA+TGG 0.561282 1:-19483913 MsaT001398.1:CDS
TTGACCGTTTGGATCGACGC+CGG 0.564773 1:+19484413 None:intergenic
CTGCGTTAGCGAGTTTGAGA+GGG 0.568829 1:-19484221 MsaT001398.1:CDS
TGGAAGACGAAGTAGTGATA+GGG 0.570881 1:-19483929 MsaT001398.1:CDS
AGATTGGTAGGGAGTTGAGG+AGG 0.577482 1:-19484068 MsaT001398.1:CDS
ATAGTAGGGATAGAGATGGT+GGG 0.578568 1:-19483864 MsaT001398.1:CDS
TGGTGGGAGGAGAAATGGGA+GGG 0.582282 1:-19483848 MsaT001398.1:CDS
GCATGTTAAGAAGATTGGTA+GGG 0.590056 1:-19484079 MsaT001398.1:CDS
GACCGTTTGGATCGACGCCG+GGG 0.598231 1:+19484415 None:intergenic
GGCGAGCCAGGATTGAGCAA+TGG 0.604509 1:-19483801 MsaT001398.1:CDS
CGTCCCGACATCATCACCCC+CGG 0.623033 1:-19484432 MsaT001398.1:CDS
GACGTTGGTACATGTTGGAG+AGG 0.624648 1:+19484451 None:intergenic
ATGGTGGGAGGAGAAATGGG+AGG 0.633559 1:-19483849 MsaT001398.1:CDS
GTAACCGAATTTCGAAAGCT+CGG 0.636434 1:+19484332 None:intergenic
ACCGTTTGGATCGACGCCGG+GGG 0.637319 1:+19484416 None:intergenic
GTTGGTACATGTTGGAGAGG+AGG 0.641509 1:+19484454 None:intergenic
GTCGGGACGTTGGTACATGT+TGG 0.644753 1:+19484446 None:intergenic
GTAGGGATAGAGATGGTGGG+AGG 0.649876 1:-19483861 MsaT001398.1:CDS
AAGTGTTGTTGGATCTGACG+CGG 0.652115 1:+19484381 None:intergenic
GATAGAGATTATGATTCGCG+TGG 0.653513 1:-19483949 MsaT001398.1:CDS
GGTTGTGGAGACGTGAGCAA+CGG 0.653827 1:+19484499 None:intergenic
GGGTGATGATGTCGGGACGT+TGG 0.655152 1:+19484436 None:intergenic
GAGGAGAATAGCTGTAATCG+TGG 0.660126 1:-19484120 MsaT001398.1:CDS
GGAGCAGGAGTAATAGTCCG+AGG 0.660385 1:-19484014 MsaT001398.1:CDS
GAGTTGGGGAGATTGTGGGA+CGG 0.682417 1:+19484478 None:intergenic
GAGAATAGCTGTAATCGTGG+TGG 0.695229 1:-19484117 MsaT001398.1:CDS
GCAGGAGTAATAGTCCGAGG+AGG 0.699313 1:-19484011 MsaT001398.1:CDS
GAATCATAATCTCTATCACG+CGG 0.759540 1:+19483955 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr1 gene 19483774 19484613 19483774 ID=MsaG001398
Chr1 mRNA 19483774 19484613 19483774 ID=MsaT001398.1;Parent=MsaG001398
Chr1 exon 19483774 19484613 19483774 ID=MsaT001398.1.exon1;Parent=MsaT001398.1
Chr1 CDS 19483774 19484613 19483774 ID=cds.MsaT001398.1;Parent=MsaT001398.1
Gene Sequence

>MsaT001398.1

ATGGCGGAACACTTAGCATCAATCTTCGGCACAGAAAAAGACAGAGTAAACTGCCCTTTCTACTTCAAGATCGGCGCGTGTCGTCACGGCGACCGTTGCTCACGTCTCCACAACCGTCCCACAATCTCCCCAACTCTCCTCCTCTCCAACATGTACCAACGTCCCGACATCATCACCCCCGGCGTCGATCCAAACGGTCAACCAATCGATCCGCGTCAGATCCAACAACACTTCGAAGATTTCTACGAAGATATCTTCACCGAGCTTTCGAAATTCGGTTACGTTGAAACGTTGAATGTTTGTGATAATTTGGCTGATCATATGATTGGGAATGTTTATGTGCTTTTTAAAGAGGAAGATCATGCTGCTGCTGCGTTAGCGAGTTTGAGAGGGAGGTTTTATGAAGGGAGGCCGATTTTAGCGGATTTTTCTCCTGTTACGGATTTTCGTGAGGCGACTTGTCGGCAATATGAGGAGAATAGCTGTAATCGTGGTGGTTATTGTAATTTTATGCATGTTAAGAAGATTGGTAGGGAGTTGAGGAGGAAATTGTTTTCTTCGCAGCGGAGCAGGAGCCGGAGCAGGAGTAATAGTCCGAGGAGGAGAAGAAGAAGCAGAAGCAGAGAACGAGAGAGACCGCGTGATAGAGATTATGATTCGCGTGGAAGACGAAGTAGTGATAGGGATAGGGTTAGGGATGGAGATAGGGATAGGGAGAGGAAAAGAGATAGTAGGGATAGAGATGGTGGGAGGAGAAATGGGAGGGAGGCAAGGGAAGGAAGCGAGGAAAGGCGAGCCAGGATTGAGCAATGGAATAGGGAAAAAGAGGAGAAGCCGTGA
Protein sequence

>MsaT001398.1

MAEHLASIFGTEKDRVNCPFYFKIGACRHGDRCSRLHNRPTISPTLLLSNMYQRPDIITPGVDPNGQPIDPRQIQQHFEDFYEDIFTELSKFGYVETLNVCDNLADHMIGNVYVLFKEEDHAAAALASLRGRFYEGRPILADFSPVTDFREATCRQYEENSCNRGGYCNFMHVKKIGRELRRKLFSSQRSRSRSRSNSPRRRRRSRSRERERPRDRDYDSRGRRSSDRDRVRDGDRDRERKRDSRDRDGGRRNGREAREGSEERRARIEQWNREKEEKP*