AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG012762

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG012762 MtrunA17_Chr3g0087881 91.304 483 11 2 1 482 1 453 0.0 904
MsaG012762 MtrunA17_Chr3g0087891 52.584 329 127 8 1 307 1 322 7.35e-106 319
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG012762 AT3G08505.1 50.804 311 126 8 1 307 1 288 4.50e-99 301
MsaG012762 AT3G08505.2 50.804 311 126 8 1 307 1 288 4.50e-99 301
MsaG012762 AT3G08505.3 50.804 311 126 8 1 307 1 288 4.50e-99 301

Find 108 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
ATGCAAGAGGCCATGGTTTC+TGG 0.092914 3:+32119040 MsaT012762.1:CDS
CCTGCATCCTACTGATAAAA+AGG 0.246259 3:+32115307 MsaT012762.1:CDS
CAGAAAGGGTCTTGTGCTTA+TGG 0.259648 3:+32114963 MsaT012762.1:CDS
GATTCGCTGGCTGGCGGTTC+AGG 0.263297 3:+32118860 MsaT012762.1:CDS
GTGCTAAAGTAGCATCAAAT+TGG 0.277566 3:+32115075 MsaT012762.1:CDS
GTTTCTGGGATAGATGATTT+TGG 0.286340 3:+32119055 MsaT012762.1:CDS
AGCATCATCTTCAGCATCTA+TGG 0.292528 3:+32115022 MsaT012762.1:CDS
TTTGAGGACTTGTGACAAAA+AGG 0.300862 3:+32115343 MsaT012762.1:CDS
GCTCTTGGGATGGATGCTTT+TGG 0.301364 3:+32118965 MsaT012762.1:CDS
TTGTCATTCCAAGTGGTATT+TGG 0.301592 3:+32115606 MsaT012762.1:CDS
AAGCCATCAGAATGTAAGTT+TGG 0.301620 3:+32115443 MsaT012762.1:CDS
TGGCGGTTCAGGTCCTTGTT+TGG 0.314287 3:+32118871 MsaT012762.1:CDS
GGCGGTTCAGGTCCTTGTTT+GGG 0.319796 3:+32118872 MsaT012762.1:CDS
GGAAATGGAAATTGTCCATT+TGG 0.321258 3:+32115814 MsaT012762.1:CDS
TCCTCATCGTCATCGTCATC+AGG 0.328553 3:-32118989 None:intergenic
ATGCAAGAGGCCATGGCTCT+TGG 0.356930 3:+32118950 MsaT012762.1:CDS
TATGATAGTTTGCGGCAAAC+AGG 0.366308 3:-32115581 None:intergenic
CAGAAAGCGTGATCACATTC+TGG 0.369919 3:-32115473 None:intergenic
GAAATGGAAATTGTCCATTT+GGG 0.373127 3:+32115815 MsaT012762.1:CDS
GTTTGTCATGTATTCGCAAT+TGG 0.373825 3:+32115495 MsaT012762.1:CDS
CGATTTCCATTGCAGAGGTT+GGG 0.374375 3:-32115529 None:intergenic
CCCTTTACACCACGCTTGTC+AGG 0.379427 3:-32115125 None:intergenic
AAACTTACATTCTGATGGCT+TGG 0.395562 3:-32115441 None:intergenic
CCTGACAAGCGTGGTGTAAA+GGG 0.396694 3:+32115125 MsaT012762.1:CDS
TGCAAGAGGCCATGGTTTCT+GGG 0.408782 3:+32119041 MsaT012762.1:CDS
AACTTACATTCTGATGGCTT+GGG 0.410250 3:-32115440 None:intergenic
TGCAAGAGGCCATGGCTCTT+GGG 0.417374 3:+32118951 MsaT012762.1:CDS
AATGATGATGCATTCTCATA+TGG 0.418914 3:+32119126 MsaT012762.1:CDS
ACCTGACAAGCGTGGTGTAA+AGG 0.433230 3:+32115124 MsaT012762.1:CDS
GATAATGCCATCATCTCAAA+TGG 0.443626 3:-32118836 None:intergenic
AAAATCTCACCATGTCCAAC+AGG 0.444234 3:+32113953 None:intergenic
AGCCATCAGAATGTAAGTTT+GGG 0.447348 3:+32115444 MsaT012762.1:CDS
CCGATTTCCATTGCAGAGGT+TGG 0.450187 3:-32115530 None:intergenic
GATTCAGACGATGAGGATGA+TGG 0.450779 3:+32118902 MsaT012762.1:CDS
CCAACCTCTGCAATGGAAAT+CGG 0.452415 3:+32115530 MsaT012762.1:CDS
TTTGCTCTTATTATCAGAAA+GGG 0.457240 3:+32114949 MsaT012762.1:CDS
ACATGTCATGCATATCGAAA+TGG 0.462288 3:-32118730 None:intergenic
TCAATTCCATGAAAATCATC+AGG 0.466690 3:-32119079 None:intergenic
TGCTGCTATGCAAGAGGCCA+TGG 0.469668 3:+32118943 MsaT012762.1:CDS
ATTTGCTCTTATTATCAGAA+AGG 0.469932 3:+32114948 MsaT012762.1:CDS
GGGTTTACAACGCAAGCATC+AGG 0.478209 3:+32115145 MsaT012762.1:CDS
GCATTATCAGATTCGCTGGC+TGG 0.489570 3:+32118851 MsaT012762.1:CDS
TGCTAAAGTAGCATCAAATT+GGG 0.490703 3:+32115076 MsaT012762.1:CDS
AATGGATCCATTTGAGATGA+TGG 0.491467 3:+32118829 MsaT012762.1:CDS
GATTTCCATTGCAGAGGTTG+GGG 0.493235 3:-32115528 None:intergenic
GGCTGCTATGCAAGAGGCCA+TGG 0.495488 3:+32119033 MsaT012762.1:CDS
TGGTCTAGCACTACCAGTAC+TGG 0.497170 3:-32115189 None:intergenic
TGTCTCCATGTGTATGAGCC+AGG 0.499940 3:-32118677 None:intergenic
TCCTCATCGTCTGAATCAAA+AGG 0.507460 3:-32118896 None:intergenic
GAAGGAACCTTTGTAACCTT+CGG 0.509713 3:-32115101 None:intergenic
AGGGCAGGTTCTCACTGTAT+TGG 0.515799 3:-32115561 None:intergenic
GATGGCATTATCAGATTCGC+TGG 0.519486 3:+32118847 MsaT012762.1:CDS
TAGTTTGCGGCAAACAGGGC+AGG 0.521329 3:-32115576 None:intergenic
TGACAAAATATGATAGTTTG+CGG 0.523339 3:-32115589 None:intergenic
AGGAAAAGGAAAATCATTTG+AGG 0.527601 3:+32115327 MsaT012762.1:CDS
TAGAAACAGATAGCCCCAAA+TGG 0.530133 3:-32115829 None:intergenic
AAAATCTGAGTCCCTCATGA+TGG 0.533480 3:-32118798 None:intergenic
CTGATGGCTTGGGTTTCGAA+AGG 0.535450 3:-32115430 None:intergenic
ATTCAGACGATGAGGATGAT+GGG 0.536703 3:+32118903 MsaT012762.1:CDS
TGGGGCTATCTGTTTCTACA+AGG 0.541622 3:+32115834 MsaT012762.1:CDS
GCGCGAGGCGTATGTTTGAA+AGG 0.542739 3:+32114627 MsaT012762.1:CDS
TTTGCTGCTGCCAACTGCCC+CGG 0.543300 3:+32115233 MsaT012762.1:CDS
TTCAGATTCTGCTGCGCCTG+TGG 0.544702 3:+32115046 MsaT012762.1:CDS
AACCCAAACTTACATTCTGA+TGG 0.549424 3:-32115446 None:intergenic
TTTCAGCATACAGTGAAGCC+TGG 0.555178 3:+32118659 MsaT012762.1:intron
ATGATAGTTTGCGGCAAACA+GGG 0.556192 3:-32115580 None:intergenic
GATATCAAAGCTGCATCCAT+AGG 0.558891 3:-32119103 None:intergenic
TCAAATTGCTGCTATGCAAG+AGG 0.561508 3:+32118937 MsaT012762.1:CDS
AGAACATCCACCGGGGCAGT+TGG 0.563489 3:-32115243 None:intergenic
TGGTATTTGGTTTACTACAA+AGG 0.568402 3:+32115619 MsaT012762.1:CDS
AGCATCAAATTGGGTTCCGA+AGG 0.575611 3:+32115085 MsaT012762.1:CDS
TGCGTTGAGGTGGTGGCCTG+CGG 0.577755 3:-32118700 None:intergenic
TAGTGCCCCAACCTCTGCAA+TGG 0.580807 3:+32115523 MsaT012762.1:CDS
TTTCGATATGCATGACATGT+TGG 0.582133 3:+32118733 MsaT012762.1:CDS
CCTCATCGTCATCGTCATCA+GGG 0.582725 3:-32118988 None:intergenic
TCGAATGGCTGCTATGCAAG+AGG 0.583412 3:+32119027 MsaT012762.1:CDS
AAGATGATGCTTGAGAAGCT+CGG 0.587317 3:-32115010 None:intergenic
AGAGGCCATGGCTCTTGGGA+TGG 0.587677 3:+32118955 MsaT012762.1:CDS
GGTCTTGTGCTTATGGTAGT+CGG 0.588927 3:+32114970 MsaT012762.1:CDS
TTGGGTTCCGAAGGTTACAA+AGG 0.589756 3:+32115094 MsaT012762.1:CDS
ACACCACGCTTGTCAGGTGA+AGG 0.590498 3:-32115119 None:intergenic
GGTGGATGTTCTCGTATTCA+CGG 0.596225 3:+32115254 MsaT012762.1:CDS
AGCATCCATCCCAAGAGCCA+TGG 0.600499 3:-32118960 None:intergenic
ATCATCTATCCCAGAAACCA+TGG 0.600753 3:-32119050 None:intergenic
TGAATACGAGAACATCCACC+GGG 0.602886 3:-32115251 None:intergenic
ACTTTAGCACTACGAGCCAC+AGG 0.603612 3:-32115062 None:intergenic
TTATCAGATTCGCTGGCTGG+CGG 0.606192 3:+32118854 MsaT012762.1:CDS
GCTGCTGCCAACTGCCCCGG+TGG 0.606750 3:+32115236 MsaT012762.1:CDS
TGAAGCCTGGCTCATACACA+TGG 0.611090 3:+32118672 MsaT012762.1:CDS
AAATGGAAATTGTCCATTTG+GGG 0.614806 3:+32115816 MsaT012762.1:CDS
GATGTCGGTGAATCCAGTAC+TGG 0.616230 3:+32115176 MsaT012762.1:CDS
ATAACTACAAGGCAAACTGC+AGG 0.617185 3:+32115663 MsaT012762.1:CDS
CATGACATGTTGGATGTGCT+CGG 0.619477 3:+32118743 MsaT012762.1:CDS
CATCAGGACTCTACCGATGT+CGG 0.621122 3:+32115161 MsaT012762.1:CDS
GTAGTAAACCAAATACCACT+TGG 0.621876 3:-32115614 None:intergenic
GGAAATTATTGATAACTACA+AGG 0.622897 3:+32115652 MsaT012762.1:CDS
GAATCAAAAGGACCCAAACA+AGG 0.628395 3:-32118884 None:intergenic
GTGAATACGAGAACATCCAC+CGG 0.635675 3:-32115252 None:intergenic
AGTACTGGATTCACCGACAT+CGG 0.635922 3:-32115174 None:intergenic
GGTGAGGTTGATCTATCAAG+TGG 0.638628 3:+32118764 MsaT012762.1:CDS
ACTACCGATTTCCATTGCAG+AGG 0.647818 3:-32115534 None:intergenic
TGAGATTTACCTGTTGGACA+TGG 0.648362 3:-32113962 None:intergenic
CATACACATGGAGACACCGC+AGG 0.651112 3:+32118684 MsaT012762.1:CDS
GTTCCTTCACCTGACAAGCG+TGG 0.673427 3:+32115116 MsaT012762.1:CDS
CCCTGATGACGATGACGATG+AGG 0.676584 3:+32118988 MsaT012762.1:CDS
CATGTTGGATGTGCTCGGTG+AGG 0.698239 3:+32118748 MsaT012762.1:CDS
AGAAGATGATGAAGAGTACG+AGG 0.701267 3:+32119156 MsaT012762.1:CDS
GAATACGAGAACATCCACCG+GGG 0.861616 3:-32115250 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr3 gene 32113964 32119210 32113964 ID=MsaG012762
Chr3 mRNA 32113964 32119210 32113964 ID=MsaT012762.1;Parent=MsaG012762
Chr3 exon 32113964 32113974 32113964 ID=MsaT012762.1.exon1;Parent=MsaT012762.1
Chr3 CDS 32113964 32113974 32113964 ID=cds.MsaT012762.1;Parent=MsaT012762.1
Chr3 exon 32114611 32114695 32114611 ID=MsaT012762.1.exon2;Parent=MsaT012762.1
Chr3 CDS 32114611 32114695 32114611 ID=cds.MsaT012762.1;Parent=MsaT012762.1
Chr3 exon 32114948 32115684 32114948 ID=MsaT012762.1.exon3;Parent=MsaT012762.1
Chr3 CDS 32114948 32115684 32114948 ID=cds.MsaT012762.1;Parent=MsaT012762.1
Chr3 exon 32115786 32115855 32115786 ID=MsaT012762.1.exon4;Parent=MsaT012762.1
Chr3 CDS 32115786 32115855 32115786 ID=cds.MsaT012762.1;Parent=MsaT012762.1
Chr3 exon 32118665 32119210 32118665 ID=MsaT012762.1.exon5;Parent=MsaT012762.1
Chr3 CDS 32118665 32119210 32118665 ID=cds.MsaT012762.1;Parent=MsaT012762.1
Gene Sequence

>MsaT012762.1

ATGTCCAACAGGGTTTGCAAGTTTTATGCGCGAGGCGTATGTTTGAAAGGCGACCAATGTGATTTTTCTCATCAGAGAAAGGACACTGCATCTGATATTTGCTCTTATTATCAGAAAGGGTCTTGTGCTTATGGTAGTCGGTGCAGATATAAGCACGTCCGAGCTTCTCAAGCATCATCTTCAGCATCTATGGTTTCAGATTCTGCTGCGCCTGTGGCTCGTAGTGCTAAAGTAGCATCAAATTGGGTTCCGAAGGTTACAAAGGTTCCTTCACCTGACAAGCGTGGTGTAAAGGGTTTACAACGCAAGCATCAGGACTCTACCGATGTCGGTGAATCCAGTACTGGTAGTGCTAGACCACATGAAAATTTGTTTTGTAAATTTGCTGCTGCCAACTGCCCCGGTGGATGTTCTCGTATTCACGGAAATCAATGCTTGTACTGTAGAAAATATTGCCTGCATCCTACTGATAAAAAGGAAAAGGAAAATCATTTGAGGACTTGTGACAAAAAGGAAAAGTACCTTCTGGCTTTGAAAAACAGCGAAGAGATAGAATGCAATGTTTGTCTCGAGCGTGTCCTTTCGAAACCCAAGCCATCAGAATGTAAGTTTGGGTTGCTTCCAGAATGTGATCACGCTTTCTGTTTGTCATGTATTCGCAATTGGCGTAGTAGTGCCCCAACCTCTGCAATGGAAATCGGTAGTAACACCAATACAGTGAGAACCTGCCCTGTTTGCCGCAAACTATCATATTTTGTCATTCCAAGTGGTATTTGGTTTACTACAAAGGAAGAAAAACAGGAAATTATTGATAACTACAAGGCAAACTGCAGATTGATTGATTGCAAACATTTTGACTCTGGAAATGGAAATTGTCCATTTGGGGCTATCTGTTTCTACAAGCATACAGTGAAGCCTGGCTCATACACATGGAGACACCGCAGGCCACCACCTCAACGCAGACAAAACCATTTCGATATGCATGACATGTTGGATGTGCTCGGTGAGGTTGATCTATCAAGTGGAGAATTTTATTCCATCATGAGGGACTCAGATTTTTTTGAGGGAATGGATCCATTTGAGATGATGGCATTATCAGATTCGCTGGCTGGCGGTTCAGGTCCTTGTTTGGGTCCTTTTGATTCAGACGATGAGGATGATGGGTTTCGTGTTTCTCAAATTGCTGCTATGCAAGAGGCCATGGCTCTTGGGATGGATGCTTTTGGCCCTGATGACGATGACGATGAGGAAGAGTTTAATGTTTTTCGAATGGCTGCTATGCAAGAGGCCATGGTTTCTGGGATAGATGATTTTGGTCCTGATGATTTTCATGGAATTGATCCTATGGATGCAGCTTTGATATCAATGATGATGCATTCTCATATGGACGACGAAGAAGATGATGAAGAGTACGAGGATGAAGAAGAATACACTGATGATGAATATTAG
Protein sequence

>MsaT012762.1

MSNRVCKFYARGVCLKGDQCDFSHQRKDTASDICSYYQKGSCAYGSRCRYKHVRASQASSSASMVSDSAAPVARSAKVASNWVPKVTKVPSPDKRGVKGLQRKHQDSTDVGESSTGSARPHENLFCKFAAANCPGGCSRIHGNQCLYCRKYCLHPTDKKEKENHLRTCDKKEKYLLALKNSEEIECNVCLERVLSKPKPSECKFGLLPECDHAFCLSCIRNWRSSAPTSAMEIGSNTNTVRTCPVCRKLSYFVIPSGIWFTTKEEKQEIIDNYKANCRLIDCKHFDSGNGNCPFGAICFYKHTVKPGSYTWRHRRPPPQRRQNHFDMHDMLDVLGEVDLSSGEFYSIMRDSDFFEGMDPFEMMALSDSLAGGSGPCLGPFDSDDEDDGFRVSQIAAMQEAMALGMDAFGPDDDDDEEEFNVFRMAAMQEAMVSGIDDFGPDDFHGIDPMDAALISMMMHSHMDDEEDDEEYEDEEEYTDDEY*