AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG002608

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG002608 MtrunA17_Chr1g0176091 88.818 313 30 1 1 308 1 313 0.0 553
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG002608 AT5G06620.1 61.290 279 102 1 30 302 40 318 1.57e-120 350
MsaG002608 AT5G06620.2 52.795 161 70 1 31 185 41 201 3.80e-51 171

Find 108 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
ATCCCAATGCACACATTATA+TGG 0.261658 1:-43755046 MsaT002608.1:CDS
GAACTATTGTTTCAAGGTTT+CGG 0.305204 1:-43753245 MsaT002608.1:CDS
TTATCAAAATCCGTCCAATT+TGG 0.325952 1:+43757552 None:intergenic
AGATGAGAGGTTAGGGAGTC+TGG 0.327883 1:+43757776 None:intergenic
AGGGTGGCAGACGGCGGGTT+CGG 0.353679 1:+43757839 None:intergenic
ACAATGGTACATCGATGTTT+TGG 0.357468 1:-43755465 MsaT002608.1:CDS
AGGTTTAAAATTTCCCTTGC+TGG 0.358994 1:-43756301 MsaT002608.1:CDS
AATCATCTCAGGTGTCAAAT+TGG 0.363128 1:+43756209 None:intergenic
CACCTACCTGACTGCGTTTG+TGG 0.364163 1:+43757733 None:intergenic
CAAGAGTAGCAGACGGGGTG+TGG 0.371551 1:+43757804 None:intergenic
GACGGGGTGTGGGGCGGAAG+GGG 0.373805 1:+43757815 None:intergenic
AAAAGGGAGATGAGAGGTTA+GGG 0.376781 1:+43757769 None:intergenic
CAAAAGGGAGATGAGAGGTT+AGG 0.379381 1:+43757768 None:intergenic
CTGCTATATTGATGCCAGTC+TGG 0.385411 1:-43753285 MsaT002608.1:CDS
AACATCGATGTACCATTGTT+TGG 0.388168 1:+43755469 None:intergenic
GTGGATCTCCGGTATTATAC+TGG 0.392741 1:+43751353 None:intergenic
CGCATTGAGTTGGCTGGTGG+TGG 0.393454 1:-43755419 MsaT002608.1:CDS
GGGTGTGGGGCGGAAGGGGA+AGG 0.399069 1:+43757819 None:intergenic
TTCGATAACGTTTGCGGCAC+CGG 0.402421 1:+43751392 None:intergenic
ATGAGATCGCCGGTAGGGAT+TGG 0.413001 1:+43757870 None:intergenic
TTGGCTTGCATGATCATATC+AGG 0.415237 1:-43756270 MsaT002608.1:CDS
GTGAAGTGGTTTAGTGAAAC+GGG 0.419593 1:+43757983 None:intergenic
TATGTCAAGACTATCACTTC+TGG 0.421083 1:+43756242 None:intergenic
CGGCGAGAACTATTGTTTCA+AGG 0.421958 1:-43753251 MsaT002608.1:CDS
AGGGGAAGGGTGGCAGACGG+CGG 0.431779 1:+43757833 None:intergenic
GTGGGGCGGAAGGGGAAGGG+TGG 0.436664 1:+43757823 None:intergenic
TGAGATCGCCGGTAGGGATT+GGG 0.441194 1:+43757871 None:intergenic
ATCCATATAATGTGTGCATT+GGG 0.443622 1:+43755044 None:intergenic
ACCACAGTCATGATTATAGA+AGG 0.444164 1:+43755313 None:intergenic
AACGTTTGCGGCACCGGCAG+AGG 0.448586 1:+43751398 None:intergenic
CTCACCTCTAAAATCATCTC+AGG 0.450152 1:+43756198 None:intergenic
CAGACGGGGTGTGGGGCGGA+AGG 0.455456 1:+43757813 None:intergenic
AAGAGTAGCAGACGGGGTGT+GGG 0.459751 1:+43757805 None:intergenic
TATCCATATAATGTGTGCAT+TGG 0.459802 1:+43755043 None:intergenic
TCCCTTGCTGGTAAAGCGGT+TGG 0.461639 1:-43756289 MsaT002608.1:CDS
GTGGCAAGGGAGGGAACAAA+AGG 0.469540 1:+43757752 None:intergenic
CCCTTGCCACAAACGCAGTC+AGG 0.470308 1:-43757739 MsaT002608.1:intron
AACTCAACAGCTTCCTCTGC+CGG 0.471954 1:-43751411 MsaT002608.1:CDS
TCAGATTTCGATAACGTTTG+CGG 0.477282 1:+43751386 None:intergenic
CCTGACTGCGTTTGTGGCAA+GGG 0.478899 1:+43757739 None:intergenic
TAATGCAGTGGCAAAATTGA+AGG 0.480874 1:-43755018 MsaT002608.1:CDS
CAATGCATTTCGCATTGAGT+TGG 0.481923 1:-43755429 MsaT002608.1:CDS
AGACGGGGTGTGGGGCGGAA+GGG 0.484220 1:+43757814 None:intergenic
ATTTGTTTCCAGTATAATAC+CGG 0.487137 1:-43751361 MsaT002608.1:CDS
GGGGAAGGGTGGCAGACGGC+GGG 0.487201 1:+43757834 None:intergenic
ATCTCAGGTGTCAAATTGGC+AGG 0.490131 1:+43756213 None:intergenic
GGTGTGGGGCGGAAGGGGAA+GGG 0.499733 1:+43757820 None:intergenic
TGTGAAGTGGTTTAGTGAAA+CGG 0.500644 1:+43757982 None:intergenic
ATCGTCGGCAAGTGGATCTC+CGG 0.502801 1:+43751342 None:intergenic
AATCGGAGGTGGTGAGGTGG+TGG 0.512335 1:+43757941 None:intergenic
GCCCTCCGTGACATTGATGA+AGG 0.515818 1:-43754996 MsaT002608.1:intron
CCGAGCATCACGGTCCAGAC+TGG 0.516174 1:+43753271 None:intergenic
ATGTTGAGATGAGACCAAAT+TGG 0.516313 1:-43757566 MsaT002608.1:CDS
AGAGTAGCAGACGGGGTGTG+GGG 0.520042 1:+43757806 None:intergenic
TGCGAAGACGGCGCGACCTA+CGG 0.522245 1:+43757899 None:intergenic
GATTGGGCGAGTTGCGAAGA+CGG 0.524161 1:+43757887 None:intergenic
GCATTTCGCATTGAGTTGGC+TGG 0.527315 1:-43755425 MsaT002608.1:CDS
ACCTGACTGCGTTTGTGGCA+AGG 0.528948 1:+43757738 None:intergenic
GTAGAAGCTGAAGCTGCTGT+TGG 0.529262 1:-43755359 MsaT002608.1:CDS
CCAGTCTGGACCGTGATGCT+CGG 0.542110 1:-43753271 MsaT002608.1:CDS
GTAGCAGACGGGGTGTGGGG+CGG 0.547318 1:+43757809 None:intergenic
GCGAGGCAAGAGTAGCAGAC+GGG 0.551713 1:+43757798 None:intergenic
GACTGCGTTTGTGGCAAGGG+AGG 0.552126 1:+43757742 None:intergenic
GTGGCAGACGGCGGGTTCGG+CGG 0.556828 1:+43757842 None:intergenic
GGAAGGGGAAGGGTGGCAGA+CGG 0.563765 1:+43757830 None:intergenic
AGAGAGACTCGAATCGGAGG+TGG 0.568166 1:+43757930 None:intergenic
AGACGGCGGGTTCGGCGGTG+TGG 0.568637 1:+43757847 None:intergenic
TGCAATAAATGCCTTTGTGA+AGG 0.569209 1:+43755620 None:intergenic
ATGGATTTGAGTGGATCGAA+TGG 0.570305 1:-43751321 MsaT002608.1:CDS
TCAAATCCATCGTCGGCAAG+TGG 0.570568 1:+43751334 None:intergenic
AGCCAACCGCTTTACCAGCA+AGG 0.574266 1:+43756287 None:intergenic
GGCGGTGTGGATGAGATCGC+CGG 0.575258 1:+43757860 None:intergenic
GCCAACCGCTTTACCAGCAA+GGG 0.575332 1:+43756288 None:intergenic
GGGAACAAAAGGGAGATGAG+AGG 0.577370 1:+43757763 None:intergenic
GACTCGAATCGGAGGTGGTG+AGG 0.579357 1:+43757935 None:intergenic
AAGAGGGGTTCAACTTGCTA+AGG 0.581272 1:-43755647 MsaT002608.1:CDS
GCAACTCGCCCAATCCCTAC+CGG 0.589143 1:-43757879 MsaT002608.1:CDS
GGAGATCCACTTGCCGACGA+TGG 0.590477 1:-43751340 MsaT002608.1:CDS
TCGGTGAGAGAGACTCGAAT+CGG 0.592931 1:+43757924 None:intergenic
GGCGAGGCAAGAGTAGCAGA+CGG 0.594126 1:+43757797 None:intergenic
AATTTCCCTTGCTGGTAAAG+CGG 0.596787 1:-43756293 MsaT002608.1:CDS
TGTGGATGAGATCGCCGGTA+GGG 0.599682 1:+43757865 None:intergenic
CAGTCATGATTATAGAAGGA+AGG 0.603362 1:+43755317 None:intergenic
ACTGCGTTTGTGGCAAGGGA+GGG 0.605495 1:+43757743 None:intergenic
GAGAATGAAAAGATGTGAAG+TGG 0.605679 1:+43757969 None:intergenic
ACCTTCATCAATGTCACGGA+GGG 0.613577 1:+43754995 None:intergenic
TGGCAAGGGAGGGAACAAAA+GGG 0.619033 1:+43757753 None:intergenic
ATAGTTCTCGCCGAGCATCA+CGG 0.623750 1:+43753261 None:intergenic
GACGGCGCGACCTACGGAGT+CGG 0.623769 1:+43757905 None:intergenic
GTGTGGATGAGATCGCCGGT+AGG 0.628025 1:+43757864 None:intergenic
GTGAGAGAGACTCGAATCGG+AGG 0.630122 1:+43757927 None:intergenic
TTGCCGACGATGGATTTGAG+TGG 0.631319 1:-43751330 MsaT002608.1:CDS
TCGAATCGGAGGTGGTGAGG+TGG 0.632428 1:+43757938 None:intergenic
TGAGATGAGACCAAATTGGA+CGG 0.634359 1:-43757562 MsaT002608.1:CDS
TTTCGCATTGAGTTGGCTGG+TGG 0.638184 1:-43755422 MsaT002608.1:CDS
AGAGGTTAGGGAGTCTGGCG+AGG 0.638913 1:+43757781 None:intergenic
ACAAACCTTCATCAATGTCA+CGG 0.645369 1:+43754991 None:intergenic
AACCTCTTTCAAAGGAACCG+AGG 0.646967 1:-43756321 MsaT002608.1:intron
CGAGGCAAGAGTAGCAGACG+GGG 0.650002 1:+43757799 None:intergenic
GTCTCTCTCACCGACTCCGT+AGG 0.654378 1:-43757915 MsaT002608.1:CDS
GATCCACTCAAATCCATCGT+CGG 0.661805 1:+43751327 None:intergenic
GCTAAGGAATGCCTTCACAA+AGG 0.666081 1:-43755631 MsaT002608.1:CDS
TCCTTCTATAATCATGACTG+TGG 0.674418 1:-43755314 MsaT002608.1:intron
AGTGGTTTAGTGAAACGGGA+AGG 0.687792 1:+43757987 None:intergenic
TATATGGATAGATAATGCAG+TGG 0.693112 1:-43755030 MsaT002608.1:CDS
TTGGTCTCATCTCAACATCG+TGG 0.724614 1:+43757571 None:intergenic
AACCTTCATCAATGTCACGG+AGG 0.727757 1:+43754994 None:intergenic
TGAAACGGGAAGGAGCTAAG+CGG 0.750045 1:+43757997 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr1 gene 43751309 43758042 43751309 ID=MsaG002608
Chr1 mRNA 43751309 43758042 43751309 ID=MsaT002608.1;Parent=MsaG002608
Chr1 exon 43751309 43751435 43751309 ID=MsaT002608.1.exon8;Parent=MsaT002608.1
Chr1 CDS 43751309 43751435 43751309 ID=cds.MsaT002608.1;Parent=MsaT002608.1
Chr1 exon 43753224 43753323 43753224 ID=MsaT002608.1.exon7;Parent=MsaT002608.1
Chr1 CDS 43753224 43753323 43753224 ID=cds.MsaT002608.1;Parent=MsaT002608.1
Chr1 exon 43754997 43755068 43754997 ID=MsaT002608.1.exon6;Parent=MsaT002608.1
Chr1 CDS 43754997 43755068 43754997 ID=cds.MsaT002608.1;Parent=MsaT002608.1
Chr1 exon 43755315 43755497 43755315 ID=MsaT002608.1.exon5;Parent=MsaT002608.1
Chr1 CDS 43755315 43755497 43755315 ID=cds.MsaT002608.1;Parent=MsaT002608.1
Chr1 exon 43755604 43755673 43755604 ID=MsaT002608.1.exon4;Parent=MsaT002608.1
Chr1 CDS 43755604 43755673 43755604 ID=cds.MsaT002608.1;Parent=MsaT002608.1
Chr1 exon 43756203 43756329 43756203 ID=MsaT002608.1.exon3;Parent=MsaT002608.1
Chr1 CDS 43756203 43756329 43756203 ID=cds.MsaT002608.1;Parent=MsaT002608.1
Chr1 exon 43757543 43757598 43757543 ID=MsaT002608.1.exon2;Parent=MsaT002608.1
Chr1 CDS 43757543 43757598 43757543 ID=cds.MsaT002608.1;Parent=MsaT002608.1
Chr1 exon 43757740 43758042 43757740 ID=MsaT002608.1.exon1;Parent=MsaT002608.1
Chr1 CDS 43757740 43758042 43757740 ID=cds.MsaT002608.1;Parent=MsaT002608.1
Gene Sequence

>MsaT002608.1

ATGGCAGTGTCACATTCACTTCTCCGCTTAGCTCCTTCCCGTTTCACTAAACCACTTCACATCTTTTCATTCTCATTTTCCACCACCTCACCACCTCCGATTCGAGTCTCTCTCACCGACTCCGTAGGTCGCGCCGTCTTCGCAACTCGCCCAATCCCTACCGGCGATCTCATCCACACCGCCGAACCCGCCGTCTGCCACCCTTCCCCTTCCGCCCCACACCCCGTCTGCTACTCTTGCCTCGCCAGACTCCCTAACCTCTCATCTCCCTTTTGTTCCCTCCCTTGCCACAAACGCAGTCAGGAATACCACGATGTTGAGATGAGACCAAATTGGACGGATTTTGATAATTATTGCCGGAACCGAGGTTTAAAATTTCCCTTGCTGGTAAAGCGGTTGGCTTGCATGATCATATCAGGAGTTGCCAGAAGTGATAGTCTTGACATACTTCAACCTGCCAATTTGACACCTGAGATGATTTTAGAGATGGAAGAGGGGTTCAACTTGCTAAGGAATGCCTTCACAAAGGCATTTATTGCAGATGAACAAATTGCTTTTTTAACCAAACAATGGTACATCGATGTTTTGGCACGAATTCGAATCAATGCATTTCGCATTGAGTTGGCTGGTGGTGGATCATATGAAGATCTTCTTTCTTCAGCATTTGCATCTGTAGAAGCTGAAGCTGCTGTTGGAAATGCTGTCTATATTCTTCCTTCCTTCTATAATCATGACTGTGATCCCAATGCACACATTATATGGATAGATAATGCAGTGGCAAAATTGAAGGCCCTCCGTGACATTGATGAAGGTGAAGAACTCAGAATCTGCTATATTGATGCCAGTCTGGACCGTGATGCTCGGCGAGAACTATTGTTTCAAGGTTTCGGTTTTCAATGCAATTGTAGTAGCAAACTCAACAGCTTCCTCTGCCGGTGCCGCAAACGTTATCGAAATCTGAGCATTTGTTTCCAGTATAATACCGGAGATCCACTTGCCGACGATGGATTTGAGTGGATCGAATGGATCTGTCCATAA
Protein sequence

>MsaT002608.1

MAVSHSLLRLAPSRFTKPLHIFSFSFSTTSPPPIRVSLTDSVGRAVFATRPIPTGDLIHTAEPAVCHPSPSAPHPVCYSCLARLPNLSSPFCSLPCHKRSQEYHDVEMRPNWTDFDNYCRNRGLKFPLLVKRLACMIISGVARSDSLDILQPANLTPEMILEMEEGFNLLRNAFTKAFIADEQIAFLTKQWYIDVLARIRINAFRIELAGGGSYEDLLSSAFASVEAEAAVGNAVYILPSFYNHDCDPNAHIIWIDNAVAKLKALRDIDEGEELRICYIDASLDRDARRELLFQGFGFQCNCSSKLNSFLCRCRKRYRNLSICFQYNTGDPLADDGFEWIEWICP*