AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG020167

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG020167 MtrunA17_Chr4g0024081 95.624 457 18 2 18 474 42 496 0.0 889
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG020167 AT3G21810.1 37.671 292 167 4 41 317 7 298 1.26e-45 165
MsaG020167 AT3G21810.2 36.709 237 147 1 84 317 38 274 2.68e-32 127

Find 103 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TCCAATCACCAAACATAATT+TGG 0.129454 4:+46294863 MsaT020167.1:CDS
GCGGATCTCCTTGCAGAAAA+AGG 0.236552 4:+46294895 MsaT020167.1:CDS
GTTCCTGAATTCTAGAATTA+AGG 0.245226 4:-46294346 None:intergenic
TAGCCTTAATTCTAGAATTC+AGG 0.264978 4:+46294343 MsaT020167.1:CDS
TCGAATGCACAATCAGAAAT+TGG 0.265489 4:+46294570 MsaT020167.1:CDS
TTCTCAGACATTTCTAGAAT+TGG 0.297684 4:+46294780 MsaT020167.1:CDS
TTCTGAATGAATGTTGTTAG+AGG 0.301622 4:-46295772 None:intergenic
TGATAATGGAATGGCATTAC+AGG 0.320982 4:+46296135 MsaT020167.1:CDS
AAGAGGATGGGGAGTATAAA+AGG 0.327357 4:+46294387 MsaT020167.1:CDS
GATACTTCAATTCCATTGTC+AGG 0.329281 4:-46295702 None:intergenic
TTGCTGCGGGGAATCAAATC+TGG 0.330633 4:-46296184 None:intergenic
GCAGGAAAGAGAGACTATTT+AGG 0.365279 4:+46291218 MsaT020167.1:intron
TAGAAATACTCTTGAGGATC+AGG 0.371223 4:+46292827 MsaT020167.1:CDS
TGAAAATTCACCATTATAGT+TGG 0.375369 4:-46288850 None:intergenic
GAAAACACAAGAAAGGAATA+TGG 0.376155 4:+46295745 MsaT020167.1:CDS
GGTTGACGGCACTTCAATCC+TGG 0.385159 4:-46296026 None:intergenic
TCAAGGACAGAAAATGATAA+TGG 0.388686 4:+46296121 MsaT020167.1:CDS
TCCAAATTATGTTTGGTGAT+TGG 0.421141 4:-46294864 None:intergenic
CAGAAGACATAGGAGAAAAC+AGG 0.454769 4:+46292710 MsaT020167.1:CDS
GACAAAACTAACCGATAGTT+GGG 0.456546 4:-46292996 None:intergenic
GTTCTGTTCCAAATTATGTT+TGG 0.459172 4:-46294871 None:intergenic
CATGTGCAAAAGAACAGTTC+TGG 0.459711 4:-46288800 None:intergenic
TCTCGAGCCGGTGAATATCT+TGG 0.463968 4:-46291287 None:intergenic
AAACGTGCATGCAGGGCATT+CGG 0.468056 4:+46295602 MsaT020167.1:intron
TTTAGGTAATAATGACTTGA+GGG 0.469756 4:+46291235 MsaT020167.1:CDS
AGACAAAACTAACCGATAGT+TGG 0.470883 4:-46292997 None:intergenic
ACAATGGAATTGAAGTATCT+AGG 0.472542 4:+46295706 MsaT020167.1:CDS
GTAAGCAATGGTGAGAATAC+TGG 0.475904 4:+46294834 MsaT020167.1:CDS
CGACCTCTTGCCTCTCGAGC+CGG 0.496526 4:-46291299 None:intergenic
ACAACACGCTCGTCGCAACT+TGG 0.497641 4:+46288677 MsaT020167.1:CDS
TGCTGCGGGGAATCAAATCT+GGG 0.499304 4:-46296183 None:intergenic
TTCTAGAATTCAGGAACTTG+AGG 0.500849 4:+46294352 MsaT020167.1:CDS
TAACAACATTCATTCAGAAA+AGG 0.504454 4:+46295776 MsaT020167.1:CDS
TTGTTCTGTATGCAGATCAC+AGG 0.506871 4:+46294728 MsaT020167.1:intron
AACTTTCAGAAATATCACTT+TGG 0.509116 4:-46292743 None:intergenic
CAGGTCCGACTTCAAAGGTT+CGG 0.509285 4:+46294747 MsaT020167.1:CDS
ACTTCAATCCTGGATTCCTT+CGG 0.509539 4:-46296016 None:intergenic
TCCCCGCAGCAATTATTCAC+AGG 0.509785 4:+46296195 MsaT020167.1:CDS
AGCGTTGATATTGTAAGCAA+TGG 0.513750 4:+46294822 MsaT020167.1:CDS
CTGATACTAATGAAACTTCA+AGG 0.514385 4:+46296104 MsaT020167.1:CDS
AAATTATGTTTGGTGATTGG+AGG 0.521526 4:-46294861 None:intergenic
AACCTGTGAATAATTGCTGC+GGG 0.525149 4:-46296197 None:intergenic
GTTGATATTGAGCATGATAA+CGG 0.525710 4:+46296079 MsaT020167.1:CDS
ACATACAGCCGAAGGAATCC+AGG 0.526971 4:+46296008 MsaT020167.1:intron
TCTAGGCACCAAGACCTTGA+AGG 0.527434 4:+46295723 MsaT020167.1:CDS
CTCAGTTAAACAAAGAGGAT+GGG 0.527683 4:+46294375 MsaT020167.1:CDS
ATCACCTCCAAGATATTCAC+CGG 0.528176 4:+46291280 MsaT020167.1:CDS
TGGAATGGCATTACAGGTGA+AGG 0.528941 4:+46296141 MsaT020167.1:CDS
TTCTAGAATTGGTGCTGATG+AGG 0.537743 4:+46294791 MsaT020167.1:CDS
TGAGGTCTCCAGAGAAAAGA+AGG 0.539215 4:+46291762 MsaT020167.1:CDS
GCTCAGTTAAACAAAGAGGA+TGG 0.540853 4:+46294374 MsaT020167.1:CDS
ATACTTCAATTCCATTGTCA+GGG 0.542298 4:-46295701 None:intergenic
TTATGTGCGCTTTATCAGAA+TGG 0.542420 4:+46288765 MsaT020167.1:CDS
CTTGAAGGAAAACACAAGAA+AGG 0.547931 4:+46295738 MsaT020167.1:CDS
AAGAGTATTTCTAGAACCAA+AGG 0.550868 4:-46292817 None:intergenic
AGAGGTCGGCAGACCATTCG+CGG 0.553269 4:+46291314 MsaT020167.1:CDS
CTTCTTGAACACTCTCATCC+AGG 0.556266 4:-46294316 None:intergenic
ATCTTGTGTCTAACCGCGAA+TGG 0.556846 4:-46291327 None:intergenic
CGAGCCGGTGAATATCTTGG+AGG 0.558434 4:-46291284 None:intergenic
GACAGAAAATGATAATGGAA+TGG 0.562419 4:+46296126 MsaT020167.1:CDS
TCAACTTTGAACAATTCGAT+CGG 0.563735 4:-46288707 None:intergenic
GATCACAGGTCCGACTTCAA+AGG 0.566508 4:+46294742 MsaT020167.1:intron
AAGATATTCACCGGCTCGAG+AGG 0.567135 4:+46291289 MsaT020167.1:CDS
TGTGAAGAGGCCCCTGACAA+TGG 0.567240 4:+46295690 MsaT020167.1:CDS
AGCAGCAACCCATGTGGACA+TGG 0.568203 4:+46296363 MsaT020167.1:CDS
TAACTTAATGTGCAGTATGA+GGG 0.569651 4:+46296295 MsaT020167.1:intron
GACAACATGAGCTGCCATGC+TGG 0.571700 4:-46296047 None:intergenic
TGGTTCTAGAAATACTCTTG+AGG 0.579358 4:+46292821 MsaT020167.1:CDS
TCGGTTGAAACAGCAAGAAG+TGG 0.579611 4:+46295621 MsaT020167.1:CDS
GGATGAGAGTGTTCAAGAAG+TGG 0.580126 4:+46294319 MsaT020167.1:CDS
TCAGTTAAACAAAGAGGATG+GGG 0.582580 4:+46294376 MsaT020167.1:CDS
GAACCGAAAATCCCAACTAT+CGG 0.583849 4:+46292985 MsaT020167.1:CDS
TGAGCTGCCATGCTGGTTGA+CGG 0.590544 4:-46296040 None:intergenic
ATTTAGGTAATAATGACTTG+AGG 0.602441 4:+46291234 MsaT020167.1:CDS
GATCTCCGAACCTTTGAAGT+CGG 0.606184 4:-46294752 None:intergenic
GCATGCAGAACGAGATTCTG+TGG 0.609093 4:+46294920 MsaT020167.1:CDS
CGGTTGAAACAGCAAGAAGT+GGG 0.611761 4:+46295622 MsaT020167.1:CDS
ATAGTTAAACCATGTCCACA+TGG 0.612077 4:-46296372 None:intergenic
AAACAGCAAGAAGTGGGAAG+CGG 0.617248 4:+46295628 MsaT020167.1:CDS
TACTTCAATTCCATTGTCAG+GGG 0.624722 4:-46295700 None:intergenic
GGAATGGCATTACAGGTGAA+GGG 0.625351 4:+46296142 MsaT020167.1:CDS
TGAAGTGCCGTCAACCAGCA+TGG 0.625663 4:+46296033 MsaT020167.1:CDS
GATTGACAAGAGTTGTGAAG+AGG 0.628812 4:+46295677 MsaT020167.1:CDS
CAATCAAGCAGAGCAACTCG+TGG 0.633753 4:+46287852 MsaT020167.1:CDS
GGCAGCTCATGTTGTCGATG+AGG 0.635035 4:+46296054 MsaT020167.1:CDS
TGTGGATGGTCTTGATGAAG+AGG 0.636361 4:+46296336 MsaT020167.1:CDS
TGAGGCTCAGTTAAACAAAG+AGG 0.640733 4:+46294370 MsaT020167.1:CDS
AGTTGCAAGATGAACTGAAG+AGG 0.645881 4:+46294593 MsaT020167.1:CDS
TAACCTGTGAATAATTGCTG+CGG 0.646818 4:-46296198 None:intergenic
AACGAGAATGTGGATGTGGA+TGG 0.650385 4:+46296322 MsaT020167.1:CDS
TCACCGGCTCGAGAGGCAAG+AGG 0.653046 4:+46291296 MsaT020167.1:CDS
TGAGGGATAAACTTGACAGA+AGG 0.656295 4:+46291252 MsaT020167.1:CDS
CGGCTCGAGAGGCAAGAGGT+CGG 0.660465 4:+46291300 MsaT020167.1:CDS
GGCAGCAGCAGCAACCCATG+TGG 0.664361 4:+46296357 MsaT020167.1:CDS
GGTGCAGTGACAGAAGACAT+AGG 0.669837 4:+46292700 MsaT020167.1:intron
TAGTTAAACCATGTCCACAT+GGG 0.673216 4:-46296371 None:intergenic
AGGAGAAAACAGGATATCAG+TGG 0.680364 4:+46292720 MsaT020167.1:CDS
TCAAGCAGAGCAACTCGTGG+AGG 0.683550 4:+46287855 MsaT020167.1:CDS
CATAATTTGGAACAGAACAG+CGG 0.694176 4:+46294876 MsaT020167.1:CDS
ACCTGTGAATAATTGCTGCG+GGG 0.699773 4:-46296196 None:intergenic
GCTGCGGGGAATCAAATCTG+GGG 0.713601 4:-46296182 None:intergenic
TCTGTGGAAGAGTTACAACA+AGG 0.739554 4:+46294936 MsaT020167.1:CDS
TTGCAGAATATAGTCCACTG+AGG 0.772392 4:+46291744 MsaT020167.1:intron

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr4 gene 46287835 46296390 46287835 ID=MsaG020167
Chr4 mRNA 46287835 46296390 46287835 ID=MsaT020167.1;Parent=MsaG020167
Chr4 exon 46287835 46287876 46287835 ID=MsaT020167.1.exon1;Parent=MsaT020167.1
Chr4 CDS 46287835 46287876 46287835 ID=cds.MsaT020167.1;Parent=MsaT020167.1
Chr4 exon 46288675 46288861 46288675 ID=MsaT020167.1.exon2;Parent=MsaT020167.1
Chr4 CDS 46288675 46288861 46288675 ID=cds.MsaT020167.1;Parent=MsaT020167.1
Chr4 exon 46291222 46291335 46291222 ID=MsaT020167.1.exon3;Parent=MsaT020167.1
Chr4 CDS 46291222 46291335 46291222 ID=cds.MsaT020167.1;Parent=MsaT020167.1
Chr4 exon 46291750 46291783 46291750 ID=MsaT020167.1.exon4;Parent=MsaT020167.1
Chr4 CDS 46291750 46291783 46291750 ID=cds.MsaT020167.1;Parent=MsaT020167.1
Chr4 exon 46292707 46292848 46292707 ID=MsaT020167.1.exon5;Parent=MsaT020167.1
Chr4 CDS 46292707 46292848 46292707 ID=cds.MsaT020167.1;Parent=MsaT020167.1
Chr4 exon 46292950 46293006 46292950 ID=MsaT020167.1.exon6;Parent=MsaT020167.1
Chr4 CDS 46292950 46293006 46292950 ID=cds.MsaT020167.1;Parent=MsaT020167.1
Chr4 exon 46294311 46294408 46294311 ID=MsaT020167.1.exon7;Parent=MsaT020167.1
Chr4 CDS 46294311 46294408 46294311 ID=cds.MsaT020167.1;Parent=MsaT020167.1
Chr4 exon 46294543 46294614 46294543 ID=MsaT020167.1.exon8;Parent=MsaT020167.1
Chr4 CDS 46294543 46294614 46294543 ID=cds.MsaT020167.1;Parent=MsaT020167.1
Chr4 exon 46294743 46294957 46294743 ID=MsaT020167.1.exon9;Parent=MsaT020167.1
Chr4 CDS 46294743 46294957 46294743 ID=cds.MsaT020167.1;Parent=MsaT020167.1
Chr4 exon 46295616 46295797 46295616 ID=MsaT020167.1.exon10;Parent=MsaT020167.1
Chr4 CDS 46295616 46295797 46295616 ID=cds.MsaT020167.1;Parent=MsaT020167.1
Chr4 exon 46296016 46296216 46296016 ID=MsaT020167.1.exon11;Parent=MsaT020167.1
Chr4 CDS 46296016 46296216 46296016 ID=cds.MsaT020167.1;Parent=MsaT020167.1
Chr4 exon 46296310 46296390 46296310 ID=MsaT020167.1.exon12;Parent=MsaT020167.1
Chr4 CDS 46296310 46296390 46296310 ID=cds.MsaT020167.1;Parent=MsaT020167.1
Gene Sequence

>MsaT020167.1

ATGGCATTGTCGTGCAACAATCAAGCAGAGCAACTCGTGGAGCAACAACACGCTCGTCGCAACTTGGAAAATCTCCGATCGAATTGTTCAAAGTTGAAGATGTTTGATCAACGAAAGCAGTTCAAGACGAAGTTATGTGCGCTTTATCAGAATGGTCGTTGTAATCGCCAGAACTGTTCTTTTGCACATGGGAATATCGAGCTTCGACGATTTTCTTCCAACTATAATGGAAAGAGAGACTATTTAGGTAATAATGACTTGAGGGATAAACTTGACAGAAGGTATTTATCACCTCCAAGATATTCACCGGCTCGAGAGGCAAGAGGTCGGCAGACCATTCGCGAATATAGTCCACTGAGGTCTCCAGAGAAAAGAAGTGACAGAAGACATAGGAGAAAACAGGATATCAGTGGCCAAAGTGATATTTCTGAAAGTTTAAAAGTCTCTGAGAGAATTAATGATCCAGTTAAAGAAGAAAAAATGATTTCCTTTGGTTCTAGAAATACTCTTGAGGATCAGCTGAAGAAAGTACACTCTGATATCAAAACTCTTGAGAACCGAAAATCCCAACTATCGGTCTGCCTGGATGAGAGTGTTCAAGAAGTGGATAGCCTTAATTCTAGAATTCAGGAACTTGAGGCTCAGTTAAACAAAGAGGATGGGGAGTATAAAAGAATTACTTCAAAAATAAGGAAGTTTGTTCGAATGCACAATCAGAAATTGGAGTTGCAAGATGAACTGAAGAGATCACAGGTCCGACTTCAAAGGTTCGGAGATCAGCTTTTCTCAGACATTTCTAGAATTGGTGCTGATGAGGAAGATTTAAGCGTTGATATTGTAAGCAATGGTGAGAATACTGGTCTTCCTCCAATCACCAAACATAATTTGGAACAGAACAGCGGATCTCCTTGCAGAAAAAGGGTGCATGCAGAACGAGATTCTGTGGAAGAGTTACAACAAGGGCATTCGGTTGAAACAGCAAGAAGTGGGAAGCGGTCTCGATTGAGTTTGTCTGCTCAATCGATTGACAAGAGTTGTGAAGAGGCCCCTGACAATGGAATTGAAGTATCTAGGCACCAAGACCTTGAAGGAAAACACAAGAAAGGAATATGGAATTCCTCTAACAACATTCATTCAGAAAAGCCGAAGGAATCCAGGATTGAAGTGCCGTCAACCAGCATGGCAGCTCATGTTGTCGATGAGGAAGTTGATATTGAGCATGATAACGGAACTGATACTAATGAAACTTCAAGGACAGAAAATGATAATGGAATGGCATTACAGGTGAAGGGCATATCTCTCATGCTTACCCCAGATTTGATTCCCCGCAGCAATTATTCACAGTATGAGGGTAAAAACGAGAATGTGGATGTGGATGGTCTTGATGAAGAGGCAGCAGCAGCAACCCATGTGGACATGGTTTAA
Protein sequence

>MsaT020167.1

MALSCNNQAEQLVEQQHARRNLENLRSNCSKLKMFDQRKQFKTKLCALYQNGRCNRQNCSFAHGNIELRRFSSNYNGKRDYLGNNDLRDKLDRRYLSPPRYSPAREARGRQTIREYSPLRSPEKRSDRRHRRKQDISGQSDISESLKVSERINDPVKEEKMISFGSRNTLEDQLKKVHSDIKTLENRKSQLSVCLDESVQEVDSLNSRIQELEAQLNKEDGEYKRITSKIRKFVRMHNQKLELQDELKRSQVRLQRFGDQLFSDISRIGADEEDLSVDIVSNGENTGLPPITKHNLEQNSGSPCRKRVHAERDSVEELQQGHSVETARSGKRSRLSLSAQSIDKSCEEAPDNGIEVSRHQDLEGKHKKGIWNSSNNIHSEKPKESRIEVPSTSMAAHVVDEEVDIEHDNGTDTNETSRTENDNGMALQVKGISLMLTPDLIPRSNYSQYEGKNENVDVDGLDEEAAAATHVDMV*