AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG031630

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG031630 MtrunA17_Chr5g0438861 67.980 406 54 4 1 350 1 386 2.01e-176 496
MsaG031630 MtrunA17_Chr3g0144301 68.578 436 51 6 1 350 1 436 3.05e-176 498
MsaG031630 MtrunA17_Chr6g0470211 52.752 218 48 5 134 350 1 164 3.56e-48 161
MsaG031630 MtrunA17_Chr6g0470201 55.215 163 19 5 1 129 1 143 1.74e-42 144
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG031630 AT2G33610.1 39.529 382 145 10 51 350 48 425 9.35e-68 220

Find 93 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TTGAAGCTATTACAAATTTC+GGG 0.188443 6:-31177937 MsaT031630.1:CDS
CTTGAAGCTATTACAAATTT+CGG 0.191024 6:-31177938 MsaT031630.1:CDS
GCTACCCAAGATGGTTCTTA+TGG 0.273102 6:-31178440 MsaT031630.1:CDS
GGCTGCTTTCCTTTCTGCTT+TGG 0.311179 6:-31177712 MsaT031630.1:CDS
GCCACCGCAGGCGGTGGTGG+TGG 0.320973 6:+31178510 None:intergenic
TTTGTAAACCCTAGGGTTCT+TGG 0.330782 6:+31178374 None:intergenic
GCTTTCCTTTCTGCTTTGGC+AGG 0.337459 6:-31177708 MsaT031630.1:CDS
CGACGCAGCGTCAAATTCTA+TGG 0.347616 6:-31178173 MsaT031630.1:CDS
TTAAGTTGTGTTCTGGTAAT+GGG 0.349902 6:+31178475 None:intergenic
CCTAGGGTTCTTGGAAGATT+CGG 0.357797 6:+31178383 None:intergenic
TGTTCTGGTAATGGGACTTC+CGG 0.374955 6:+31178483 None:intergenic
ACAAGGATTAAGTTGTGTTC+TGG 0.377857 6:+31178468 None:intergenic
CTAGGGTTCTTGGAAGATTC+GGG 0.380857 6:+31178384 None:intergenic
ATTAAGTTGTGTTCTGGTAA+TGG 0.383408 6:+31178474 None:intergenic
ACCGCCTGCGGTGGCAAAAC+CGG 0.384626 6:-31178502 MsaT031630.1:CDS
CTACCCAAGATGGTTCTTAT+GGG 0.386812 6:-31178439 MsaT031630.1:CDS
TTTACCCAACACAACAGTTC+CGG 0.392028 6:+31177794 None:intergenic
ATTCATGTAAACTATCGAAT+TGG 0.402313 6:-31178043 MsaT031630.1:CDS
TTACAAATTTCGGGGATGAT+TGG 0.415906 6:-31177928 MsaT031630.1:CDS
ATAGAATTTGACGCTGCGTC+GGG 0.418035 6:+31178175 None:intergenic
CCTTTCTGCTTTGGCAGGGA+CGG 0.421374 6:-31177703 MsaT031630.1:CDS
CCACCGCAGGCGGTGGTGGT+GGG 0.429466 6:+31178511 None:intergenic
GAATCCCATAAGAACCATCT+TGG 0.431877 6:+31178435 None:intergenic
TTTGCCACCGCAGGCGGTGG+TGG 0.443841 6:+31178507 None:intergenic
ACGGATTTCGCATTCGTGAA+TGG 0.445293 6:+31178413 None:intergenic
CAAAATTGATAAGCTTGTCC+TGG 0.447091 6:+31177432 None:intergenic
TCTTGCTGCAATGTATTCCT+TGG 0.449690 6:+31177597 None:intergenic
AAGAACCATCTTGGGTAGCT+AGG 0.451973 6:+31178444 None:intergenic
GGAGGCTCTACGGTTCTGTT+TGG 0.454087 6:+31178588 None:intergenic
TTCTATGGAATATCCTTCTC+TGG 0.459353 6:-31178158 MsaT031630.1:CDS
GCGGATTCTCTTAGCTTCAT+TGG 0.459418 6:+31178129 None:intergenic
TGGAAGATTCGGGAATGTTA+CGG 0.464080 6:+31178394 None:intergenic
AGGGTTGCTCATCAAGTTGT+TGG 0.467288 6:-31177902 MsaT031630.1:intron
AATCAACTAGAATTAATTAC+CGG 0.474504 6:-31177626 MsaT031630.1:CDS
TACGGTTCTGTTTGGCGTTG+AGG 0.483424 6:+31178596 None:intergenic
GATTCACATTCAGCATCAAC+AGG 0.484400 6:+31177816 None:intergenic
ATTCTCTTAGCTTCATTGGC+AGG 0.484706 6:+31178133 None:intergenic
TAATATAGAATTCAAGAGAG+TGG 0.496920 6:-31178014 MsaT031630.1:CDS
CCGAATCTTCCAAGAACCCT+AGG 0.500165 6:-31178383 MsaT031630.1:CDS
GGATTGCTAGCATCCGTAAG+AGG 0.501231 6:+31177747 None:intergenic
CATAGAATTTGACGCTGCGT+CGG 0.502974 6:+31178174 None:intergenic
AGTGGAAGGCGGAGGCTCTA+CGG 0.511459 6:+31178578 None:intergenic
CTTTCCTTTCTGCTTTGGCA+GGG 0.515547 6:-31177707 MsaT031630.1:CDS
TGCGATGTTTCGACAGTGGA+AGG 0.517386 6:+31178564 None:intergenic
TTGCACGTAATAGAGATCCT+TGG 0.518482 6:+31177532 None:intergenic
AATGTGTCTCACACCTCTTA+CGG 0.519872 6:-31177760 MsaT031630.1:CDS
GTTGATGCTGAATGTGAATC+CGG 0.520833 6:-31177813 MsaT031630.1:CDS
AAAGCAGCCTGAGCCATGAC+AGG 0.529355 6:+31177726 None:intergenic
GGCTTCAACTGATCGCCAAA+AGG 0.531669 6:+31177840 None:intergenic
TAGCAATCCTGTCATGGCTC+AGG 0.532001 6:-31177733 MsaT031630.1:CDS
AATCCCATAAGAACCATCTT+GGG 0.532637 6:+31178436 None:intergenic
TCCTAGTCGGTGATGTTGGT+TGG 0.533574 6:-31178275 MsaT031630.1:intron
CCCACCACCACCGCCTGCGG+TGG 0.542756 6:-31178511 MsaT031630.1:CDS
TTAATTACCGGTCATTTCCA+AGG 0.542958 6:-31177614 MsaT031630.1:CDS
ATTTCGGGGATGATTGGAAG+AGG 0.548838 6:-31177922 MsaT031630.1:CDS
AGCAAGCCATGCAGCCACTG+CGG 0.548843 6:+31178110 None:intergenic
TGCAAATTTACAGCTTGTGA+AGG 0.548868 6:-31177514 MsaT031630.1:CDS
AAAATTGATAAGCTTGTCCT+GGG 0.550015 6:+31177433 None:intergenic
TTCTGCTTTGGCAGGGACGG+AGG 0.550159 6:-31177700 MsaT031630.1:CDS
TGCATGGCTTGCTTTGCCTG+TGG 0.553428 6:-31178100 MsaT031630.1:CDS
CGTCATATTATTCTTACCAC+AGG 0.553446 6:+31178084 None:intergenic
GATGCTTCTGTTGCATGCGA+TGG 0.554502 6:-31177576 MsaT031630.1:CDS
GAACCCACCACCACCGCCTG+CGG 0.555096 6:-31178514 MsaT031630.1:CDS
CGAATCTTCCAAGAACCCTA+GGG 0.558609 6:-31178382 MsaT031630.1:intron
ATGTATTCCTTGGAAATGAC+CGG 0.559908 6:+31177607 None:intergenic
CCGTCCCTGCCAAAGCAGAA+AGG 0.564962 6:+31177703 None:intergenic
TTGTCCCTAGCTACCCAAGA+TGG 0.567285 6:-31178449 MsaT031630.1:CDS
AGAACCATCTTGGGTAGCTA+GGG 0.568935 6:+31178445 None:intergenic
TCATTGGCAGGCACCAGAGA+AGG 0.569553 6:+31178145 None:intergenic
GAGAATCCGCAGTGGCTGCA+TGG 0.573168 6:-31178116 MsaT031630.1:CDS
AAAATCCTAGTCGGTGATGT+TGG 0.574109 6:-31178279 MsaT031630.1:CDS
GGATGCTAGCAATCCTGTCA+TGG 0.578768 6:-31177739 MsaT031630.1:CDS
GGTGGTGGTGGGTTCAAGAG+AGG 0.586435 6:+31178522 None:intergenic
AATGCTTCAGATTCTATCCA+AGG 0.586687 6:-31177549 MsaT031630.1:CDS
CAAGAGAGTGGAGATAAGTG+AGG 0.590112 6:-31178002 MsaT031630.1:CDS
GTTTCGACAGTGGAAGGCGG+AGG 0.595831 6:+31178570 None:intergenic
TGAATCCGGAACTGTTGTGT+TGG 0.603068 6:-31177799 MsaT031630.1:CDS
GTTCAGATGAAAATAATCCC+AGG 0.603397 6:-31177450 MsaT031630.1:CDS
GAATCCGGAACTGTTGTGTT+GGG 0.603804 6:-31177798 MsaT031630.1:CDS
GCTTCTGTTGCATGCGATGG+TGG 0.606537 6:-31177573 MsaT031630.1:CDS
TTTCGGGGATGATTGGAAGA+GGG 0.613337 6:-31177921 MsaT031630.1:CDS
AAGAGAGGCAGAGTAGTAGT+CGG 0.617112 6:+31178537 None:intergenic
TGAAGCTATTACAAATTTCG+GGG 0.621595 6:-31177936 MsaT031630.1:CDS
AGGTTGCGATGTTTCGACAG+TGG 0.623098 6:+31178560 None:intergenic
ACCAACCAACATCACCGACT+AGG 0.625909 6:+31178274 None:intergenic
AGAGGCAGAGTAGTAGTCGG+AGG 0.636144 6:+31178540 None:intergenic
AATGTTCGCAAAATCCTAGT+CGG 0.657776 6:-31178288 MsaT031630.1:CDS
TCACATTCAGCATCAACAGG+AGG 0.659217 6:+31177819 None:intergenic
ATCTTGGGTAGCTAGGGACA+AGG 0.662474 6:+31178451 None:intergenic
ATAATATGACGTTGTGTGCG+AGG 0.667737 6:-31178072 MsaT031630.1:CDS
GATGTTTCGACAGTGGAAGG+CGG 0.671742 6:+31178567 None:intergenic
TGTGAAGGAAGAATCAGACG+TGG 0.720151 6:-31177499 MsaT031630.1:CDS
GAAGCTAAGAGAATCCGCAG+TGG 0.777494 6:-31178124 MsaT031630.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr6 gene 31177431 31178625 31177431 ID=MsaG031630
Chr6 mRNA 31177431 31178625 31177431 ID=MsaT031630.1;Parent=MsaG031630
Chr6 exon 31177431 31177867 31177431 ID=MsaT031630.1.exon4;Parent=MsaT031630.1
Chr6 CDS 31177431 31177867 31177431 ID=cds.MsaT031630.1;Parent=MsaT031630.1
Chr6 exon 31177903 31178201 31177903 ID=MsaT031630.1.exon3;Parent=MsaT031630.1
Chr6 CDS 31177903 31178201 31177903 ID=cds.MsaT031630.1;Parent=MsaT031630.1
Chr6 exon 31178276 31178349 31178276 ID=MsaT031630.1.exon2;Parent=MsaT031630.1
Chr6 CDS 31178276 31178349 31178276 ID=cds.MsaT031630.1;Parent=MsaT031630.1
Chr6 exon 31178383 31178625 31178383 ID=MsaT031630.1.exon1;Parent=MsaT031630.1
Chr6 CDS 31178383 31178625 31178383 ID=cds.MsaT031630.1;Parent=MsaT031630.1
Gene Sequence

>MsaT031630.1

ATGGCGACCTCAACGCCAAACAGAACCGTAGAGCCTCCGCCTTCCACTGTCGAAACATCGCAACCTCCGACTACTACTCTGCCTCTCTTGAACCCACCACCACCGCCTGCGGTGGCAAAACCGGAAGTCCCATTACCAGAACACAACTTAATCCTTGTCCCTAGCTACCCAAGATGGTTCTTATGGGATTCCATTCACGAATGCGAAATCCGTAACATTCCCGAATCTTCCAAGAACCCTAGGTTTTTCAGATTCAATCCCAACAGAAAAATCACATTCACCAATGTTCGCAAAATCCTAGTCGGTGATGTTGGTTGTAAACCCGACGCAGCGTCAAATTCTATGGAATATCCTTCTCTGGTGCCTGCCAATGAAGCTAAGAGAATCCGCAGTGGCTGCATGGCTTGCTTTGCCTGTGGTAAGAATAATATGACGTTGTGTGCGAGGTGTTTTATTCATGTAAACTATCGAATTGGTATGAGTAATATAGAATTCAAGAGAGTGGAGATAAGTGAGGAGACAAAAAATGAATGGACTGAGGAGGAAACACTGAATCTTCTTGAAGCTATTACAAATTTCGGGGATGATTGGAAGAGGGTTGCTCATCAAGTTGTTGAGCTTCCTTTTGGCGATCAGTTGAAGCCTCCTGTTGATGCTGAATGTGAATCCGGAACTGTTGTGTTGGGTAAATCTAGTAAGAGAATGTGTCTCACACCTCTTACGGATGCTAGCAATCCTGTCATGGCTCAGGCTGCTTTCCTTTCTGCTTTGGCAGGGACGGAGGTTGCACAAGCTGCAGCTCAAGCTGCTCTGACAAATTTGTGCAATGTTTACAAATCAACTAGAATTAATTACCGGTCATTTCCAAGGAATACATTGCAGCAAGATGCTTCTGTTGCATGCGATGGTGGTAATGCTTCAGATTCTATCCAAGGATCTCTATTACGTGCAAATTTACAGCTTGTGAAGGAAGAATCAGACGTGGAAAAAGCTATTTCTGAGGTTATAGAAGTTCAGATGAAAATAATCCCAGGACAAGCTTATCAATTTTGA
Protein sequence

>MsaT031630.1

MATSTPNRTVEPPPSTVETSQPPTTTLPLLNPPPPPAVAKPEVPLPEHNLILVPSYPRWFLWDSIHECEIRNIPESSKNPRFFRFNPNRKITFTNVRKILVGDVGCKPDAASNSMEYPSLVPANEAKRIRSGCMACFACGKNNMTLCARCFIHVNYRIGMSNIEFKRVEISEETKNEWTEEETLNLLEAITNFGDDWKRVAHQVVELPFGDQLKPPVDAECESGTVVLGKSSKRMCLTPLTDASNPVMAQAAFLSALAGTEVAQAAAQAALTNLCNVYKSTRINYRSFPRNTLQQDASVACDGGNASDSIQGSLLRANLQLVKEESDVEKAISEVIEVQMKIIPGQAYQF*