AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG003026

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG003026 MtrunA17_Chr1g0181781 99.723 361 0 1 1 360 1 361 0.0 732
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG003026 AT2G20280.1 72.776 371 88 6 1 360 1 369 3.71e-160 453

Find 74 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CAGCTCCTGGCTCCTTAATT+TGG 0.131430 1:-50742351 None:intergenic
TTCAACAACCTTCTGCTTCT+TGG 0.227516 1:-50737924 None:intergenic
ATCTTGTTTGGGATCAGTTC+TGG 0.235684 1:-50738029 None:intergenic
TAATACCTTTGCATCTTGTT+TGG 0.261505 1:-50738041 None:intergenic
TGCCTGTTGGGCAGCCAAAC+TGG 0.270781 1:-50739882 None:intergenic
CTTAATTTGGATTGATGTCT+TGG 0.282985 1:-50742338 None:intergenic
ACCACCTGTTGCTGAGGTGC+TGG 0.284681 1:-50742230 None:intergenic
CAAGACATCAATCCAAATTA+AGG 0.287429 1:+50742339 MsaT003026.1:CDS
CATCAGGTTCTGGTTCTCTT+TGG 0.299666 1:-50740199 None:intergenic
TGTTCAGTTTCATCAGGTTC+TGG 0.302433 1:-50740209 None:intergenic
GGAAGCAATATGGTTGGTTT+TGG 0.321181 1:+50739558 MsaT003026.1:CDS
CCAAATGAAGGCTTTGTTAG+AGG 0.323021 1:+50739649 MsaT003026.1:CDS
CCTCTAACAAAGCCTTCATT+TGG 0.329335 1:-50739649 None:intergenic
AATACCTTTGCATCTTGTTT+GGG 0.345954 1:-50738040 None:intergenic
ATACAATTCTTACCACCATT+TGG 0.368919 1:-50739587 None:intergenic
TGCCAGTTTGGCTGCCCAAC+AGG 0.370933 1:+50739880 MsaT003026.1:CDS
TAGAACAACTCAGTAGTTAT+AGG 0.372615 1:-50739824 None:intergenic
TGGATCCATCTTCAGGGGAC+TGG 0.376448 1:+50742187 MsaT003026.1:intron
CTTAGCCCTCTCTGCCTGTT+GGG 0.378571 1:-50739894 None:intergenic
ACTGGGAGTGCTGCTAATAA+TGG 0.388945 1:+50742205 MsaT003026.1:CDS
TGATTACCAGGTGGGACTTT+AGG 0.393605 1:-50738731 None:intergenic
GTCCAATGCTAGCTTGTTTG+TGG 0.394012 1:+50740151 MsaT003026.1:CDS
TGACGACGACGATGATGAAT+TGG 0.394183 1:+50742279 MsaT003026.1:CDS
GGATCCATCTTCAGGGGACT+GGG 0.402542 1:+50742188 MsaT003026.1:intron
TCTTGTTTGGGATCAGTTCT+GGG 0.403135 1:-50738028 None:intergenic
CTCTAACAAAGCCTTCATTT+GGG 0.418201 1:-50739648 None:intergenic
TCTTAGCCCTCTCTGCCTGT+TGG 0.422157 1:-50739895 None:intergenic
GGACGAGAGAGATGCCAGTT+TGG 0.425678 1:+50739868 MsaT003026.1:CDS
GTTGTTGAAGACAAAACTTT+CGG 0.429860 1:+50737938 MsaT003026.1:CDS
ACATTCTGTTCAGTTTCATC+AGG 0.434153 1:-50740215 None:intergenic
CCACCTGTTGCTGAGGTGCT+GGG 0.434200 1:-50742229 None:intergenic
CAAGATTAAGCTTCAGCTCC+TGG 0.436775 1:-50742364 None:intergenic
ATTTGAATGTTCAGAGGAAA+GGG 0.439404 1:+50739106 MsaT003026.1:CDS
GGTCCCAGCACCTCAGCAAC+AGG 0.448016 1:+50742226 MsaT003026.1:CDS
ATCGTCGTCGTCAATGTCAT+CGG 0.466901 1:-50742269 None:intergenic
CGACGATGATGAATTGGACT+TGG 0.483319 1:+50742285 MsaT003026.1:CDS
CTACTGAGTTGTTCTATCAA+TGG 0.484577 1:+50739831 MsaT003026.1:CDS
CTTGGACGAGTTGAATGAAC+TGG 0.496577 1:+50742303 MsaT003026.1:CDS
TGAGGAGGAGATTGAAAAGC+AGG 0.498835 1:+50739694 MsaT003026.1:CDS
TAAAGTGGGTCAGTGTGCTA+AGG 0.499067 1:+50739059 MsaT003026.1:CDS
GGGCTAAGAATGACCGTATG+AGG 0.510546 1:+50739909 MsaT003026.1:CDS
GCGGTAGAGAGGAAGCAATA+TGG 0.516289 1:+50739548 MsaT003026.1:CDS
AAAGTGGGTCAGTGTGCTAA+GGG 0.517849 1:+50739060 MsaT003026.1:CDS
TGTTCTAAAATCCCAAATGA+AGG 0.519608 1:+50739637 MsaT003026.1:CDS
TCGTCGTCGTCAATGTCATC+GGG 0.524494 1:-50742268 None:intergenic
GGCTGCCCAACAGGCAGAGA+GGG 0.524561 1:+50739889 MsaT003026.1:CDS
AACTCGCATAATACAGACTT+GGG 0.525016 1:-50739033 None:intergenic
GATTTGAATGTTCAGAGGAA+AGG 0.525852 1:+50739105 MsaT003026.1:CDS
TCAAGAGACATTGGAGAAAG+TGG 0.526557 1:+50739271 MsaT003026.1:CDS
CTCATGATTTGAATGTTCAG+AGG 0.535502 1:+50739100 MsaT003026.1:CDS
TCAATCCAAATTAAGGAGCC+AGG 0.536632 1:+50742346 MsaT003026.1:CDS
ATAAACCATACAATATCTGT+TGG 0.539296 1:-50739329 None:intergenic
GATAATGAACATACCTCATA+CGG 0.540126 1:-50739922 None:intergenic
TATAGACATGCACTTCCACC+TGG 0.544388 1:+50739611 MsaT003026.1:CDS
ATCCACAAACAAGCTAGCAT+TGG 0.551369 1:-50740153 None:intergenic
GGAAGAGAAGGCAAAAGAGA+AGG 0.553385 1:+50738673 MsaT003026.1:CDS
ATCTGATAAAATGCCAATTG+AGG 0.553676 1:+50739676 MsaT003026.1:CDS
TGTTAGATACAATGGAAGAG+TGG 0.555431 1:+50739246 MsaT003026.1:intron
GTTAGATACAATGGAAGAGT+GGG 0.563771 1:+50739247 MsaT003026.1:intron
AAACTCGCATAATACAGACT+TGG 0.566958 1:-50739034 None:intergenic
GTCTGCACCACCTGTTGCTG+AGG 0.573436 1:-50742236 None:intergenic
GGGATCAGTTCTGGGTTGAA+CGG 0.573794 1:-50738020 None:intergenic
AGAGTGGGATCAAGAGACAT+TGG 0.578286 1:+50739262 MsaT003026.1:CDS
TGATCCCAAACAAGATGCAA+AGG 0.595324 1:+50738036 MsaT003026.1:CDS
TAGAGAGGAAGCAATATGGT+TGG 0.597838 1:+50739552 MsaT003026.1:CDS
CAATTAAATGATTACCAGGT+GGG 0.603634 1:-50738739 None:intergenic
TGATAAAATGCCAATTGAGG+AGG 0.604474 1:+50739679 MsaT003026.1:CDS
TTTGAATGTTCAGAGGAAAG+GGG 0.609926 1:+50739107 MsaT003026.1:CDS
CCCAGCACCTCAGCAACAGG+TGG 0.619651 1:+50742229 MsaT003026.1:CDS
TGATGTAGCCAAGAAGCAGA+AGG 0.627538 1:+50737916 MsaT003026.1:CDS
AGAGACATTGGAGAAAGTGG+TGG 0.637831 1:+50739274 MsaT003026.1:CDS
TACAGTGATAAGCGTGACGA+TGG 0.639061 1:+50739144 MsaT003026.1:CDS
TGGCTGCCCAACAGGCAGAG+AGG 0.639365 1:+50739888 MsaT003026.1:CDS
AGTCAGCCTAAAGTCCCACC+TGG 0.657066 1:+50738725 MsaT003026.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr1 gene 50737893 50742381 50737893 ID=MsaG003026
Chr1 mRNA 50737893 50742381 50737893 ID=MsaT003026.1;Parent=MsaG003026
Chr1 exon 50737893 50738057 50737893 ID=MsaT003026.1.exon1;Parent=MsaT003026.1
Chr1 CDS 50737893 50738057 50737893 ID=cds.MsaT003026.1;Parent=MsaT003026.1
Chr1 exon 50738662 50738746 50738662 ID=MsaT003026.1.exon2;Parent=MsaT003026.1
Chr1 CDS 50738662 50738746 50738662 ID=cds.MsaT003026.1;Parent=MsaT003026.1
Chr1 exon 50739025 50739165 50739025 ID=MsaT003026.1.exon3;Parent=MsaT003026.1
Chr1 CDS 50739025 50739165 50739025 ID=cds.MsaT003026.1;Parent=MsaT003026.1
Chr1 exon 50739252 50739340 50739252 ID=MsaT003026.1.exon4;Parent=MsaT003026.1
Chr1 CDS 50739252 50739340 50739252 ID=cds.MsaT003026.1;Parent=MsaT003026.1
Chr1 exon 50739527 50739715 50739527 ID=MsaT003026.1.exon5;Parent=MsaT003026.1
Chr1 CDS 50739527 50739715 50739527 ID=cds.MsaT003026.1;Parent=MsaT003026.1
Chr1 exon 50739800 50739930 50739800 ID=MsaT003026.1.exon6;Parent=MsaT003026.1
Chr1 CDS 50739800 50739930 50739800 ID=cds.MsaT003026.1;Parent=MsaT003026.1
Chr1 exon 50740133 50740235 50740133 ID=MsaT003026.1.exon7;Parent=MsaT003026.1
Chr1 CDS 50740133 50740235 50740133 ID=cds.MsaT003026.1;Parent=MsaT003026.1
Chr1 exon 50742202 50742381 50742202 ID=MsaT003026.1.exon8;Parent=MsaT003026.1
Chr1 CDS 50742202 50742381 50742202 ID=cds.MsaT003026.1;Parent=MsaT003026.1
Gene Sequence

>MsaT003026.1

ATGCCTCCGAAGCAATCAAAAGCTGATGTAGCCAAGAAGCAGAAGGTTGTTGAAGACAAAACTTTCGGTCTCAAAAACAAAAACAAAAGCAAAGCTGTTCAGAAATATGTTCAGAATCTCAAATCTTCCGTTCAACCCAGAACTGATCCCAAACAAGATGCAAAGAAAAAGAAGGAGGAAGAGAAGGCAAAAGAGAAGGAGCTGAATGATTTGTTCAAGATTGCTGTTAGTCAGCCTAAAGTCCCACCTGGTGTTGATCCCAAGTCTGTATTATGCGAGTTTTTTAAAGTGGGTCAGTGTGCTAAGGGATTCAAATGCAAATTCTCTCATGATTTGAATGTTCAGAGGAAAGGGGAGAAGATTGACATATACAGTGATAAGCGTGACGATGATACAATGGAAGAGTGGGATCAAGAGACATTGGAGAAAGTGGTGGAGTCGAAGAAAAATGAGTATAATCAGAACAAACCAACAGATATTGTATGCAAACACTTTTTGGATGCGGTAGAGAGGAAGCAATATGGTTGGTTTTGGTCATGTCCAAATGGTGGTAAGAATTGTATCTATAGACATGCACTTCCACCTGGATATGTTCTAAAATCCCAAATGAAGGCTTTGTTAGAGGAAGAATCTGATAAAATGCCAATTGAGGAGGAGATTGAAAAGCAGCGTTCCCAAGTGAAAACTACAACTCCTATAACTACTGAGTTGTTCTATCAATGGAAGAAGAAAAAAATGGACGAGAGAGATGCCAGTTTGGCTGCCCAACAGGCAGAGAGGGCTAAGAATGACCGTATGAGTGGTCGTGAGCTGTTTTTGTCCAATGCTAGCTTGTTTGTGGATGATGCTGAAGCATATGACAACTACCAAAGAGAACCAGAACCTGATGAAACTGAACAGAATGGGACTGGGAGTGCTGCTAATAATGGTCCCAGCACCTCAGCAACAGGTGGTGCAGACGATGAACTTCCCGATGACATTGACGACGACGATGATGAATTGGACTTGGACGAGTTGAATGAACTGGAAGCAAGTTTAGCCAAGACATCAATCCAAATTAAGGAGCCAGGAGCTGAAGCTTAA
Protein sequence

>MsaT003026.1

MPPKQSKADVAKKQKVVEDKTFGLKNKNKSKAVQKYVQNLKSSVQPRTDPKQDAKKKKEEEKAKEKELNDLFKIAVSQPKVPPGVDPKSVLCEFFKVGQCAKGFKCKFSHDLNVQRKGEKIDIYSDKRDDDTMEEWDQETLEKVVESKKNEYNQNKPTDIVCKHFLDAVERKQYGWFWSCPNGGKNCIYRHALPPGYVLKSQMKALLEEESDKMPIEEEIEKQRSQVKTTTPITTELFYQWKKKKMDERDASLAAQQAERAKNDRMSGRELFLSNASLFVDDAEAYDNYQREPEPDETEQNGTGSAANNGPSTSATGGADDELPDDIDDDDDELDLDELNELEASLAKTSIQIKEPGAEA*