AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG033638

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG033638 MtrunA17_Chr1g0188421 45.729 199 80 4 190 361 355 552 1.77e-43 159
MsaG033638 MtrunA17_Chr6g0467621 46.012 163 74 6 1 159 1 153 1.02e-36 132
MsaG033638 MtrunA17_Chr6g0467611 47.333 150 65 6 1 146 1 140 7.30e-34 125
MsaG033638 MtrunA17_Chr6g0467761 46.667 150 66 6 1 146 1 140 8.24e-33 122
MsaG033638 MtrunA17_Chr6g0467771 46.203 158 69 7 1 153 1 147 8.69e-32 120
MsaG033638 MtrunA17_Chr4g0017901 46.296 108 56 1 232 337 561 668 1.44e-23 102
MsaG033638 MtrunA17_Chr6g0467781 44.565 92 48 2 56 146 10 99 1.57e-19 85.1
MsaG033638 MtrunA17_Chr6g0476921 37.405 131 72 4 20 150 19 139 6.11e-18 81.6
MsaG033638 MtrunA17_Chr6g0477281 39.597 149 81 5 1 149 1 140 2.55e-17 79.3
MsaG033638 MtrunA17_Chr5g0434341 43.077 65 37 0 278 342 645 709 2.42e-12 68.6
MsaG033638 MtrunA17_Chr6g0477741 36.601 153 78 8 1 150 1 137 5.20e-11 62.0
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG033638 AT1G33420.1 44.660 103 56 1 232 334 549 650 4.07e-24 104
MsaG033638 AT1G33420.2 44.660 103 56 1 232 334 444 545 4.82e-24 104
MsaG033638 AT2G01810.1 46.154 65 35 0 278 342 626 690 5.45e-15 77.0

Find 73 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
ACCCTTTGTTTCTTCCTCTT+TGG 0.201601 6:+96072728 MsaT033638.1:CDS
GGGAATTGAGAGGTGGATTA+TGG 0.220258 6:+96076745 MsaT033638.1:CDS
TCACCAAGGGCTTCCAGTTT+TGG 0.236302 6:-96073340 None:intergenic
GCTAAAATTTATCCCAAAAC+TGG 0.320097 6:+96073327 MsaT033638.1:CDS
CAGGGTCGTTCCTATTAAAT+AGG 0.335200 6:-96073176 None:intergenic
TGGACACGGAGTGGGGCTTC+TGG 0.336698 6:-96075804 None:intergenic
TTGTAACTGCCAATTGATTT+CGG 0.346579 6:-96076923 None:intergenic
TTTGTAGTTGATGAGCTAAT+TGG 0.359134 6:+96076605 MsaT033638.1:CDS
TAAAATACGACACGCAATTC+AGG 0.366604 6:+96076449 MsaT033638.1:CDS
AACCGAGCCTCCTATTTAAT+AGG 0.371498 6:+96073166 MsaT033638.1:CDS
AACCGATTTGCTAGATTTGT+TGG 0.387701 6:-96076498 None:intergenic
CATCACTTTGTGTAGGAATC+TGG 0.401564 6:-96073219 None:intergenic
GAGCAAGTCTCGAATGGAAT+GGG 0.412298 6:+96076724 MsaT033638.1:CDS
ACACCATGGGTTACTGTTGA+TGG 0.414181 6:+96073472 MsaT033638.1:CDS
GACTTCAAACCGAAATCAAT+TGG 0.420527 6:+96076914 MsaT033638.1:CDS
TCGGTTTGAAGTCAGAGTTT+TGG 0.421070 6:-96076904 None:intergenic
TGACGATGGAGACAGAATAT+TGG 0.426939 6:+96076790 MsaT033638.1:CDS
TTTAGACAAATAAAATGGAT+TGG 0.431301 6:-96076878 None:intergenic
CAAATAAAATGGATTGGAAC+AGG 0.432384 6:-96076872 None:intergenic
ACAGATAAGAAGCTTATAGA+AGG 0.449377 6:+96073511 MsaT033638.1:CDS
AGCTAGTGGTGTAGGCTTCA+TGG 0.450777 6:-96072702 None:intergenic
TCACTATCAGCATGTGTAAA+GGG 0.452305 6:-96072773 None:intergenic
CGCAATTCAGGTGGAACTCA+TGG 0.452574 6:+96076461 MsaT033638.1:CDS
GCTCAGGTTGAGCTCTCGTT+AGG 0.464757 6:+96076653 MsaT033638.1:CDS
AGAATCGTCGAAGTGGGTTA+TGG 0.466816 6:+96073426 MsaT033638.1:CDS
ATCCAACAAATCTAGCAAAT+CGG 0.478957 6:+96076496 MsaT033638.1:CDS
AGTTCTGATCACGTCGGTGA+TGG 0.479098 6:+96073298 MsaT033638.1:CDS
ATCACTATCAGCATGTGTAA+AGG 0.489707 6:-96072774 None:intergenic
AGAACTATGACTGACATTAG+TGG 0.492319 6:+96076950 MsaT033638.1:CDS
ATTCTAACCCGGGACAGAAA+AGG 0.500811 6:-96075882 None:intergenic
AACATAACATATCTGACAGC+AGG 0.512086 6:-96073195 None:intergenic
TGTTGTAGATGATTCTGCTC+AGG 0.516251 6:+96076637 MsaT033638.1:CDS
ATTCTTCACAATGCATTCCT+CGG 0.520609 6:-96076696 None:intergenic
GTCTCCGTGTCTATGACGAT+TGG 0.533049 6:-96073364 None:intergenic
ATCCCAAAACTGGAAGCCCT+TGG 0.533099 6:+96073337 MsaT033638.1:CDS
TGGATTATGGATTGCAGCTG+TGG 0.542634 6:+96076758 MsaT033638.1:CDS
TCAGCATGTGTAAAGGGTGA+TGG 0.543845 6:-96072767 None:intergenic
AAAGGGTGATGGAAAGTAGA+TGG 0.544630 6:-96072756 None:intergenic
TTCCTATTAAATAGGAGGCT+CGG 0.550274 6:-96073168 None:intergenic
TGAATTGAGCAAGTCTCGAA+TGG 0.550812 6:+96076718 MsaT033638.1:CDS
TGAGCAAGTCTCGAATGGAA+TGG 0.559191 6:+96076723 MsaT033638.1:CDS
ATCTGTCATTAGCAAGATCT+CGG 0.559806 6:-96076421 None:intergenic
TTCGACGATTCTGCACACTC+TGG 0.565028 6:-96073415 None:intergenic
GTTGTGAATGTCAAAACATA+TGG 0.571048 6:-96076843 None:intergenic
GGATTGCAGCTGTGGAGCTA+AGG 0.580081 6:+96076766 MsaT033638.1:CDS
AGGGTGATAGCTAGTGGTGT+AGG 0.585092 6:-96072710 None:intergenic
GCCAAAGAGGAAGAAACAAA+GGG 0.593935 6:-96072729 None:intergenic
AATTCACCATCACTTTGTGT+AGG 0.594107 6:-96073226 None:intergenic
AGTAGATGGTGAAGCCAAAG+AGG 0.603644 6:-96072742 None:intergenic
AGAGAAGCAGTTTGTGTCCG+AGG 0.612132 6:+96076679 MsaT033638.1:CDS
AGCCAAAGAGGAAGAAACAA+AGG 0.615814 6:-96072730 None:intergenic
GGTCGTTCCTATTAAATAGG+AGG 0.616370 6:-96073173 None:intergenic
AGTGTGCAGAATCGTCGAAG+TGG 0.617304 6:+96073419 MsaT033638.1:CDS
GTGTGCAGAATCGTCGAAGT+GGG 0.620967 6:+96073420 MsaT033638.1:CDS
TGGAATGGGGAATTGAGAGG+TGG 0.622295 6:+96076738 MsaT033638.1:CDS
AATACGACACGCAATTCAGG+TGG 0.630546 6:+96076452 MsaT033638.1:CDS
CAGATTCCTACACAAAGTGA+TGG 0.632689 6:+96073220 MsaT033638.1:CDS
AAACAAAGGGTGATAGCTAG+TGG 0.638339 6:-96072716 None:intergenic
GTGATAAATGTGGAGTGTGG+CGG 0.639887 6:+96076816 MsaT033638.1:CDS
TGATGATTACTCTACACCAT+GGG 0.644191 6:+96073459 MsaT033638.1:CDS
AGCAAGTCTCGAATGGAATG+GGG 0.649420 6:+96076725 MsaT033638.1:CDS
GAATGGAATGGGGAATTGAG+AGG 0.650795 6:+96076735 MsaT033638.1:CDS
ATGATGATTACTCTACACCA+TGG 0.653780 6:+96073458 MsaT033638.1:CDS
ACATAACATATCTGACAGCA+GGG 0.663902 6:-96073194 None:intergenic
TGATCCAATCGTCATAGACA+CGG 0.685661 6:+96073360 MsaT033638.1:CDS
TATGACGATTGGATCACCAA+GGG 0.685809 6:-96073353 None:intergenic
ATACCATCAACAGTAACCCA+TGG 0.690007 6:-96073475 None:intergenic
CTATGACGATTGGATCACCA+AGG 0.691498 6:-96073354 None:intergenic
TGTGGAGCTAAGGATGACGA+TGG 0.704457 6:+96076776 MsaT033638.1:CDS
CTTGTGATAAATGTGGAGTG+TGG 0.712871 6:+96076813 MsaT033638.1:CDS
TGATAGTGATGATATCGTGA+AGG 0.720094 6:+96072787 MsaT033638.1:CDS
ATATTGGCTTGTGATAAATG+TGG 0.742417 6:+96076806 MsaT033638.1:CDS
CTTCAAAGTTCTGATCACGT+CGG 0.742497 6:+96073292 MsaT033638.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr6 gene 96072704 96077054 96072704 ID=MsaG033638
Chr6 mRNA 96072704 96077054 96072704 ID=MsaT033638.1;Parent=MsaG033638
Chr6 exon 96072704 96072811 96072704 ID=MsaT033638.1.exon1;Parent=MsaT033638.1
Chr6 CDS 96072704 96072811 96072704 ID=cds.MsaT033638.1;Parent=MsaT033638.1
Chr6 exon 96073166 96073532 96073166 ID=MsaT033638.1.exon2;Parent=MsaT033638.1
Chr6 CDS 96073166 96073532 96073166 ID=cds.MsaT033638.1;Parent=MsaT033638.1
Chr6 exon 96075802 96075896 96075802 ID=MsaT033638.1.exon3;Parent=MsaT033638.1
Chr6 CDS 96075802 96075896 96075802 ID=cds.MsaT033638.1;Parent=MsaT033638.1
Chr6 exon 96076402 96076529 96076402 ID=MsaT033638.1.exon4;Parent=MsaT033638.1
Chr6 CDS 96076402 96076529 96076402 ID=cds.MsaT033638.1;Parent=MsaT033638.1
Chr6 exon 96076601 96077054 96076601 ID=MsaT033638.1.exon5;Parent=MsaT033638.1
Chr6 CDS 96076601 96077054 96076601 ID=cds.MsaT033638.1;Parent=MsaT033638.1
Gene Sequence

>MsaT033638.1

ATGAAGCCTACACCACTAGCTATCACCCTTTGTTTCTTCCTCTTTGGCTTCACCATCTACTTTCCATCACCCTTTACACATGCTGATAGTGATGATATCGTGAAGGACAACCGAGCCTCCTATTTAATAGGAACGACCCTGCTGTCAGATATGTTATGTTGCCAGATTCCTACACAAAGTGATGGTGAATTGATGCTTGATAAAACAGAAAAAGCAACATGTAATCTTACTATACTTCAAAGTTCTGATCACGTCGGTGATGGCGTGCCGCTAAAATTTATCCCAAAACTGGAAGCCCTTGGTGATCCAATCGTCATAGACACGGAGACTAATCTAGATATTGTATTTGACAACAAGCCAGAGTGTGCAGAATCGTCGAAGTGGGTTATGGTTGAAGCTGATGATGATTACTCTACACCATGGGTTACTGTTGATGGTATTCAAAATTACTATACAGATAAGAAGCTTATAGAAGTGCCAGAAGCCCCACTCCGTGTCCAGAAAATCATCTCACAACCAGTCTTTTTCGGAACATCAGCTTGTAAATATAAGAGACCTTTTCTGTCCCGGTTAGTAAAAGATTACAGTGCCGAGATCTTGCTAATGACAGATGTGTATAAAATACGACACGCAATTCAGGTGGAACTCATGGACAAATCTGAAAATCCAACAAATCTAGCAAATCGGTTGTCCTACCCAAGATTTGTAGTTGATGAGCTAATTGGCTATAGCAGTGTTGTAGATGATTCTGCTCAGGTTGAGCTCTCGTTAGGATCAGAGAAGCAGTTTGTGTCCGAGGAATGCATTGTGAAGAATGAATTGAGCAAGTCTCGAATGGAATGGGGAATTGAGAGGTGGATTATGGATTGCAGCTGTGGAGCTAAGGATGACGATGGAGACAGAATATTGGCTTGTGATAAATGTGGAGTGTGGCGGCATACCATATGTTTTGACATTCACAACACACAGCCTGTTCCAATCCATTTTATTTGTCTAAAATGCCAAAACTCTGACTTCAAACCGAAATCAATTGGCAGTTACAATTATAGAACTATGACTGACATTAGTGGTAGTAGTAGCAGTTCAATAATTCTAGCATGCACATGTAGAGATATAGTAGCAAATCATGTGCAAATATATGAGAGTACCTAA
Protein sequence

>MsaT033638.1

MKPTPLAITLCFFLFGFTIYFPSPFTHADSDDIVKDNRASYLIGTTLLSDMLCCQIPTQSDGELMLDKTEKATCNLTILQSSDHVGDGVPLKFIPKLEALGDPIVIDTETNLDIVFDNKPECAESSKWVMVEADDDYSTPWVTVDGIQNYYTDKKLIEVPEAPLRVQKIISQPVFFGTSACKYKRPFLSRLVKDYSAEILLMTDVYKIRHAIQVELMDKSENPTNLANRLSYPRFVVDELIGYSSVVDDSAQVELSLGSEKQFVSEECIVKNELSKSRMEWGIERWIMDCSCGAKDDDGDRILACDKCGVWRHTICFDIHNTQPVPIHFICLKCQNSDFKPKSIGSYNYRTMTDISGSSSSSIILACTCRDIVANHVQIYEST*