AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG025493

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG025493 MtrunA17_Chr6g0456861 60.804 199 40 4 20 183 581 776 2.80e-65 213
MsaG025493 MtrunA17_Chr5g0401991 77.966 118 13 1 20 124 104 221 2.26e-60 187
MsaG025493 MtrunA17_Chr5g0438991 60.656 183 35 5 20 167 778 958 2.81e-59 198
MsaG025493 MtrunA17_Chr3g0133461 46.429 252 45 5 20 183 1094 1343 2.18e-55 188
MsaG025493 MtrunA17_Chr3g0138411 44.262 244 54 5 20 183 965 1206 9.46e-50 172
MsaG025493 MtrunA17_Chr6g0456911 81.818 55 10 0 22 76 6 60 2.66e-25 93.2
MsaG025493 MtrunA17_Chr0c02g0489811 80.702 57 11 0 20 76 5 61 3.82e-25 92.8
MsaG025493 MtrunA17_Chr4g0000031 33.333 231 71 7 23 176 1472 1696 9.66e-25 100
MsaG025493 MtrunA17_Chr7g0229221 77.193 57 13 0 20 76 5 61 1.19e-23 89.0
MsaG025493 MtrunA17_Chr0c02g0489731 73.684 57 15 0 20 76 5 61 2.67e-22 85.5
MsaG025493 MtrunA17_Chr6g0456851 64.615 65 23 0 19 83 816 880 1.94e-20 87.8
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG025493 AT1G16710.3 33.766 231 71 7 23 176 1442 1667 1.60e-25 103
MsaG025493 AT1G16710.10 33.766 231 71 7 23 176 1442 1667 1.60e-25 103
MsaG025493 AT1G16710.8 33.766 231 71 7 23 176 1442 1667 1.60e-25 103
MsaG025493 AT1G16710.7 33.766 231 71 7 23 176 1442 1667 1.60e-25 103
MsaG025493 AT1G16710.2 33.766 231 71 7 23 176 1439 1664 1.68e-25 103
MsaG025493 AT1G16710.1 33.766 231 71 7 23 176 1468 1693 1.85e-25 102
MsaG025493 AT1G16710.6 33.766 231 71 7 23 176 1403 1628 1.99e-25 102
MsaG025493 AT1G16710.4 33.766 231 71 7 23 176 1403 1628 1.99e-25 102
MsaG025493 AT1G16710.5 33.766 231 71 7 23 176 1403 1628 1.99e-25 102
MsaG025493 AT1G79000.1 32.751 229 72 6 25 176 1461 1684 3.49e-24 99.4
MsaG025493 AT1G79000.2 32.751 229 72 6 25 176 1461 1684 3.93e-24 99.0
MsaG025493 AT1G79000.3 32.751 229 72 6 25 176 1437 1660 4.53e-24 99.0
MsaG025493 AT3G12980.1 29.018 224 85 4 22 176 1438 1656 3.82e-19 84.7
MsaG025493 AT3G12980.2 29.018 224 85 4 22 176 1357 1575 4.28e-19 84.7
MsaG025493 AT1G55970.2 53.333 60 28 0 22 81 1220 1279 9.11e-15 72.0
MsaG025493 AT1G55970.1 53.333 60 28 0 22 81 1234 1293 9.30e-15 72.0
MsaG025493 AT1G67220.1 30.409 171 55 5 28 141 1160 1323 3.30e-11 61.6

Find 29 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AGAGTAGATTGTTTGGAAAT+AGG 0.174637 5:-8975874 MsaT025493.1:CDS
GAGTAGATTGTTTGGAAATA+GGG 0.213550 5:-8975873 MsaT025493.1:CDS
TTTCCGTAGAGCTGAAGTTT+TGG 0.328937 5:-8975120 MsaT025493.1:CDS
CTTAGATGATTTAAATAAAC+AGG 0.361757 5:-8976175 MsaT025493.1:intron
GTCCTTGAGAGTAGATTGTT+TGG 0.387689 5:-8975881 MsaT025493.1:CDS
TTCTTCATTTGAGAACAGTT+TGG 0.389365 5:+8975488 None:intergenic
GATATCATTATGTTTCGTAT+TGG 0.393693 5:+8975904 None:intergenic
CAAACTGAAACTGAGACTTC+TGG 0.396328 5:+8975831 None:intergenic
TTGAACAATGCTGAGTTAAC+TGG 0.400315 5:+8975726 None:intergenic
TGACAGTAGGATTGTGTAGA+TGG 0.416987 5:+8975765 None:intergenic
ATCATTATGTTTCGTATTGG+AGG 0.447838 5:+8975907 None:intergenic
TAACATTACTTGTGCGGCGG+CGG 0.470452 5:+8975525 None:intergenic
CTCCAGGAATTGCAAAGACT+CGG 0.514621 5:-8975378 MsaT025493.1:intron
TCATTATGTTTCGTATTGGA+GGG 0.524193 5:+8975908 None:intergenic
TTTCCAAAACTTCAGCTCTA+CGG 0.527474 5:+8975117 None:intergenic
GAAATCGATGGAGCAGTCGC+TGG 0.537627 5:-8975098 MsaT025493.1:CDS
CATTATGTTTCGTATTGGAG+GGG 0.538580 5:+8975909 None:intergenic
GAACAGTTTGGATGAGAGCA+TGG 0.558811 5:+8975500 None:intergenic
TAGGATTGTGTAGATGGTAG+AGG 0.563586 5:+8975771 None:intergenic
TTCCAAACAATCTACTCTCA+AGG 0.576903 5:+8975879 None:intergenic
AGCTAGTAATGACCTTAATG+AGG 0.591435 5:-8976202 MsaT025493.1:CDS
ATCTGAAGAAGCATGTAGAA+CGG 0.598774 5:-8975163 MsaT025493.1:CDS
ATGGCTTAACATTACTTGTG+CGG 0.616612 5:+8975519 None:intergenic
GCTTAACATTACTTGTGCGG+CGG 0.623577 5:+8975522 None:intergenic
TAGATGGTAGAGGATCATCA+TGG 0.661036 5:+8975781 None:intergenic
GGAGGGGATATCATCAACAA+CGG 0.690137 5:+8975925 None:intergenic
TGGAGGAATACTTAGCACGA+CGG 0.727052 5:+8975801 None:intergenic
ATGGTAGAGGATCATCATGG+AGG 0.740516 5:+8975784 None:intergenic
ACTGTAATACATCTGCAGCG+TGG 0.761250 5:+8975344 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr5 gene 8975091 8976235 8975091 ID=MsaG025493
Chr5 mRNA 8975091 8976235 8975091 ID=MsaT025493.1;Parent=MsaG025493
Chr5 exon 8975091 8975187 8975091 ID=MsaT025493.1.exon5;Parent=MsaT025493.1
Chr5 CDS 8975091 8975187 8975091 ID=cds.MsaT025493.1;Parent=MsaT025493.1
Chr5 exon 8975346 8975394 8975346 ID=MsaT025493.1.exon4;Parent=MsaT025493.1
Chr5 CDS 8975346 8975394 8975346 ID=cds.MsaT025493.1;Parent=MsaT025493.1
Chr5 exon 8975471 8975588 8975471 ID=MsaT025493.1.exon3;Parent=MsaT025493.1
Chr5 CDS 8975471 8975588 8975471 ID=cds.MsaT025493.1;Parent=MsaT025493.1
Chr5 exon 8975721 8975948 8975721 ID=MsaT025493.1.exon2;Parent=MsaT025493.1
Chr5 CDS 8975721 8975948 8975721 ID=cds.MsaT025493.1;Parent=MsaT025493.1
Chr5 exon 8976176 8976235 8976176 ID=MsaT025493.1.exon1;Parent=MsaT025493.1
Chr5 CDS 8976176 8976235 8976176 ID=cds.MsaT025493.1;Parent=MsaT025493.1
Gene Sequence

>MsaT025493.1

ATGAGTATCACAGCTAGTAATGACCTTAATGAGGAAAACTTAGATGATTTAAATAAACAGGCCGTTGTTGATGATATCCCCTCCAATACGAAACATAATGATATCGTCCTTGAGAGTAGATTGTTTGGAAATAGGGAGCACTTTTTGATCTTCTTCCAGAAGTCTCAGTTTCAGTTTGACACACTCCGTCGTGCTAAGTATTCCTCCATGATGATCCTCTACCATCTACACAATCCTACTGTCATGACTCAAAATGAACACCAGTTAACTCAGCATTGTTCAAAACAAATGGTGAAACTGCTGAACGTTTTGAAGCATGCATCTCAATGCCGCCGCCGCACAAGTAATGTTAAGCCATGCTCTCATCCAAACTGTTCTCAAATGAAGAAGTTGTTCTATCATGCCAGAATTGCAAAGACTCGGAATGTAGAATACCACGCTGCAGATGTATTACATGATCTGAAGAAGCATGTAGAACGGAGATCAATGCATTCTGAATCTTTCCGTAGAGCTGAAGTTTTGGAAATCGATGGAGCAGTCGCTGGCCAATGA
Protein sequence

>MsaT025493.1

MSITASNDLNEENLDDLNKQAVVDDIPSNTKHNDIVLESRLFGNREHFLIFFQKSQFQFDTLRRAKYSSMMILYHLHNPTVMTQNEHQLTQHCSKQMVKLLNVLKHASQCRRRTSNVKPCSHPNCSQMKKLFYHARIAKTRNVEYHAADVLHDLKKHVERRSMHSESFRRAEVLEIDGAVAGQ*