AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG000851


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG000851 MtrunA17_Chr1g0147491 96.154 286 8 2 1 284 54 338 0.0 554
MsaG000851 MtrunA17_Chr3g0139301 62.105 285 75 14 10 284 33 294 9.48e-98 289
MsaG000851 MtrunA17_Chr1g0190761 58.065 124 48 2 86 205 177 300 1.41e-27 110
MsaG000851 MtrunA17_Chr7g0274141 52.381 147 54 4 64 205 150 285 2.64e-26 106
MsaG000851 MtrunA17_Chr3g0139571 78.378 74 16 0 116 189 1 74 3.56e-26 98.6
MsaG000851 MtrunA17_Chr3g0144941 41.558 77 45 0 114 190 27 103 8.42e-12 62.0
MsaG000851 MtrunA17_Chr1g0155551 29.747 158 96 2 89 246 3 145 9.10e-12 62.0
MsaG000851 MtrunA17_Chr8g0341311 43.478 92 47 1 98 189 60 146 2.23e-11 61.6
MsaG000851 MtrunA17_Chr6g0456061 40.385 104 56 3 102 204 77 175 2.27e-11 62.0
MsaG000851 MtrunA17_Chr8g0378901 34.884 86 56 0 111 196 29 114 2.71e-11 60.8
MsaG000851 MtrunA17_Chr7g0225661 43.478 92 47 1 98 189 70 156 2.86e-11 61.6
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG000851 AT5G24800.1 48.425 254 100 7 39 284 46 276 2.50e-61 196
MsaG000851 AT5G28770.1 58.333 108 43 1 101 206 130 237 4.95e-25 102
MsaG000851 AT5G28770.2 58.333 108 43 1 101 206 137 244 5.49e-25 102
MsaG000851 AT5G28770.3 61.111 90 35 0 101 190 137 226 7.15e-21 89.7
MsaG000851 AT4G02640.4 53.097 113 51 1 90 200 188 300 5.47e-16 77.8
MsaG000851 AT4G02640.3 53.097 113 51 1 90 200 194 306 5.50e-16 77.8
MsaG000851 AT4G02640.2 53.097 113 51 1 90 200 194 306 6.42e-16 77.8
MsaG000851 AT4G02640.1 53.097 113 51 1 90 200 188 300 6.84e-16 77.4
MsaG000851 AT3G54620.1 51.136 88 43 0 113 200 227 314 1.77e-13 70.5
MsaG000851 AT1G75390.1 39.759 83 50 0 114 196 38 120 5.96e-12 63.5
MsaG000851 AT2G18160.1 36.190 105 57 1 92 196 16 110 1.48e-11 62.4
MsaG000851 AT3G30530.1 39.773 88 53 0 102 189 66 153 3.13e-11 61.2
MsaG000851 AT1G75390.2 44.776 67 37 0 114 180 38 104 8.27e-11 58.9

Find 61 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AGTTCTTGGGAGTGAGGTTT+TGG 0.180329 1:-11555786 None:intergenic
TGTTCAATTGACTCTGATTT+TGG 0.206784 1:-11558804 None:intergenic
CATCTGTAAGCTGCTTAAAT+AGG 0.310185 1:-11558261 None:intergenic
TTTGGCAGACCTTGAGGTTC+AGG 0.310946 1:+11558079 MsaT000851.1:CDS
CTAAGACGCTTCATATCAAC+AGG 0.337570 1:-11556797 None:intergenic
TGCAGTGATGGTGGAGTTCT+TGG 0.341951 1:-11555800 None:intergenic
TGAGCTCTTTGACTAGCTTA+TGG 0.345147 1:+11559007 MsaT000851.1:CDS
AAGAAGAAAACAAGCACATT+TGG 0.358483 1:+11558061 MsaT000851.1:CDS
TGTTGTTGTAGTCACTCCTT+TGG 0.367802 1:-11556708 None:intergenic
GGTGAAGTTAGCAGAGGATA+TGG 0.388906 1:+11558741 MsaT000851.1:intron
AGTATTACCGGTGGCAGAAA+TGG 0.392731 1:-11555842 None:intergenic
CAGAATTCAGCTATTGGACT+TGG 0.407633 1:+11558928 MsaT000851.1:CDS
AGTGGACAGAATTCAGCTAT+TGG 0.421178 1:+11558922 MsaT000851.1:CDS
TTTCCATGGACGGTGATTGT+AGG 0.427364 1:-11558880 None:intergenic
CATGGAAACGACGCTTCATA+TGG 0.432634 1:+11558895 MsaT000851.1:CDS
CAAACAAGAGTATTATTTGT+TGG 0.433570 1:-11555760 None:intergenic
CACTAGTAATCTCCGTTGTA+TGG 0.434010 1:+11558846 MsaT000851.1:CDS
TGTTAGCATCGCGAAATTGT+TGG 0.440152 1:-11558288 None:intergenic
TTGATATGAAGCGTCTTAGA+AGG 0.440492 1:+11556801 MsaT000851.1:CDS
TTAGGTTGAACAGCTGAGGC+TGG 0.444559 1:+11558228 MsaT000851.1:intron
CATATGAAGCGTCGTTTCCA+TGG 0.454343 1:-11558894 None:intergenic
GACGCTTCATATGGTGTTAG+TGG 0.460901 1:+11558904 MsaT000851.1:CDS
AGCAGAGGATATGGTCTCTA+GGG 0.483549 1:+11558750 MsaT000851.1:CDS
GCAGTGATGGTGGAGTTCTT+GGG 0.488823 1:-11555799 None:intergenic
TGGTGGAGTTCTTGGGAGTG+AGG 0.489497 1:-11555792 None:intergenic
AGATTACTAGTGTTGATTTG+TGG 0.491316 1:-11558835 None:intergenic
ACTGACCAGATTATGAAAAT+CGG 0.504341 1:-11553285 None:intergenic
TAGCAGAGGATATGGTCTCT+AGG 0.512033 1:+11558749 MsaT000851.1:CDS
ACATCGCCGACACTGATGAA+TGG 0.512087 1:-11553236 None:intergenic
AGAAGCTGGTTGTTAAAAGT+AGG 0.514450 1:-11558781 None:intergenic
TGCAGTCATGATTTCAACAA+TGG 0.523773 1:+11558967 MsaT000851.1:CDS
ATTATGAAAATCGGCGGTGT+CGG 0.528802 1:-11553276 None:intergenic
TGTTGAAGCTTTAAGAGCTA+AGG 0.529338 1:+11558336 MsaT000851.1:CDS
AGCTCTTAAAGCTTCAACAT+CGG 0.530694 1:-11558332 None:intergenic
GCTTCATCATCTTCATCAGA+TGG 0.530813 1:-11556749 None:intergenic
CTCAATAGTTGCAGTGATGG+TGG 0.531409 1:-11555809 None:intergenic
ACATGTTGAAAATGAAGTTA+CGG 0.531605 1:-11555731 None:intergenic
TTTCTTAGGTTGAACAGCTG+AGG 0.532387 1:+11558224 MsaT000851.1:intron
TCGCCTACAATCACCGTCCA+TGG 0.536280 1:+11558877 MsaT000851.1:CDS
CAATCATCCATTTCTGCCAC+CGG 0.538002 1:+11555835 MsaT000851.1:CDS
TGAAGCGTCGTTTCCATGGA+CGG 0.541190 1:-11558890 None:intergenic
AGCATCGCGAAATTGTTGGC+TGG 0.553901 1:-11558284 None:intergenic
AGTGTCGGCGATGTTTGCTC+TGG 0.559900 1:+11553245 MsaT000851.1:CDS
CTAGGTTTATTAGCTGACAC+TGG 0.571493 1:-11556671 None:intergenic
AGCACATTTGGCAGACCTTG+AGG 0.572432 1:+11558073 MsaT000851.1:CDS
TCTGATGAAGATGATGAAGC+AGG 0.584800 1:+11556752 MsaT000851.1:CDS
GGGTTTGTACTTTGTTCACA+AGG 0.595616 1:-11556776 None:intergenic
AATTAATTACCTGAACCTCA+AGG 0.595756 1:-11558088 None:intergenic
AGACTCAATAGTTGCAGTGA+TGG 0.603647 1:-11555812 None:intergenic
ATGGATCCATTCATCAGTGT+CGG 0.609480 1:+11553230 MsaT000851.1:CDS
AGTAGAGAAAATCAAACCAA+AGG 0.615439 1:+11556692 MsaT000851.1:CDS
GGAGTGACTACAACAACAAG+TGG 0.619797 1:+11556713 MsaT000851.1:CDS
TTACTAGTGTTGATTTGTGG+CGG 0.621086 1:-11558832 None:intergenic
GCGAAACATGCGCCATACAA+CGG 0.641264 1:-11558858 None:intergenic
AATTTAGGTGAAGTTAGCAG+AGG 0.643088 1:+11558735 MsaT000851.1:intron
TTCATCAGATGGATCACGTG+AGG 0.658342 1:-11556738 None:intergenic
GACCAGATTATGAAAATCGG+CGG 0.666849 1:-11553282 None:intergenic
CTAATCGCGAGTCTGCCAGA+AGG 0.671078 1:+11558033 MsaT000851.1:CDS
AGTGTTGATTTGTGGCGGAG+TGG 0.681459 1:-11558827 None:intergenic
GCAGAGGATATGGTCTCTAG+GGG 0.691454 1:+11558751 MsaT000851.1:CDS
TAAGACGCTTCATATCAACA+GGG 0.724365 1:-11556796 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr1 gene 11553230 11559035 11553230 ID=MsaG000851
Chr1 mRNA 11553230 11559035 11553230 ID=MsaT000851.1;Parent=MsaG000851
Chr1 exon 11553230 11553301 11553230 ID=MsaT000851.1.exon1;Parent=MsaT000851.1
Chr1 CDS 11553230 11553301 11553230 ID=cds.MsaT000851.1;Parent=MsaT000851.1
Chr1 exon 11555727 11555856 11555727 ID=MsaT000851.1.exon2;Parent=MsaT000851.1
Chr1 CDS 11555727 11555856 11555727 ID=cds.MsaT000851.1;Parent=MsaT000851.1
Chr1 exon 11556663 11556822 11556663 ID=MsaT000851.1.exon3;Parent=MsaT000851.1
Chr1 CDS 11556663 11556822 11556663 ID=cds.MsaT000851.1;Parent=MsaT000851.1
Chr1 exon 11558025 11558100 11558025 ID=MsaT000851.1.exon4;Parent=MsaT000851.1
Chr1 CDS 11558025 11558100 11558025 ID=cds.MsaT000851.1;Parent=MsaT000851.1
Chr1 exon 11558232 11558357 11558232 ID=MsaT000851.1.exon5;Parent=MsaT000851.1
Chr1 CDS 11558232 11558357 11558232 ID=cds.MsaT000851.1;Parent=MsaT000851.1
Chr1 exon 11558742 11559035 11558742 ID=MsaT000851.1.exon6;Parent=MsaT000851.1
Chr1 CDS 11558742 11559035 11558742 ID=cds.MsaT000851.1;Parent=MsaT000851.1
Gene Sequence

>MsaT000851.1

ATGGATCCATTCATCAGTGTCGGCGATGTTTGCTCTGGTAACATCGCCGACACCGCCGATTTTCATAATCTGGATGCCGTAACTTCATTTTCAACATGTGGTGAACCAACAAATAATACTCTTGTTTGCTCCCAAAACCTCACTCCCAAGAACTCCACCATCACTGCAACTATTGAGTCTCAATCATCCATTTCTGCCACCGTTACAAGTCCAGTGTCAGCTAATAAACCTAGTAGAGAAAATCAAACCAAAGGAGTGACTACAACAACAAGTGGTTCCTCACGTGATCCATCTGATGAAGATGATGAAGCAGGTCCTTGTGAACAAAGTACAAACCCTGTTGATATGAAGCGTCTTAGAAGAAAGGTTTCTAATCGCGAGTCTGCCAGAAGGTCCAGAAGAAGAAAACAAGCACATTTGGCAGACCTTGAGGTTCAGGTTGAACAGCTGAGGCTGGAAAATGCAAGCCTATTTAAGCAGCTTACAGATGCCAGCCAACAATTTCGCGATGCTAACACTAACAACCGAGTGCTAAAATCCGATGTTGAAGCTTTAAGAGCTAAGGTGAAGTTAGCAGAGGATATGGTCTCTAGGGGTACTTTACCTACTTTTAACAACCAGCTTCTCCAAAATCAGAGTCAATTGAACACCACTCCGCCACAAATCAACACTAGTAATCTCCGTTGTATGGCGCATGTTTCGCCTACAATCACCGTCCATGGAAACGACGCTTCATATGGTGTTAGTGGACAGAATTCAGCTATTGGACTTGGAGATTTTGATATATCTTGCAGTCATGATTTCAACAATGGAGTTAATAGTGATGCTGTGAGCTCTTTGACTAGCTTATGGTCATAA

Protein sequence

>MsaT000851.1

MDPFISVGDVCSGNIADTADFHNLDAVTSFSTCGEPTNNTLVCSQNLTPKNSTITATIESQSSISATVTSPVSANKPSRENQTKGVTTTTSGSSRDPSDEDDEAGPCEQSTNPVDMKRLRRKVSNRESARRSRRRKQAHLADLEVQVEQLRLENASLFKQLTDASQQFRDANTNNRVLKSDVEALRAKVKLAEDMVSRGTLPTFNNQLLQNQSQLNTTPPQINTSNLRCMAHVSPTITVHGNDASYGVSGQNSAIGLGDFDISCSHDFNNGVNSDAVSSLTSLWS*