AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG000393

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG000393 MtrunA17_Chr1g0152241 97.241 145 4 0 1 145 1 145 1.01e-101 287
MsaG000393 MtrunA17_Chr3g0135061 58.333 144 56 2 1 144 1 140 6.13e-50 156
MsaG000393 MtrunA17_Chr4g0054291 47.154 123 47 3 22 128 23 143 6.61e-20 80.9
MsaG000393 MtrunA17_Chr5g0400901 45.082 122 51 3 31 139 22 140 4.62e-18 75.9
MsaG000393 MtrunA17_Chr8g0378901 41.584 101 53 2 45 143 18 114 8.68e-15 67.4
MsaG000393 MtrunA17_Chr1g0194681 37.273 110 62 2 34 143 4 106 1.28e-13 63.9
MsaG000393 MtrunA17_Chr1g0155551 41.111 90 51 1 35 124 7 94 1.85e-12 61.2
MsaG000393 MtrunA17_Chr3g0144941 43.902 82 44 1 43 124 15 94 2.03e-12 60.8
MsaG000393 MtrunA17_Chr4g0035414 43.750 80 43 1 45 124 17 94 2.43e-12 60.8
MsaG000393 MtrunA17_Chr7g0225661 44.156 77 43 0 59 135 83 159 1.18e-11 59.7
MsaG000393 MtrunA17_Chr8g0341311 42.857 77 44 0 59 135 73 149 1.76e-11 58.9
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG000393 AT3G49760.1 38.849 139 77 2 9 139 13 151 1.30e-20 82.8
MsaG000393 AT2G22850.1 45.783 83 45 0 57 139 126 208 2.32e-15 70.5
MsaG000393 AT2G22850.2 45.783 83 45 0 57 139 126 208 2.32e-15 70.5
MsaG000393 AT2G18160.1 43.750 80 45 0 45 124 16 95 5.86e-14 65.9
MsaG000393 AT1G75390.1 41.667 84 49 0 45 128 26 109 3.30e-13 63.9
MsaG000393 AT4G37730.1 51.471 68 33 0 57 124 194 261 3.94e-13 65.5
MsaG000393 AT1G75390.2 41.463 82 48 0 43 124 24 105 1.01e-12 61.2
MsaG000393 AT1G59530.1 39.344 122 68 2 18 139 14 129 1.02e-11 59.3
MsaG000393 AT5G15830.1 38.835 103 59 2 26 128 44 142 1.02e-11 60.1

Find 45 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GTCCCTCATGGCAACACTTT+TGG 0.232653 1:+5309274 MsaT000393.1:CDS
CGATTTGAACCGGTTGAGAA+TGG 0.382249 1:+5309160 MsaT000393.1:CDS
TTGTGAACCGGACCCTGGAC+TGG 0.414459 1:-5309018 None:intergenic
ACCGGTTGAGAATGGAAAAC+CGG 0.420192 1:+5309168 MsaT000393.1:CDS
GGTCCGGCTCACGTGTGTTC+CGG 0.430584 1:+5308923 MsaT000393.1:CDS
TAAGGAGAATGCAATCAAAC+CGG 0.448119 1:+5309081 MsaT000393.1:CDS
ACCTCACGAACGATTTGAAC+CGG 0.459693 1:+5309150 MsaT000393.1:CDS
ATTGCATGGTTAACCCTAGC+TGG 0.474346 1:-5309202 None:intergenic
GGACCGGATACTCCTCTTCA+TGG 0.477097 1:-5308905 None:intergenic
ACGACTTGATCCTTGTGAAC+CGG 0.478619 1:-5309030 None:intergenic
GTGAACATGGTTTCATGAAC+CGG 0.479700 1:-5308942 None:intergenic
CCTGGACTGGATGGATCAAC+CGG 0.484260 1:-5309005 None:intergenic
CCGGTTGATCCATCCAGTCC+AGG 0.489171 1:+5309005 MsaT000393.1:CDS
GATCCTTGTGAACCGGACCC+TGG 0.490890 1:-5309023 None:intergenic
GATCAACCGGTTGGTTAATG+AGG 0.507162 1:-5308992 None:intergenic
GAACCGGAACACACGTGAGC+CGG 0.519769 1:-5308926 None:intergenic
GATCCATCCAGTCCAGGGTC+CGG 0.524687 1:+5309011 MsaT000393.1:CDS
CTTCCATGAAGAGGAGTATC+CGG 0.526400 1:+5308902 MsaT000393.1:CDS
GGAACACACGTGAGCCGGAC+CGG 0.528631 1:-5308921 None:intergenic
GTTCACACAAGGCGAAATAG+AGG 0.540753 1:+5308959 MsaT000393.1:CDS
ATCCAAAAGTGTTGCCATGA+GGG 0.543780 1:-5309276 None:intergenic
TATTTCGCCTTGTGTGAACA+TGG 0.548387 1:-5308955 None:intergenic
CCGGTTGAGAATGGAAAACC+GGG 0.557045 1:+5309169 MsaT000393.1:CDS
AATCAAACCGGGAGTCGGCT+AGG 0.560261 1:+5309093 MsaT000393.1:CDS
ATCAGAATCAATGTCCCTCA+TGG 0.566320 1:+5309262 MsaT000393.1:CDS
AGCAATGTCCTTCCATGAAG+AGG 0.571717 1:+5308893 None:intergenic
GAACCGGACCCTGGACTGGA+TGG 0.582397 1:-5309014 None:intergenic
ATGAAGAGGAGTATCCGGTC+CGG 0.588642 1:+5308907 MsaT000393.1:CDS
AGTCCAGGGTCCGGTTCACA+AGG 0.591544 1:+5309020 MsaT000393.1:CDS
ACCGGTTCAAATCGTTCGTG+AGG 0.594738 1:-5309151 None:intergenic
CGGATACTCCTCTTCATGGA+AGG 0.596073 1:-5308901 None:intergenic
CGGTTGATCCATCCAGTCCA+GGG 0.598027 1:+5309006 MsaT000393.1:CDS
GACTGGATGGATCAACCGGT+TGG 0.601414 1:-5309001 None:intergenic
GTGACCGCCTAGCCGACTCC+CGG 0.602249 1:-5309100 None:intergenic
TAATATGAGATTGTATTGCA+TGG 0.609971 1:-5309216 None:intergenic
ATCAACCGGTTGGTTAATGA+GGG 0.611428 1:-5308991 None:intergenic
AATGCAATCAAACCGGGAGT+CGG 0.621410 1:+5309088 MsaT000393.1:CDS
ATACAATCTCATATTATCAA+CGG 0.623568 1:+5309223 MsaT000393.1:CDS
AAGGAGAATGCAATCAAACC+GGG 0.631263 1:+5309082 MsaT000393.1:CDS
CATGAAACCATGTTCACACA+AGG 0.636957 1:+5308948 MsaT000393.1:CDS
GATCCAAAAGTGTTGCCATG+AGG 0.664933 1:-5309277 None:intergenic
TTCACAAGGATCAAGTCGTG+CGG 0.675020 1:+5309034 MsaT000393.1:CDS
AGTCGGCTAGGCGGTCACGT+TGG 0.676204 1:+5309105 MsaT000393.1:CDS
GGTCACGTTGGAGAAAGAAG+CGG 0.707696 1:+5309117 MsaT000393.1:CDS
CAAACCGGGAGTCGGCTAGG+CGG 0.728540 1:+5309096 MsaT000393.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr1 gene 5308897 5309334 5308897 ID=MsaG000393
Chr1 mRNA 5308897 5309334 5308897 ID=MsaT000393.1;Parent=MsaG000393
Chr1 exon 5308897 5309334 5308897 ID=MsaT000393.1.exon1;Parent=MsaT000393.1
Chr1 CDS 5308897 5309334 5308897 ID=cds.MsaT000393.1;Parent=MsaT000393.1
Gene Sequence

>MsaT000393.1

ATGTCCTTCCATGAAGAGGAGTATCCGGTCCGGCTCACGTGTGTTCCGGTTCATGAAACCATGTTCACACAAGGCGAAATAGAGGAGTTATTTTCCCTCATTAACCAACCGGTTGATCCATCCAGTCCAGGGTCCGGTTCACAAGGATCAAGTCGTGCGGTTTACTCGACCCGTGAGAGAAAAATAAGGAGAATGCAATCAAACCGGGAGTCGGCTAGGCGGTCACGTTGGAGAAAGAAGCGGCACGTAGAGAACCTCACGAACGATTTGAACCGGTTGAGAATGGAAAACCGGGAACTAAAAAACCAGCTAGGGTTAACCATGCAATACAATCTCATATTATCAACGGAGAATGAACGTCTAAGATCAGAATCAATGTCCCTCATGGCAACACTTTTGGATCTATATCGGACTTTAGAGACAATAATTTCACAATAG
Protein sequence

>MsaT000393.1

MSFHEEEYPVRLTCVPVHETMFTQGEIEELFSLINQPVDPSSPGSGSQGSSRAVYSTRERKIRRMQSNRESARRSRWRKKRHVENLTNDLNRLRMENRELKNQLGLTMQYNLILSTENERLRSESMSLMATLLDLYRTLETIISQ*