AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG036402

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG036402 MtrunA17_Chr1g0213161 74.312 109 26 2 130 237 127 234 1.23e-50 165
MsaG036402 MtrunA17_Chr1g0199671 52.941 119 46 3 128 236 211 329 2.43e-28 109
MsaG036402 MtrunA17_Chr6g0461591 62.319 69 25 1 157 224 193 261 4.51e-25 99.4
MsaG036402 MtrunA17_Chr2g0326771 58.108 74 30 1 153 225 213 286 6.43e-25 100
MsaG036402 MtrunA17_Chr8g0372291 55.556 90 38 2 131 219 194 282 1.28e-24 99.0
MsaG036402 MtrunA17_Chr4g0028961 65.625 64 21 1 157 219 233 296 2.03e-24 99.0
MsaG036402 MtrunA17_Chr3g0145121 64.179 67 23 1 154 219 213 279 3.71e-24 97.8
MsaG036402 MtrunA17_Chr7g0253101 62.319 69 25 1 153 220 185 253 1.53e-23 95.5
MsaG036402 MtrunA17_Chr5g0404981 58.025 81 25 2 140 219 292 364 4.42e-23 96.3
MsaG036402 MtrunA17_Chr4g0035891 52.439 82 38 1 157 237 212 293 5.09e-23 94.7
MsaG036402 MtrunA17_Chr8g0340401 55.682 88 36 2 139 225 209 294 6.68e-23 95.1
MsaG036402 MtrunA17_Chr1g0146231 54.321 81 32 2 157 232 235 315 2.74e-22 93.6
MsaG036402 MtrunA17_Chr1g0169431 64.062 64 22 1 157 219 173 236 2.86e-22 91.7
MsaG036402 MtrunA17_Chr3g0140331 63.768 69 24 1 157 225 254 321 3.25e-22 93.6
MsaG036402 MtrunA17_Chr5g0395391 62.500 64 23 1 157 219 271 334 1.65e-21 91.3
MsaG036402 MtrunA17_Chr5g0395391 58.730 63 25 1 157 218 169 231 4.89e-19 84.3
MsaG036402 MtrunA17_Chr7g0232671 52.542 59 28 0 158 216 189 247 5.84e-16 74.7
MsaG036402 MtrunA17_Chr7g0232701 47.458 59 31 0 158 216 75 133 1.25e-12 63.2
MsaG036402 MtrunA17_Chr7g0232681 49.123 57 29 0 158 214 134 190 2.40e-12 63.9
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG036402 AT1G08010.2 55.670 97 41 2 125 219 188 284 1.22e-26 104
MsaG036402 AT1G08010.1 55.670 97 41 2 125 219 188 284 1.22e-26 104
MsaG036402 AT1G08010.3 55.670 97 41 2 125 219 188 284 1.22e-26 104
MsaG036402 AT3G24050.1 58.242 91 29 2 130 219 176 258 3.56e-26 103
MsaG036402 AT3G54810.1 65.714 70 23 1 157 225 230 299 7.76e-25 100
MsaG036402 AT3G54810.2 65.714 70 23 1 157 225 230 299 7.76e-25 100
MsaG036402 AT4G34680.1 53.086 81 34 1 150 230 174 250 2.55e-24 98.2
MsaG036402 AT4G34680.2 53.086 81 34 1 150 230 174 250 2.55e-24 98.2
MsaG036402 AT3G60530.1 41.860 172 80 7 64 227 69 228 8.22e-24 95.9
MsaG036402 AT1G08000.2 65.672 67 22 1 154 219 216 282 1.15e-23 97.1
MsaG036402 AT1G08000.1 65.672 67 22 1 154 219 216 282 1.15e-23 97.1
MsaG036402 AT5G66320.2 50.000 104 51 1 117 219 210 313 1.50e-23 97.4
MsaG036402 AT5G66320.1 50.000 104 51 1 117 219 210 313 1.50e-23 97.4
MsaG036402 AT2G28340.1 58.333 72 28 1 158 229 193 262 1.58e-23 96.3
MsaG036402 AT4G32890.1 55.844 77 33 1 157 233 198 273 7.15e-23 94.7
MsaG036402 AT2G45050.1 60.563 71 27 1 155 225 178 247 1.58e-22 93.2
MsaG036402 AT4G36240.1 56.522 69 29 1 158 225 166 234 2.27e-22 92.0
MsaG036402 AT5G25830.1 60.563 71 24 1 157 227 220 286 2.56e-22 93.6
MsaG036402 AT3G51080.1 65.625 64 21 1 157 219 222 285 6.09e-22 92.4
MsaG036402 AT3G45170.1 46.479 71 37 1 153 222 112 182 9.86e-17 76.3

Find 69 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CCGACACGCTTCGGGCTTAT+TGG 0.172205 7:+33521179 None:intergenic
GCTTATTGGGTCGGCCGGTT+TGG 0.233158 7:+33521193 None:intergenic
CTTATTGGGTCGGCCGGTTT+GGG 0.256963 7:+33521194 None:intergenic
TCGGTCAACAAGGAGGGTTT+TGG 0.297932 7:-33518319 MsaT036402.1:CDS
CGACACGCTTCGGGCTTATT+GGG 0.318708 7:+33521180 None:intergenic
TGGATAGAAGCGGATGGTTT+CGG 0.349499 7:-33521103 MsaT036402.1:CDS
TGACCCGACCCGACACGCTT+CGG 0.375106 7:+33521170 None:intergenic
GACCCGACCCGACACGCTTC+GGG 0.389698 7:+33521171 None:intergenic
TAGCAGCAGGCCGGTATTCA+AGG 0.420504 7:+33517871 None:intergenic
TGGGTGAACTATTGCTTTCA+AGG 0.420834 7:+33518293 None:intergenic
TCACAAGTATCAAAGCATTA+TGG 0.423696 7:+33518006 None:intergenic
AGCCCGAAGCGTGTCGGGTC+GGG 0.428116 7:-33521173 MsaT036402.1:CDS
GTCGGGTCACACGGTTAAAT+CGG 0.431163 7:-33521156 MsaT036402.1:CDS
TGTACCTATGCGGTCGGTTG+CGG 0.431442 7:+33521055 None:intergenic
CAATAAGCCCGAAGCGTGTC+GGG 0.439786 7:-33521178 MsaT036402.1:CDS
GAATTACGGTATTCTCGCCT+TGG 0.453907 7:-33517769 MsaT036402.1:CDS
ACTTGCAACTCGACCCAAAC+CGG 0.455878 7:-33521207 MsaT036402.1:CDS
CTCAAGGAAAATAAGAATTA+CGG 0.458988 7:-33517783 MsaT036402.1:CDS
CAATGGAGGACAGGGCCAGA+GGG 0.460436 7:-33517948 MsaT036402.1:CDS
TGCGATGTTCGATGGAAGTC+AGG 0.460561 7:-33517903 MsaT036402.1:CDS
ATCAAAGCATTATGGTCTCC+TGG 0.470117 7:+33518014 None:intergenic
CGGTCGGTTGCGGTTACCGT+TGG 0.485723 7:+33521065 None:intergenic
CACGGTTAAATCGGACAAAT+CGG 0.487357 7:-33521147 MsaT036402.1:CDS
TTCGGGCTTATTGGGTCGGC+CGG 0.493657 7:+33521188 None:intergenic
TCTGGCCCTGTCCTCCATTG+TGG 0.496382 7:+33517951 None:intergenic
GAAAAGGTTGGGCTAGCAGC+AGG 0.502571 7:+33517858 None:intergenic
ACAAATCGGCTCATTTAAAA+CGG 0.507913 7:-33521133 MsaT036402.1:CDS
CCAATAAGCCCGAAGCGTGT+CGG 0.518124 7:-33521179 MsaT036402.1:CDS
GTCGACTCTGCCTTGAATAC+CGG 0.520218 7:-33517881 MsaT036402.1:CDS
AGCGCGAAGATGTGAAGAAA+AGG 0.521480 7:+33517842 None:intergenic
GCGTCAGTTATTGCTGCTCC+AGG 0.521949 7:-33518032 MsaT036402.1:CDS
CGAAGATGTGAAGAAAAGGT+TGG 0.524098 7:+33517846 None:intergenic
TGACATCTGAAAAGAGGTGT+TGG 0.524972 7:+33522135 None:intergenic
ACGCTTCGGGCTTATTGGGT+CGG 0.527048 7:+33521184 None:intergenic
ATGTAATGACATCTGAAAAG+AGG 0.529579 7:+33522129 None:intergenic
GCGTGTCGGGTCGGGTCACA+CGG 0.533853 7:-33521165 MsaT036402.1:CDS
AAGACTCCACAATGGAGGAC+AGG 0.539371 7:-33517957 MsaT036402.1:CDS
CATTGTGATCTTACCATGAG+TGG 0.539766 7:+33518273 None:intergenic
ACAATGGAGGACAGGGCCAG+AGG 0.542044 7:-33517949 MsaT036402.1:CDS
GCAATGCTTGCGATGTTCGA+TGG 0.542666 7:-33517911 MsaT036402.1:CDS
GAAGATGTGAAGAAAAGGTT+GGG 0.544432 7:+33517847 None:intergenic
CTCCCTTCACACGTATTCCA+AGG 0.557994 7:+33517752 None:intergenic
AAGCCCGAAGCGTGTCGGGT+CGG 0.563601 7:-33521174 MsaT036402.1:CDS
TCGCCTTGGAATACGTGTGA+AGG 0.571882 7:-33517755 None:intergenic
AAATCAGTGATGCCTCATCA+TGG 0.573547 7:+33522158 None:intergenic
TATTGATGTACCTATGCGGT+CGG 0.581084 7:+33521049 None:intergenic
AGCAATAGTTCACCCACTCA+TGG 0.586988 7:-33518286 MsaT036402.1:intron
CGGTTTCATGTGGATAGAAG+CGG 0.595819 7:-33521113 MsaT036402.1:CDS
AATGGAGGACAGGGCCAGAG+GGG 0.597651 7:-33517947 MsaT036402.1:CDS
AGACTCCACAATGGAGGACA+GGG 0.598531 7:-33517956 MsaT036402.1:CDS
TCATTTAAAACGGTTTCATG+TGG 0.599055 7:-33521123 MsaT036402.1:CDS
AGTGCACGCTGAAGCTGAGT+GGG 0.599880 7:-33522221 MsaT036402.1:CDS
TCCTTGTTGACCGATGATGA+TGG 0.601999 7:+33518328 None:intergenic
ACCATCATCATCGGTCAACA+AGG 0.603864 7:-33518329 MsaT036402.1:CDS
AATGAGAGTGATGAGACTCA+AGG 0.609206 7:-33517799 MsaT036402.1:CDS
AGGTTGGGCTAGCAGCAGGC+CGG 0.615108 7:+33517862 None:intergenic
TCATCATCGGTCAACAAGGA+GGG 0.620500 7:-33518325 MsaT036402.1:CDS
GGAGCAGCAACCATCATCAT+CGG 0.622809 7:-33518338 MsaT036402.1:CDS
ATCATCATCGGTCAACAAGG+AGG 0.637320 7:-33518326 MsaT036402.1:CDS
CGACGAAGACTCCACAATGG+AGG 0.638540 7:-33517962 MsaT036402.1:CDS
ATTGTGATCTTACCATGAGT+GGG 0.655003 7:+33518274 None:intergenic
GACGAAATGTACGCATTGTG+AGG 0.657025 7:-33517985 MsaT036402.1:CDS
CAGTGCACGCTGAAGCTGAG+TGG 0.658502 7:-33522222 MsaT036402.1:CDS
TTCATGTGGATAGAAGCGGA+TGG 0.663536 7:-33521109 MsaT036402.1:CDS
CGAGCCGCATATCCATGATG+AGG 0.673257 7:-33522170 MsaT036402.1:CDS
GTAACCGCAACCGACCGCAT+AGG 0.678915 7:-33521059 MsaT036402.1:intron
GATGCCTCATCATGGATATG+CGG 0.680927 7:+33522166 None:intergenic
TTATTATTGATGTACCTATG+CGG 0.694005 7:+33521045 None:intergenic
AGGCGACGAAGACTCCACAA+TGG 0.735845 7:-33517965 MsaT036402.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr7 gene 33517758 33525670 33517758 ID=MsaG036402
Chr7 mRNA 33517758 33525670 33517758 ID=MsaT036402.1;Parent=MsaG036402
Chr7 exon 33517758 33518083 33517758 ID=MsaT036402.1.exon5;Parent=MsaT036402.1
Chr7 CDS 33517758 33518083 33517758 ID=cds.MsaT036402.1;Parent=MsaT036402.1
Chr7 exon 33518287 33518379 33518287 ID=MsaT036402.1.exon4;Parent=MsaT036402.1
Chr7 CDS 33518287 33518379 33518287 ID=cds.MsaT036402.1;Parent=MsaT036402.1
Chr7 exon 33521060 33521241 33521060 ID=MsaT036402.1.exon3;Parent=MsaT036402.1
Chr7 CDS 33521060 33521241 33521060 ID=cds.MsaT036402.1;Parent=MsaT036402.1
Chr7 exon 33522139 33522241 33522139 ID=MsaT036402.1.exon2;Parent=MsaT036402.1
Chr7 CDS 33522139 33522241 33522139 ID=cds.MsaT036402.1;Parent=MsaT036402.1
Chr7 exon 33525661 33525670 33525661 ID=MsaT036402.1.exon1;Parent=MsaT036402.1
Chr7 CDS 33525661 33525670 33525661 ID=cds.MsaT036402.1;Parent=MsaT036402.1
Gene Sequence

>MsaT036402.1

ATGTCTTCAGTGCACGCTGAAGCTGAGTGGGCAGTGAATAATGAAAATTCTGATTTAGTCGAGCCGCATATCCATGATGAGGCATCACTGATTTCCAACACCTCTTTTCAGATGGCTGGACAAAAACTTGCAACTCGACCCAAACCGGCCGACCCAATAAGCCCGAAGCGTGTCGGGTCGGGTCACACGGTTAAATCGGACAAATCGGCTCATTTAAAACGGTTTCATGTGGATAGAAGCGGATGGTTTCGGATTGCATTTTTCAATCCAACGGTAACCGCAACCGACCGCATAGAATCTCACAGTGAAAAACTGGAGCAGCAACCATCATCATCGGTCAACAAGGAGGGTTTTGGGCTCCTTGAAAGCAATAGTTCACCCACTCATGGGGAGTCGAAAAAGAAATATAAAACAAATGCGTCAGTTATTGCTGCTCCAGGAGACCATAATGCTTTGATACTTGTGACGAAATGTACGCATTGTGAGGCGACGAAGACTCCACAATGGAGGACAGGGCCAGAGGGGCCGAAAAAACTCTGCAATGCTTGCGATGTTCGATGGAAGTCAGGTCGACTCTGCCTTGAATACCGGCCTGCTGCTAGCCCAACCTTTTCTTCACATCTTCGCGCTAATTCATACAAGATCATTCAAATGAGAGTGATGAGACTCAAGGAAAATAAGAATTACGGTATTCTCGCCTTGGAATACGTGTGA
Protein sequence

>MsaT036402.1

MSSVHAEAEWAVNNENSDLVEPHIHDEASLISNTSFQMAGQKLATRPKPADPISPKRVGSGHTVKSDKSAHLKRFHVDRSGWFRIAFFNPTVTATDRIESHSEKLEQQPSSSVNKEGFGLLESNSSPTHGESKKKYKTNASVIAAPGDHNALILVTKCTHCEATKTPQWRTGPEGPKKLCNACDVRWKSGRLCLEYRPAASPTFSSHLRANSYKIIQMRVMRLKENKNYGILALEYV*