AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG002072


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG002072 MtrunA17_Chr1g0170581 85.246 244 36 0 1 244 1 244 7.60e-156 432
MsaG002072 MtrunA17_Chr1g0170591 86.066 244 26 1 1 244 1 236 2.23e-153 426
MsaG002072 MtrunA17_Chr1g0170571 82.114 246 36 1 1 246 1 238 2.77e-142 398
MsaG002072 MtrunA17_Chr7g0256671 68.333 180 55 2 63 241 64 242 4.83e-64 200
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG002072 AT3G56970.1 40.637 251 134 6 1 240 1 247 1.42e-52 171
MsaG002072 AT3G56980.1 39.560 273 115 6 1 242 1 254 1.16e-45 153
MsaG002072 AT2G41240.1 37.247 247 141 4 1 242 1 238 8.46e-42 143
MsaG002072 AT2G41240.2 36.842 247 141 5 1 242 1 237 2.30e-39 137
MsaG002072 AT5G04150.2 46.626 163 82 2 60 219 78 238 1.35e-36 129
MsaG002072 AT5G04150.1 44.324 185 95 4 60 239 78 259 3.19e-36 129

Find 43 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TCCACATGTTTATGTATTTC+TGG 0.098207 1:-31744917 None:intergenic
TGATGCTGGTTATGGGTTAT+TGG 0.201953 1:-31744416 None:intergenic
AGTACCATTTGATCAGAAAT+AGG 0.267145 1:-31744635 None:intergenic
CAACTTCTCGTTTAAAATAT+CGG 0.270225 1:-31745346 None:intergenic
CGAGAAGTTGTTATCAATAA+TGG 0.272808 1:+31745359 MsaT002072.1:CDS
GTTTCTTCATCTCAAACCTT+TGG 0.309294 1:+31745178 MsaT002072.1:CDS
ATGGATTCTGATGCTGGTTA+TGG 0.337267 1:-31744424 None:intergenic
CATAGCAAAATCTCAGATAA+TGG 0.357726 1:-31745124 None:intergenic
AGGACTCTTGAAATTGTTGC+TGG 0.367920 1:-31744884 None:intergenic
CCTCCAATGTTGTCAACAAC+TGG 0.388693 1:+31744377 MsaT002072.1:CDS
TCAATAGTGTCTTTGTAGAA+TGG 0.399191 1:-31744443 None:intergenic
TCTTCCTATTTCTGATCAAA+TGG 0.404052 1:+31744631 MsaT002072.1:CDS
ATGGGTTATTGGCTCTTCAA+AGG 0.419323 1:-31744405 None:intergenic
TCTTCATCTCAAACCTTTGG+AGG 0.450222 1:+31745181 MsaT002072.1:CDS
TGGATTCTGATGCTGGTTAT+GGG 0.454435 1:-31744423 None:intergenic
TGTAGAATGGATTCTGATGC+TGG 0.456368 1:-31744430 None:intergenic
GTTGTTATCAATAATGGAAA+AGG 0.460271 1:+31745365 MsaT002072.1:CDS
AAGAAACATTTAGCAACATA+AGG 0.460296 1:-31745162 None:intergenic
TTGCTATGTTTAGAAAATGA+TGG 0.461428 1:+31745139 MsaT002072.1:CDS
ATCTCAAACCTTTGGAGGGA+GGG 0.471487 1:+31745186 MsaT002072.1:CDS
TGGGTTATTGGCTCTTCAAA+GGG 0.490732 1:-31744404 None:intergenic
ATAATAACTTCATTTACTTG+TGG 0.512712 1:-31744983 None:intergenic
AAGAAACATAATTACAACTC+TGG 0.515926 1:+31745025 MsaT002072.1:CDS
ACAAATTATTCATCTTCTTG+CGG 0.523820 1:-31744589 None:intergenic
CTTCATCTCAAACCTTTGGA+GGG 0.524238 1:+31745182 MsaT002072.1:CDS
CCAGTTGTTGACAACATTGG+AGG 0.526212 1:-31744377 None:intergenic
CAATAATGGAAAAGGAAGGA+GGG 0.549179 1:+31745373 MsaT002072.1:CDS
CATCTCAAACCTTTGGAGGG+AGG 0.551061 1:+31745185 MsaT002072.1:CDS
TCAATAATGGAAAAGGAAGG+AGG 0.551798 1:+31745372 MsaT002072.1:CDS
CATGCCAAGGTCACTGCTTG+TGG 0.551876 1:-31744528 None:intergenic
CATCCAGTTGTTGACAACAT+TGG 0.563901 1:-31744380 None:intergenic
CAATCCACAAGCAGTGACCT+TGG 0.569748 1:+31744524 MsaT002072.1:CDS
GTAGAAGACCCTCCCTCCAA+AGG 0.574235 1:-31745194 None:intergenic
GTCACTGCTTGTGGATTGTG+AGG 0.591686 1:-31744519 None:intergenic
GAAATACATAAACATGTGGA+AGG 0.601655 1:+31744920 MsaT002072.1:CDS
CACAAGCAGTGACCTTGGCA+TGG 0.603384 1:+31744529 MsaT002072.1:CDS
TCTCAGATAATGGAATCTTG+TGG 0.603687 1:-31745114 None:intergenic
TTATCAATAATGGAAAAGGA+AGG 0.604075 1:+31745369 MsaT002072.1:CDS
CAGAAATAGGAAGAAGTGAA+CGG 0.605298 1:-31744622 None:intergenic
CAATGTTGTCAACAACTGGA+TGG 0.624050 1:+31744381 MsaT002072.1:CDS
ACCAGAAATACATAAACATG+TGG 0.627789 1:+31744916 MsaT002072.1:CDS
CAAGCTTCTTGACCATGCCA+AGG 0.656633 1:-31744541 None:intergenic
TCACTGCTTGTGGATTGTGA+GGG 0.698792 1:-31744518 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr1 gene 31744362 31745410 31744362 ID=MsaG002072
Chr1 mRNA 31744362 31745410 31744362 ID=MsaT002072.1;Parent=MsaG002072
Chr1 exon 31744362 31744652 31744362 ID=MsaT002072.1.exon1;Parent=MsaT002072.1
Chr1 CDS 31744362 31744652 31744362 ID=cds.MsaT002072.1;Parent=MsaT002072.1
Chr1 exon 31744869 31745231 31744869 ID=MsaT002072.1.exon2;Parent=MsaT002072.1
Chr1 CDS 31744869 31745231 31744869 ID=cds.MsaT002072.1;Parent=MsaT002072.1
Chr1 exon 31745321 31745410 31745321 ID=MsaT002072.1.exon3;Parent=MsaT002072.1
Chr1 CDS 31745321 31745410 31745321 ID=cds.MsaT002072.1;Parent=MsaT002072.1
Gene Sequence

>MsaT002072.1

ATGTTAGCGATATCTCCTCCAATGTTGTCAACAACTGGATGGCCCTTTGAAGAGCCAATAACCCATAACCAGCATCAGAATCCATTCTACAAAGACACTATTGATCAATTATTTCATTTTGATGATCAAGTAGAGGCAGAAATTAATTCAACAGATCCCTCACAATCCACAAGCAGTGACCTTGGCATGGTCAAGAAGCTTGTTCATAATGCTAGTGAACGTGATCGCCGCAAGAAGATGAATAATTTGTATTCTTCACTCCGTTCACTTCTTCCTATTTCTGATCAAATGAAGAAATTGAGTATTCCAGCAACAATTTCAAGAGTCCTAAAATACATACCAGAAATACATAAACATGTGGAAGGACTAATTGAGAGAAAAGAAGAGATCTTATTGAGACTTTCTCCACAAGTAAATGAAGTTATTATAAGCAAAGAATCTCAAAAGAAGAAACATAATTACAACTCTGGTTTTATCGTTTCAACAAGTAGGCTAAATGATAGTGAAGTTGCAATTCAGATTTCATGTTACACTGTCCACAAGATTCCATTATCTGAGATTTTGCTATGTTTAGAAAATGATGGCCTTATGTTGCTAAATGTTTCTTCATCTCAAACCTTTGGAGGGAGGGTCTTCTACAATTTGCATTTTCAGGTGGATAAAATACAAAGATTAGAATCCGATATTTTAAACGAGAAGTTGTTATCAATAATGGAAAAGGAAGGAGGGTTTTCAATACAATAA

Protein sequence

>MsaT002072.1

MLAISPPMLSTTGWPFEEPITHNQHQNPFYKDTIDQLFHFDDQVEAEINSTDPSQSTSSDLGMVKKLVHNASERDRRKKMNNLYSSLRSLLPISDQMKKLSIPATISRVLKYIPEIHKHVEGLIERKEEILLRLSPQVNEVIISKESQKKKHNYNSGFIVSTSRLNDSEVAIQISCYTVHKIPLSEILLCLENDGLMLLNVSSSQTFGGRVFYNLHFQVDKIQRLESDILNEKLLSIMEKEGGFSIQ*