AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG010559

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG010559 MtrunA17_Chr2g0325841 81.856 485 36 4 1 456 26 487 0.0 694
MsaG010559 MtrunA17_Chr2g0283871 36.937 333 160 11 9 336 11 298 8.00e-37 137
MsaG010559 MtrunA17_Chr8g0344681 39.450 109 58 3 18 122 65 169 8.69e-12 66.6
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG010559 AT3G58630.1 31.608 367 173 12 7 361 13 313 1.03e-27 112
MsaG010559 AT3G58630.2 33.236 343 151 12 7 337 13 289 1.61e-27 112
MsaG010559 AT3G14180.1 27.461 386 195 16 11 352 74 418 5.98e-21 95.5
MsaG010559 AT3G11100.1 43.939 132 59 5 18 147 19 137 1.22e-15 77.0
MsaG010559 AT1G54060.1 40.625 96 54 2 18 113 91 183 1.19e-12 69.7
MsaG010559 AT5G05550.1 44.330 97 46 3 18 113 21 110 1.94e-11 64.7
MsaG010559 AT5G05550.3 44.330 97 46 3 18 113 21 110 2.17e-11 64.3
MsaG010559 AT5G05550.2 44.330 97 46 3 18 113 21 110 2.93e-11 63.9

Find 104 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GGAAGAAAGGATAGGGAATT+AGG 0.194276 2:-74797836 MsaT010559.1:CDS
AGAAGAAGGGATGTGGAATT+AGG 0.206226 2:-74797875 MsaT010559.1:CDS
GACTCCCAGGATGCAATTTC+CGG 0.261380 2:-74797351 MsaT010559.1:CDS
ATATTTGCGGTTATGCGTTT+TGG 0.282977 2:+74798516 None:intergenic
GAAGACTCACTTTGAGTTGT+TGG 0.306920 2:+74797271 None:intergenic
GAAATTGCATCCTGGGAGTC+TGG 0.322509 2:+74797354 None:intergenic
GAGAAACTTGATTCCGTACT+TGG 0.322643 2:-74798310 MsaT010559.1:CDS
TGAACCGACGTTGGATGTTC+CGG 0.357032 2:-74798251 MsaT010559.1:CDS
GAAGAAAGGATAGGGAATTA+GGG 0.376460 2:-74797835 MsaT010559.1:CDS
TGCAATTTCCAGAGGATTCT+CGG 0.378854 2:-74797460 MsaT010559.1:CDS
TTCAGAAGGTTCTCAGAGAA+TGG 0.387935 2:-74797663 MsaT010559.1:CDS
TGCAATTTCCAGAGGATTCT+CGG 0.389383 2:-74797427 MsaT010559.1:CDS
TGAAGTGGAGGTTGATAATT+CGG 0.393670 2:-74797987 MsaT010559.1:CDS
GAAGAAGGGATGTGGAATTA+GGG 0.397302 2:-74797874 MsaT010559.1:CDS
ACATCCAACGTCGGTTCAAC+CGG 0.412214 2:+74798256 None:intergenic
GGATGTTCCGGCATGGGCGC+TGG 0.424236 2:-74798239 MsaT010559.1:CDS
TGCTGCTGCAGCAGCTGAAG+TGG 0.426573 2:-74798002 MsaT010559.1:CDS
TCCTCCGGAAATTGCATCCT+GGG 0.429195 2:+74797347 None:intergenic
TCCGGCATGGGCGCTGGCAC+CGG 0.433517 2:-74798233 MsaT010559.1:CDS
CGTACTTGGAGATGGTTTAC+CGG 0.435157 2:-74798296 MsaT010559.1:CDS
CTCTGAGTCCGAGAATCCTC+TGG 0.438453 2:+74797452 None:intergenic
AGTTGCAGGAAGAAAGGATA+GGG 0.452754 2:-74797843 MsaT010559.1:CDS
CAGAGAAGTTGCAGGAAGAA+AGG 0.460148 2:-74797849 MsaT010559.1:CDS
TGCATCCTCCGAGAATCCTC+TGG 0.463974 2:+74797419 None:intergenic
GTCGTCGGAGAGTGCGGAGG+AGG 0.466703 2:-74798146 MsaT010559.1:CDS
GACGTTGGATGTTCCGGCAT+GGG 0.467000 2:-74798245 MsaT010559.1:CDS
CAAGAGATTCTCAGACTCAA+AGG 0.468245 2:-74797544 MsaT010559.1:CDS
CAAAGGATTCCCAGACTCCC+AGG 0.468726 2:-74797364 MsaT010559.1:CDS
AGAAGAGGAAGAGAAGAAGA+AGG 0.470760 2:-74797889 MsaT010559.1:CDS
AATATTTGCGTCAGTATCAC+TGG 0.473392 2:-74798498 MsaT010559.1:CDS
TAATTCGGATTCCGATCATT+CGG 0.485953 2:-74797972 MsaT010559.1:CDS
TCATTCGGATTCCGATGATT+CGG 0.488433 2:-74797957 MsaT010559.1:CDS
GTAACCGTGATGGTCATTGA+TGG 0.488801 2:+74798459 None:intergenic
GATACTGACGCAAATATTTG+CGG 0.490239 2:+74798503 None:intergenic
GCACCGGTAGGTCGTCGATC+TGG 0.491219 2:-74798217 MsaT010559.1:CDS
GAAGAGAAGAAGAAGGGATG+TGG 0.495564 2:-74797882 MsaT010559.1:CDS
TGCATTCTCTGAGAATCCTC+TGG 0.495574 2:+74797512 None:intergenic
TTAGGGCACAGAGAAGTTGC+AGG 0.496226 2:-74797857 MsaT010559.1:CDS
CATTCACACTCATCGATGCA+TGG 0.498820 2:-74798549 MsaT010559.1:CDS
AGATGGTTTACCGGCGAAGA+AGG 0.508465 2:-74798287 MsaT010559.1:CDS
ATCCTCCGGAAATTGCATCC+TGG 0.511074 2:+74797346 None:intergenic
CTTGATTCCGTACTTGGAGA+TGG 0.512696 2:-74798304 MsaT010559.1:CDS
ACATCGTCTCCGGAGAGCGC+GGG 0.521301 2:-74798067 MsaT010559.1:CDS
AGACGGAGATGGTTGAGCTT+CGG 0.525525 2:+74798612 None:intergenic
ACCGGTGCCAGCGCCCATGC+CGG 0.526811 2:+74798232 None:intergenic
GAAGAGGAAGAGAAGAAGAA+GGG 0.531702 2:-74797888 MsaT010559.1:CDS
TGCTGCAGCAGCTGAAGTGG+AGG 0.532586 2:-74797999 MsaT010559.1:CDS
TAGAGAGGTTACAAATGCTA+TGG 0.532608 2:-74797810 MsaT010559.1:CDS
ATTCACACTCATCGATGCAT+GGG 0.533565 2:-74798548 MsaT010559.1:CDS
TGCATCCTCTGAGAATCCTC+CGG 0.534323 2:+74797332 None:intergenic
TCAAGTACGGCGGATGAAGA+CGG 0.534701 2:+74798595 None:intergenic
AAATTGCATCCTGGGAGTCT+GGG 0.535734 2:+74797355 None:intergenic
AAGAGATTCTCAGACTCAAA+GGG 0.537731 2:-74797543 MsaT010559.1:CDS
CATCGTCTCCGGAGAGCGCG+GGG 0.541649 2:-74798066 MsaT010559.1:CDS
AGTGACAGCGACATCGTCTC+CGG 0.544618 2:-74798077 MsaT010559.1:CDS
CGACGTTGGATGTTCCGGCA+TGG 0.545666 2:-74798246 MsaT010559.1:CDS
TAGGGAATTAGGGTATAGAG+AGG 0.548147 2:-74797825 MsaT010559.1:CDS
GGCGAAGAAGGTCTCGCCGC+CGG 0.548455 2:-74798275 MsaT010559.1:CDS
GGACCAACCGTCTTCAAGTA+CGG 0.559818 2:+74798582 None:intergenic
GACATCGTCTCCGGAGAGCG+CGG 0.562955 2:-74798068 MsaT010559.1:CDS
GTTTCTGAGATGATACATTC+CGG 0.564710 2:+74798110 None:intergenic
CAAAGGATTCTCAGACTCAG+AGG 0.566977 2:-74797484 MsaT010559.1:CDS
GTAATTGAAATCCGAATCAT+CGG 0.570429 2:+74797946 None:intergenic
CGGTAAACCATCTCCAAGTA+CGG 0.570836 2:+74798297 None:intergenic
AAGTTGCAGGAAGAAAGGAT+AGG 0.572046 2:-74797844 MsaT010559.1:CDS
ACGGCGGATGAAGACGGAGA+TGG 0.575810 2:+74798601 None:intergenic
GCATGGGCGCTGGCACCGGT+AGG 0.578389 2:-74798229 MsaT010559.1:CDS
TGAGCAATGAGAGTAAGAAG+AGG 0.581587 2:-74797904 MsaT010559.1:CDS
GAGTGGAATCGTCGAAGCAG+CGG 0.582766 2:-74797763 MsaT010559.1:CDS
CCGCCGTACTTGAAGACGGT+TGG 0.582958 2:-74798585 MsaT010559.1:CDS
ATCATCGGAATCCGAATGAT+CGG 0.583356 2:+74797961 None:intergenic
TAAAGGATTCTCAGATTCGG+TGG 0.585078 2:-74797634 MsaT010559.1:CDS
GAGTGTGAATGTGGCATCGT+TGG 0.586106 2:+74798561 None:intergenic
GAGAATGTCGTCGGAGAGTG+CGG 0.587884 2:-74798152 MsaT010559.1:CDS
TCCAACGTCGGTTCAACCGG+CGG 0.597168 2:+74798259 None:intergenic
GACGACATTCTCACCTCCGC+AGG 0.606852 2:+74798163 None:intergenic
TAGTGAAGTACATGAAAGAG+TGG 0.609138 2:-74797780 MsaT010559.1:CDS
GGCGGCGAGACCTTCTTCGC+CGG 0.615455 2:+74798277 None:intergenic
TCAGAGGATACAATCTTCAG+AGG 0.616507 2:-74797588 MsaT010559.1:CDS
GCACCAGATCGACGACCTAC+CGG 0.617828 2:+74798214 None:intergenic
TCATCCGCCGTACTTGAAGA+CGG 0.619930 2:-74798589 MsaT010559.1:CDS
TGTATCATCTCAGAAACGAC+CGG 0.621725 2:-74798104 MsaT010559.1:CDS
CAGAGGATTCTCGGACTCAG+AGG 0.624663 2:-74797451 MsaT010559.1:CDS
TGCGGAGGTGAGAATGTCGT+CGG 0.624806 2:-74798161 MsaT010559.1:CDS
TCCCAGGATGCAATTTCCGG+AGG 0.634579 2:-74797348 MsaT010559.1:CDS
TTACGAAGCATATGATTCAG+AGG 0.636705 2:-74797927 MsaT010559.1:CDS
TCAGAGGATGCAATTTCCAG+AGG 0.645963 2:-74797435 MsaT010559.1:CDS
TCAGAGGATGCAATTTCCAG+AGG 0.645963 2:-74797468 MsaT010559.1:CDS
CACTCAGAAACAACCTGCGG+AGG 0.655092 2:-74798176 MsaT010559.1:CDS
CAGAGGATACAATCTTCAGA+GGG 0.656447 2:-74797587 MsaT010559.1:CDS
GCCGCCGGTTGAACCGACGT+TGG 0.657288 2:-74798260 MsaT010559.1:CDS
AATGTCGTCGGAGAGTGCGG+AGG 0.671139 2:-74798149 MsaT010559.1:CDS
TGCATCGATGAGTGTGAATG+TGG 0.673235 2:+74798552 None:intergenic
TTCACACTCATCGATGCATG+GGG 0.674550 2:-74798547 MsaT010559.1:CDS
TCAAAGGGTGCAATATCCAG+AGG 0.681673 2:-74797528 MsaT010559.1:CDS
AAAACCATCAATGACCATCA+CGG 0.688430 2:-74798463 MsaT010559.1:CDS
ATCGTCTCCGGAGAGCGCGG+GGG 0.695936 2:-74798065 MsaT010559.1:CDS
GATGTCGCTGTCACTGACGC+CGG 0.719561 2:+74798085 None:intergenic
GAACACTCAGAAACAACCTG+CGG 0.724373 2:-74798179 MsaT010559.1:CDS
AATCTTCAGAGGGTTCTCAG+AGG 0.735908 2:-74797577 MsaT010559.1:CDS
CATGCCGGAACATCCAACGT+CGG 0.742443 2:+74798247 None:intergenic
AATTTCCGGAGGATTCTCAG+AGG 0.761842 2:-74797337 MsaT010559.1:CDS
AATTTCCAGAGGATTCTCGG+AGG 0.786184 2:-74797424 MsaT010559.1:CDS
CCAACCGTCTTCAAGTACGG+CGG 0.791655 2:+74798585 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr2 gene 74797277 74798647 74797277 ID=MsaG010559
Chr2 mRNA 74797277 74798647 74797277 ID=MsaT010559.1;Parent=MsaG010559
Chr2 exon 74797277 74798647 74797277 ID=MsaT010559.1.exon1;Parent=MsaT010559.1
Chr2 CDS 74797277 74798647 74797277 ID=cds.MsaT010559.1;Parent=MsaT010559.1
Gene Sequence

>MsaT010559.1

ATGAAGTTCGTCACCGAAGCTCAACCATCTCCGTCTTCATCCGCCGTACTTGAAGACGGTTGGTCCAACGATGCCACATTCACACTCATCGATGCATGGGGCAAACTTTCCAAAACGCATAACCGCAAATATTTGCGTCAGTATCACTGGAAAGAGATAGCGAAAACCATCAATGACCATCACGGTTACTCTAGAAAAGAGCGTCGCACATACGTTCATTGCAAAAATCGATTCGAAGCGCTTAAGAAGAAGTACGCGATTGAAAAAGCTAGGGTTTCGGAAAACGAGTTTTACGATGATGAATGGGTGTTTTTCGAGAAACTTGATTCCGTACTTGGAGATGGTTTACCGGCGAAGAAGGTCTCGCCGCCGGTTGAACCGACGTTGGATGTTCCGGCATGGGCGCTGGCACCGGTAGGTCGTCGATCTGGTGCTCAGAGCACTCAGAACACTCAGAAACAACCTGCGGAGGTGAGAATGTCGTCGGAGAGTGCGGAGGAGGAGTCACGTTTTCGCCGGAATGTATCATCTCAGAAACGACCGGCGTCAGTGACAGCGACATCGTCTCCGGAGAGCGCGGGGGACTTACGTTTTCGGAGAAATTTATCTGCTTTTGCTGCAGCTGCTGCTGCAGCAGCTGAAGTGGAGGTTGATAATTCGGATTCCGATCATTCGGATTCCGATGATTCGGATTTCAATTACGAAGCATATGATTCAGAGGTGAGCAATGAGAGTAAGAAGAGGAAGAGAAGAAGAAGGGATGTGGAATTAGGGCACAGAGAAGTTGCAGGAAGAAAGGATAGGGAATTAGGGTATAGAGAGGTTACAAATGCTATGGAGAAGCTTAGTGAAGTACATGAAAGAGTGGAATCGTCGAAGCAGCGGAAAAATGTGGATTTGGAGAAACAGAAAATGCAGAAACAGAAGATGCAATTTTCAAAGGATTCTCAGAGGGTGCAATTTTCAGAAGGTTCTCAGAGAATGGAATTTTTAAAGGATTCTCAGATTCGGTGGATGCAATTTTTAGAGGAGCAGACTCAGAGGATACAATCTTCAGAGGGTTCTCAGAGGATGCAATTTTCAAGAGATTCTCAGACTCAAAGGGTGCAATATCCAGAGGATTCTCAGAGAATGCAATTTTCAAAGGATTCTCAGACTCAGAGGATGCAATTTCCAGAGGATTCTCGGACTCAGAGGATGCAATTTCCAGAGGATTCTCGGAGGATGCAATTTTCAAAGGATTCTCAGAGAATGCAATTTTCAAAGGATTCCCAGACTCCCAGGATGCAATTTCCGGAGGATTCTCAGAGGATGCAATTTTCAAAGGATTCTCAGAGAATGCAGCTGCAAAAAACCAACAACTCAAAGTGA
Protein sequence

>MsaT010559.1

MKFVTEAQPSPSSSAVLEDGWSNDATFTLIDAWGKLSKTHNRKYLRQYHWKEIAKTINDHHGYSRKERRTYVHCKNRFEALKKKYAIEKARVSENEFYDDEWVFFEKLDSVLGDGLPAKKVSPPVEPTLDVPAWALAPVGRRSGAQSTQNTQKQPAEVRMSSESAEEESRFRRNVSSQKRPASVTATSSPESAGDLRFRRNLSAFAAAAAAAAEVEVDNSDSDHSDSDDSDFNYEAYDSEVSNESKKRKRRRRDVELGHREVAGRKDRELGYREVTNAMEKLSEVHERVESSKQRKNVDLEKQKMQKQKMQFSKDSQRVQFSEGSQRMEFLKDSQIRWMQFLEEQTQRIQSSEGSQRMQFSRDSQTQRVQYPEDSQRMQFSKDSQTQRMQFPEDSRTQRMQFPEDSRRMQFSKDSQRMQFSKDSQTPRMQFPEDSQRMQFSKDSQRMQLQKTNNSK*