AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG034376

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG034376 MtrunA17_Chr6g0485241 96.515 373 6 3 1 369 1 370 0.0 717
MsaG034376 MtrunA17_Chr2g0331931 52.193 228 97 5 126 348 273 493 1.06e-58 197
MsaG034376 MtrunA17_Chr8g0344681 28.731 268 143 6 127 347 68 334 7.80e-22 95.5
MsaG034376 MtrunA17_Chr4g0041151 37.190 121 58 4 113 216 5 124 6.40e-17 80.5
MsaG034376 MtrunA17_Chr1g0179531 38.235 102 60 2 125 225 131 230 4.77e-16 79.3
MsaG034376 MtrunA17_Chr2g0283871 35.106 94 56 2 127 216 23 115 2.84e-15 75.9
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG034376 AT3G24490.1 45.634 355 148 8 1 355 1 310 6.54e-84 258
MsaG034376 AT3G58630.2 26.712 292 157 7 109 347 7 294 1.49e-26 108
MsaG034376 AT3G58630.1 26.712 292 157 7 109 347 7 294 1.98e-26 107
MsaG034376 AT3G10030.2 35.714 154 93 4 68 219 103 252 4.69e-19 89.0
MsaG034376 AT3G10030.1 35.714 154 93 4 68 219 103 252 7.53e-19 88.6
MsaG034376 AT3G14180.1 37.405 131 65 4 98 221 58 178 1.22e-17 84.3
MsaG034376 AT5G05550.3 32.035 231 123 7 127 345 24 232 1.73e-17 81.6
MsaG034376 AT5G05550.1 32.035 231 123 7 127 345 24 232 2.07e-17 81.3
MsaG034376 AT5G05550.2 32.035 231 123 7 127 345 24 232 2.89e-17 80.9
MsaG034376 AT1G54060.1 28.462 260 141 8 127 345 94 349 1.88e-16 80.5
MsaG034376 AT3G11100.1 32.174 230 129 6 127 345 22 235 2.71e-16 78.2
MsaG034376 AT3G24860.1 35.870 92 53 1 127 218 65 150 5.58e-13 69.3

Find 87 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GCTGATTCGATTCAGAAATT+TGG 0.112221 6:+111543965 MsaT034376.1:CDS
GTTGCAGAAGAAGCAGATTT+TGG 0.210644 6:+111544075 MsaT034376.1:CDS
TGGGATTAAGTTCTTGTAAA+TGG 0.218020 6:+111543684 MsaT034376.1:CDS
GGAGGCTTCGTATAGGATTT+TGG 0.224205 6:+111543943 MsaT034376.1:CDS
CTTGCTTGTGGTGTTGATTC+GGG 0.238266 6:+111543764 MsaT034376.1:CDS
GGTGAGAAGTTTCTTCAAAT+TGG 0.239028 6:+111543506 MsaT034376.1:CDS
CTGATTCGATTCAGAAATTT+GGG 0.270259 6:+111543966 MsaT034376.1:CDS
CGTTTGTGTTGTTAGAGATA+TGG 0.280545 6:+111543483 MsaT034376.1:CDS
TCGAGTTCTGTCCATTCCTC+TGG 0.317779 6:+111543434 MsaT034376.1:CDS
AGAATGGATGAGATGGGTTT+GGG 0.330760 6:+111543665 MsaT034376.1:CDS
AGACGATGAACCCGAAGAAT+TGG 0.331680 6:+111543226 MsaT034376.1:CDS
TGATATTGTAAGTTACGAAT+TGG 0.332259 6:-111543173 None:intergenic
ACTTGCTTGTGGTGTTGATT+CGG 0.332404 6:+111543763 MsaT034376.1:CDS
GTTATAATCATCCAATTCTT+CGG 0.346891 6:-111543237 None:intergenic
TTATAATCATCCAATTCTTC+GGG 0.361002 6:-111543236 None:intergenic
GTGAGAAGTTTCTTCAAATT+GGG 0.369920 6:+111543507 MsaT034376.1:CDS
TAGAATGGATGAGATGGGTT+TGG 0.395377 6:+111543664 MsaT034376.1:CDS
AACGTAGATGAAGACGGAAT+TGG 0.404212 6:+111543257 MsaT034376.1:CDS
GATGAAGACGGAATTGGAAA+TGG 0.406005 6:+111543263 MsaT034376.1:CDS
GAAGAGTAGAATGGATGAGA+TGG 0.406263 6:+111543658 MsaT034376.1:CDS
GTTTGTGTTGTTAGAGATAT+GGG 0.412812 6:+111543484 MsaT034376.1:CDS
TCGAGTGCGAGGCAAGAGTA+TGG 0.422063 6:+111543740 MsaT034376.1:CDS
GATATTGTAAGTTACGAATT+GGG 0.429997 6:-111543172 None:intergenic
ATACGAGGGTTTATTTGAAT+AGG 0.432946 6:+111543804 MsaT034376.1:CDS
GATTCTAGATATCCATCAAA+AGG 0.456064 6:+111543107 MsaT034376.1:CDS
AAGAGTAGAATGGATGAGAT+GGG 0.457358 6:+111543659 MsaT034376.1:CDS
TAAGAAAGAGAAGAGTAGAA+TGG 0.459638 6:+111543649 MsaT034376.1:CDS
TTATGAATTGTTGCCGCCAT+GGG 0.464247 6:+111543373 MsaT034376.1:CDS
CTGAGGAGTTGAAAGTTGAA+AGG 0.467561 6:+111543579 MsaT034376.1:CDS
GGAGTTGGAGAAGGTGAGGT+TGG 0.470646 6:+111544033 MsaT034376.1:CDS
TACTAAGAGGCAGCAGATGA+TGG 0.471716 6:+111544012 MsaT034376.1:CDS
GGCTGAAATATCGAAAATAC+AGG 0.472979 6:+111544108 MsaT034376.1:CDS
GGAATTGGAAATGGGTATGT+TGG 0.473631 6:+111543272 MsaT034376.1:CDS
CGAGTTCTGTCCATTCCTCT+GGG 0.474330 6:+111543435 MsaT034376.1:CDS
ATGAAGACGGAATTGGAAAT+GGG 0.477798 6:+111543264 MsaT034376.1:CDS
ATTCCTCTGGGTCGGAGGAA+TGG 0.482329 6:+111543447 MsaT034376.1:CDS
TTCTGTCCATTCCTCTGGGT+CGG 0.485623 6:+111543439 MsaT034376.1:CDS
GTGTAGGAGTGTATTGGATA+AGG 0.493185 6:+111543613 MsaT034376.1:CDS
AAGAGGAGGAGGCTTCGTAT+AGG 0.493270 6:+111543936 MsaT034376.1:CDS
GAGGCAGCAGATGATGGAGT+TGG 0.497714 6:+111544018 MsaT034376.1:CDS
GTGTATTGGATAAGGTGAAG+AGG 0.499755 6:+111543621 MsaT034376.1:CDS
ATTATGAATTGTTGCCGCCA+TGG 0.507987 6:+111543372 MsaT034376.1:CDS
GGATGATGTCGATAGGGAAG+AGG 0.514505 6:+111543919 MsaT034376.1:CDS
TGATGTCGATAGGGAAGAGG+AGG 0.521958 6:+111543922 MsaT034376.1:CDS
TGTCGATAGGGAAGAGGAGG+AGG 0.528458 6:+111543925 MsaT034376.1:CDS
CTTCAATTCAATGGACGACA+TGG 0.528859 6:+111543079 None:intergenic
AGAAGATTGAGAATACTAAG+AGG 0.533617 6:+111543999 MsaT034376.1:CDS
TTGCTTGTGGTGTTGATTCG+GGG 0.537559 6:+111543765 MsaT034376.1:CDS
TTAGGGTTCTTGCGTCGTAA+AGG 0.541176 6:-111543134 None:intergenic
CGATGAGGATGATGTCGATA+GGG 0.548936 6:+111543913 MsaT034376.1:CDS
ATTCCTCCGACCCAGAGGAA+TGG 0.555282 6:-111543445 None:intergenic
TTGTTGCCGCCATGGGGCAG+TGG 0.558563 6:+111543380 MsaT034376.1:CDS
AGAAGTTTCTTCAAATTGGG+AGG 0.559816 6:+111543510 MsaT034376.1:CDS
GGCACAGTGTAGGAGTGTAT+TGG 0.561474 6:+111543607 MsaT034376.1:CDS
GCAGATGATGGAGTTGGAGA+AGG 0.562220 6:+111544024 MsaT034376.1:CDS
TGTTGATGTCGTCGAGTGCG+AGG 0.562615 6:+111543729 MsaT034376.1:CDS
ATTCTAGATATCCATCAAAA+GGG 0.562963 6:+111543108 MsaT034376.1:CDS
AAAGGAATGTGGCACAGTGT+AGG 0.572005 6:+111543597 MsaT034376.1:CDS
GTTTATTTGAATAGGTCGAA+TGG 0.582744 6:+111543812 MsaT034376.1:CDS
TCGACACAGAACCGCCACTA+GGG 0.582871 6:-111543349 None:intergenic
GCGATGAGGATGATGTCGAT+AGG 0.584075 6:+111543912 MsaT034376.1:CDS
TGTCCATTCCTCTGGGTCGG+AGG 0.586004 6:+111543442 MsaT034376.1:CDS
GAGGAATAGTTTGAGATCAG+AGG 0.586253 6:+111543529 MsaT034376.1:CDS
GGATGATGATGACGAGGATG+AGG 0.587237 6:+111543880 MsaT034376.1:CDS
TCAGAACTCTCAGACTCACC+AGG 0.597701 6:-111543857 None:intergenic
TGGTGAGTCTGAGAGTTCTG+AGG 0.600777 6:+111543859 MsaT034376.1:CDS
TTCGACACAGAACCGCCACT+AGG 0.617245 6:-111543350 None:intergenic
TGATGGAGTTGGAGAAGGTG+AGG 0.617953 6:+111544029 MsaT034376.1:CDS
ATAGTTTGAGATCAGAGGAA+TGG 0.618950 6:+111543534 MsaT034376.1:CDS
ATGCGAAGTGGCCCTAGTGG+CGG 0.619751 6:+111543338 MsaT034376.1:CDS
GAAAATTTACCACTGCCCCA+TGG 0.622030 6:-111543389 None:intergenic
GTATGTGTTTATGAATACGA+GGG 0.625375 6:+111543790 MsaT034376.1:CDS
TGCTTGTGGTGTTGATTCGG+GGG 0.626912 6:+111543766 MsaT034376.1:CDS
GATTATAACGTAGATGAAGA+CGG 0.628195 6:+111543251 MsaT034376.1:CDS
AGTTGCTGAGAAAGTTTCTG+AGG 0.628405 6:+111543562 MsaT034376.1:CDS
CAAGAGTATGGACTTGCTTG+TGG 0.630579 6:+111543752 MsaT034376.1:CDS
AGTATGTGTTTATGAATACG+AGG 0.642246 6:+111543789 MsaT034376.1:CDS
GATGAGATGAGGGATAGTCC+TGG 0.643244 6:+111543839 MsaT034376.1:CDS
TATGAATTGTTGCCGCCATG+GGG 0.651070 6:+111543374 MsaT034376.1:CDS
GTTGAAAGTTGAAAGGAATG+TGG 0.654797 6:+111543586 MsaT034376.1:CDS
TTTGTGTTGTTAGAGATATG+GGG 0.660660 6:+111543485 MsaT034376.1:CDS
GAAGCAGTAGATGATGCTGA+TGG 0.667219 6:+111544130 MsaT034376.1:CDS
AAAATGCGAAGTGGCCCTAG+TGG 0.671315 6:+111543335 MsaT034376.1:CDS
TGTCCATTCCTCCGACCCAG+AGG 0.680725 6:-111543450 None:intergenic
TGATGCTGATGGCGACGATG+AGG 0.685599 6:+111544141 MsaT034376.1:CDS
TTCTGAGGATGATGATGACG+AGG 0.701853 6:+111543874 MsaT034376.1:CDS
AATTTACCACTGCCCCATGG+CGG 0.737952 6:-111543386 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr6 gene 111543089 111544198 111543089 ID=MsaG034376
Chr6 mRNA 111543089 111544198 111543089 ID=MsaT034376.1;Parent=MsaG034376
Chr6 exon 111543089 111544198 111543089 ID=MsaT034376.1.exon1;Parent=MsaT034376.1
Chr6 CDS 111543089 111544198 111543089 ID=cds.MsaT034376.1;Parent=MsaT034376.1
Gene Sequence

>MsaT034376.1

ATGGACGACATGGAAGACGATTCTAGATATCCATCAAAAGGGTATCCTTTACGACGCAAGAACCCTAATCTTCGTCAAAAACACCCAATTCGTAACTTACAATATCAACGCTACAACGATCGCGAAGAAGATTTCGAAGACGATGAACCCGAAGAATTGGATGATTATAACGTAGATGAAGACGGAATTGGAAATGGGTATGTTGGAAATTTTGAAGAAAATGTTGGGTTTGTTAGAAAAAAGAGAAAAATGCGAAGTGGCCCTAGTGGCGGTTCTGTGTCGAATTATGAATTGTTGCCGCCATGGGGCAGTGGTAAATTTTCGAACTTTAATCGTGGTGGAAGTTCGAGTTCTGTCCATTCCTCTGGGTCGGAGGAATGGACAGAACACGCGACGTTTGTGTTGTTAGAGATATGGGGTGAGAAGTTTCTTCAAATTGGGAGGAATAGTTTGAGATCAGAGGAATGGCATGAAGTTGCTGAGAAAGTTTCTGAGGAGTTGAAAGTTGAAAGGAATGTGGCACAGTGTAGGAGTGTATTGGATAAGGTGAAGAGGAGATATAAGAAAGAGAAGAGTAGAATGGATGAGATGGGTTTGGGATTAAGTTCTTGTAAATGGCCATTTTTCAAGAAGATGGATATGTTGATGTCGTCGAGTGCGAGGCAAGAGTATGGACTTGCTTGTGGTGTTGATTCGGGGGAGTATGTGTTTATGAATACGAGGGTTTATTTGAATAGGTCGAATGGTTTTGATGAGATGAGGGATAGTCCTGGTGAGTCTGAGAGTTCTGAGGATGATGATGACGAGGATGAGGATTTTGATGGCGATGAGGATGATGTCGATAGGGAAGAGGAGGAGGCTTCGTATAGGATTTTGGCTGATTCGATTCAGAAATTTGGGAATATATATGAGAAGATTGAGAATACTAAGAGGCAGCAGATGATGGAGTTGGAGAAGGTGAGGTTGGATTTTAATAGGGACTTGGAGTTGCAGAAGAAGCAGATTTTGGATAGGGCTCAGGCTGAAATATCGAAAATACAGGAAGCAGTAGATGATGCTGATGGCGACGATGAGGACACAGACACTTCTGCTGATAATCTCAGTGAATAA
Protein sequence

>MsaT034376.1

MDDMEDDSRYPSKGYPLRRKNPNLRQKHPIRNLQYQRYNDREEDFEDDEPEELDDYNVDEDGIGNGYVGNFEENVGFVRKKRKMRSGPSGGSVSNYELLPPWGSGKFSNFNRGGSSSSVHSSGSEEWTEHATFVLLEIWGEKFLQIGRNSLRSEEWHEVAEKVSEELKVERNVAQCRSVLDKVKRRYKKEKSRMDEMGLGLSSCKWPFFKKMDMLMSSSARQEYGLACGVDSGEYVFMNTRVYLNRSNGFDEMRDSPGESESSEDDDDEDEDFDGDEDDVDREEEEASYRILADSIQKFGNIYEKIENTKRQQMMELEKVRLDFNRDLELQKKQILDRAQAEISKIQEAVDDADGDDEDTDTSADNLSE*