AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG020722

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG020722 MtrunA17_Chr4g0030421 89.552 134 12 2 1 134 1 132 8.05e-75 218
MsaG020722 MtrunA17_Chr2g0327621 64.122 131 43 3 4 134 125 251 2.23e-48 155
MsaG020722 MtrunA17_Chr8g0387241 62.121 66 24 1 14 79 205 269 1.78e-21 87.4
MsaG020722 MtrunA17_Chr1g0168401 50.000 88 41 2 20 106 304 389 4.25e-21 87.4
MsaG020722 MtrunA17_Chr1g0186171 59.016 61 25 0 20 80 301 361 2.43e-19 82.4
MsaG020722 MtrunA17_Chr2g0311591 61.290 62 24 0 20 81 155 216 6.97e-19 79.7
MsaG020722 MtrunA17_Chr5g0397361 59.322 59 24 0 21 79 159 217 7.94e-18 76.6
MsaG020722 MtrunA17_Chr1g0147111 41.176 85 44 2 1 80 194 277 2.76e-16 73.2
MsaG020722 MtrunA17_Chr3g0126721 61.224 49 19 0 31 79 226 274 4.74e-16 72.4
MsaG020722 MtrunA17_Chr1g0150471 47.368 57 30 0 27 83 247 303 3.92e-12 62.0
MsaG020722 MtrunA17_Chr7g0220721 44.444 54 30 0 27 80 319 372 5.75e-11 58.5
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG020722 AT5G59990.1 56.731 104 37 3 10 113 139 234 6.35e-24 92.8
MsaG020722 AT5G41380.1 53.488 86 28 1 21 106 201 274 1.14e-23 93.6
MsaG020722 AT1G63820.1 55.696 79 31 1 10 84 163 241 8.42e-23 90.9
MsaG020722 AT2G33350.2 76.000 50 12 0 31 80 306 355 2.09e-21 88.6
MsaG020722 AT2G33350.4 76.000 50 12 0 31 80 295 344 2.18e-21 88.6
MsaG020722 AT2G33350.1 76.000 50 12 0 31 80 307 356 2.23e-21 88.6
MsaG020722 AT2G33350.5 76.000 50 12 0 31 80 315 364 2.73e-21 88.2
MsaG020722 AT1G04500.4 72.000 50 14 0 31 80 284 333 9.97e-20 83.6
MsaG020722 AT1G04500.1 72.000 50 14 0 31 80 284 333 9.97e-20 83.6
MsaG020722 AT1G04500.3 72.000 50 14 0 31 80 275 324 1.08e-19 83.6
MsaG020722 AT3G12890.1 57.746 71 30 0 30 100 134 204 1.13e-19 82.0
MsaG020722 AT4G27900.1 41.463 82 46 1 1 80 178 259 4.55e-17 75.1
MsaG020722 AT4G27900.2 41.463 82 46 1 1 80 178 259 4.55e-17 75.1
MsaG020722 AT5G53420.2 42.188 64 37 0 16 79 120 183 2.06e-15 69.3
MsaG020722 AT5G53420.5 42.188 64 37 0 16 79 120 183 2.06e-15 69.3
MsaG020722 AT5G53420.4 42.188 64 37 0 16 79 120 183 2.06e-15 69.3
MsaG020722 AT5G53420.1 42.188 64 37 0 16 79 199 262 5.38e-15 69.7
MsaG020722 AT2G24790.1 46.479 71 35 1 9 76 200 270 3.69e-14 67.8

Find 30 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CCTCTCCATCATTATTAATA+TGG 0.215056 4:-57725809 None:intergenic
AGACACTATATGAGGAATTA+TGG 0.234337 4:-57725917 None:intergenic
AAGATGAGGAAGAAGAGAAT+TGG 0.325488 4:+57725838 MsaT020722.1:CDS
TTAATATGGCTCCATTGATT+TGG 0.330401 4:-57725795 None:intergenic
GAACTACAATAAGAAAATTA+AGG 0.352434 4:+57723454 MsaT020722.1:CDS
GACTCGTCATGAGCAAGATT+TGG 0.366759 4:-57725891 None:intergenic
GACACTATATGAGGAATTAT+GGG 0.370530 4:-57725916 None:intergenic
AGATGAGGAAGAAGAGAATT+GGG 0.375443 4:+57725839 MsaT020722.1:CDS
TTCCTCTGGGCTGTAAGGAC+TGG 0.386798 4:-57723387 None:intergenic
GACAGTAGGCCACGTATTAG+AGG 0.396649 4:+57725735 MsaT020722.1:CDS
TTGGGAATCAGTATGTTTGT+AGG 0.430394 4:+57725700 MsaT020722.1:intron
ATCAGATAGTCCTTTGTTAA+CGG 0.432485 4:+57723328 MsaT020722.1:CDS
ATATGGCTCCATTGATTTGG+TGG 0.458606 4:-57725792 None:intergenic
TGGAGCCATATTAATAATGA+TGG 0.462252 4:+57725804 MsaT020722.1:CDS
TAATGAATCCACCAAATCAA+TGG 0.463510 4:+57725784 MsaT020722.1:CDS
TTAATACAAGACACTATATG+AGG 0.478126 4:-57725925 None:intergenic
GGACAGTTTATTTGATACAT+TGG 0.482895 4:+57725860 MsaT020722.1:CDS
TGGAGAGGAATTAGAAGATG+AGG 0.517815 4:+57725824 MsaT020722.1:CDS
TTACAGCCCAGAGGAAAAGA+AGG 0.592097 4:+57723394 MsaT020722.1:CDS
ACAGTAGGCCACGTATTAGA+GGG 0.598648 4:+57725736 MsaT020722.1:CDS
GTATGTTTGTAGGAAGACAT+TGG 0.609319 4:+57725710 MsaT020722.1:intron
GCCCAGAGGAAAAGAAGGTG+AGG 0.612843 4:+57723399 MsaT020722.1:CDS
GGAAGACATTGGCAGACAGT+AGG 0.616987 4:+57725721 MsaT020722.1:CDS
TCATGAGCAAGATTTGGAGT+AGG 0.623530 4:-57725885 None:intergenic
CCATATTAATAATGATGGAG+AGG 0.627865 4:+57725809 MsaT020722.1:CDS
ATAGAAGCAAGAGAAATCAG+AGG 0.650504 4:+57723432 MsaT020722.1:CDS
ATGTTACTCTCCGTTAACAA+AGG 0.656013 4:-57723338 None:intergenic
ACACTATATGAGGAATTATG+GGG 0.665187 4:-57725915 None:intergenic
AGCCAGTCCTTACAGCCCAG+AGG 0.687171 4:+57723385 MsaT020722.1:CDS
GCAAATCTCCCTCTAATACG+TGG 0.703686 4:-57725744 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr4 gene 57723308 57725947 57723308 ID=MsaG020722
Chr4 mRNA 57723308 57725947 57723308 ID=MsaT020722.1;Parent=MsaG020722
Chr4 exon 57723308 57723475 57723308 ID=MsaT020722.1.exon1;Parent=MsaT020722.1
Chr4 CDS 57723308 57723475 57723308 ID=cds.MsaT020722.1;Parent=MsaT020722.1
Chr4 exon 57725711 57725947 57725711 ID=MsaT020722.1.exon2;Parent=MsaT020722.1
Chr4 CDS 57725711 57725947 57725711 ID=cds.MsaT020722.1;Parent=MsaT020722.1
Gene Sequence

>MsaT020722.1

ATGCAACAATATCATCATCAATCAGATAGTCCTTTGTTAACGGAGAGTAACATGATCATAGAAGAAATGAGCAGAGCAGCCAGTCCTTACAGCCCAGAGGAAAAGAAGGTGAGGATTGAGAGATATAGAAGCAAGAGAAATCAGAGGAACTACAATAAGAAAATTAAGTATGTTTGTAGGAAGACATTGGCAGACAGTAGGCCACGTATTAGAGGGAGATTTGCTAAGAATGATGAAATTGTAATGAATCCACCAAATCAATGGAGCCATATTAATAATGATGGAGAGGAATTAGAAGATGAGGAAGAAGAGAATTGGGACAGTTTATTTGATACATTGGTTCCTACTCCAAATCTTGCTCATGACGAGTCTCCCCATAATTCCTCATATAGTGTCTTGTATTAA
Protein sequence

>MsaT020722.1

MQQYHHQSDSPLLTESNMIIEEMSRAASPYSPEEKKVRIERYRSKRNQRNYNKKIKYVCRKTLADSRPRIRGRFAKNDEIVMNPPNQWSHINNDGEELEDEEEENWDSLFDTLVPTPNLAHDESPHNSSYSVLY*