AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG005901

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG005901 MtrunA17_Chr1g0213141 78.049 246 41 4 93 329 2 243 2.49e-122 351
MsaG005901 MtrunA17_Chr1g0213131 94.915 59 3 0 28 86 141 199 8.89e-34 123
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG005901 AT3G55080.4 50.470 319 146 5 20 328 27 343 3.32e-102 304
MsaG005901 AT3G55080.3 50.470 319 146 5 20 328 58 374 7.76e-102 304
MsaG005901 AT3G55080.5 50.470 319 146 5 20 328 58 374 7.76e-102 304
MsaG005901 AT3G55080.1 50.470 319 146 5 20 328 142 458 9.98e-101 304
MsaG005901 AT3G55080.2 49.691 324 146 6 20 328 27 348 1.10e-99 298

Find 69 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CATTATGCTCCGCAATTAAT+TGG 0.158521 1:-86432486 None:intergenic
ACTCGAGCCCTTTGCATCTT+TGG 0.240609 1:-86431468 None:intergenic
TCTTTCTTGTACCACTCTTC+AGG 0.243444 1:+86432201 MsaT005901.1:CDS
CCGTCAAAGTTCAGTTTATC+AGG 0.269055 1:+86421825 MsaT005901.1:CDS
TTTCAGGTGCTTATAAGATA+TGG 0.280416 1:+86431149 MsaT005901.1:intron
GCTGGCTAGGCGCCCTTTAC+AGG 0.304269 1:+86432414 MsaT005901.1:CDS
GATCCTCTGTCACACAAAAT+TGG 0.312952 1:+86431415 MsaT005901.1:CDS
TATTATGCATCTCGGCTTGC+GGG 0.336854 1:-86421627 None:intergenic
GGAGCATAATGCAGCTATTA+TGG 0.347092 1:+86432498 MsaT005901.1:CDS
AATCACTTCGTGCACTTGCT+CGG 0.349523 1:+86432176 MsaT005901.1:CDS
CCTGATAAACTGAACTTTGA+CGG 0.359051 1:-86421825 None:intergenic
TCTGATCGTGATTATGTTCC+TGG 0.368828 1:+86425109 MsaT005901.1:CDS
CTTTGTTCATATCCTGTAAA+GGG 0.388424 1:-86432426 None:intergenic
CCCTTTGCATCTTTGGTTGG+AGG 0.393470 1:-86431461 None:intergenic
CTTTCTTGTACCACTCTTCA+GGG 0.401046 1:+86432202 MsaT005901.1:CDS
TCGAGCCATTGCCTTCTAAC+AGG 0.406798 1:-86432801 None:intergenic
ATCACTTCGTGCACTTGCTC+GGG 0.429403 1:+86432177 MsaT005901.1:CDS
ACCTGATCATAAATGTTGTA+TGG 0.431705 1:-86431218 None:intergenic
GTGAAAGACTTCCTGTTAGA+AGG 0.434805 1:+86432790 MsaT005901.1:CDS
TCCATACAACATTTATGATC+AGG 0.435626 1:+86431217 MsaT005901.1:CDS
AATGCCAGAGCTTAACCATT+TGG 0.439954 1:+86432363 MsaT005901.1:intron
TGATTATGTTCCTGGTGAAC+AGG 0.442198 1:+86425117 MsaT005901.1:CDS
TCTTTGTTCATATCCTGTAA+AGG 0.450034 1:-86432427 None:intergenic
TTCAAATGCTACATTGATGC+TGG 0.452747 1:+86431178 MsaT005901.1:CDS
GAGCCCTTTGCATCTTTGGT+TGG 0.452887 1:-86431464 None:intergenic
CCAAAAGTCTCAAATTGAAA+AGG 0.459340 1:+86421858 MsaT005901.1:CDS
GCTACATTGATGCTGGACTT+TGG 0.464448 1:+86431185 MsaT005901.1:CDS
CAAATCTGCTTCTACCTGGC+TGG 0.469867 1:+86432851 MsaT005901.1:CDS
AAACTGATGGTAGGCTGGCT+AGG 0.476607 1:+86432401 MsaT005901.1:CDS
CAGATTTCTTGAATCATGAC+GGG 0.480634 1:+86424517 MsaT005901.1:CDS
GTGCAGCCTCCGTGACCAAA+TGG 0.495854 1:-86432378 None:intergenic
CATACTTAGGTATATCGTAC+TGG 0.499200 1:-86431393 None:intergenic
GACCAGTTGGCTCTAGAGCA+TGG 0.502799 1:+86424385 MsaT005901.1:intron
AAGCACAAAGGGTTTATCTC+TGG 0.505327 1:+86424410 MsaT005901.1:CDS
TGCACAAACTGATGGTAGGC+TGG 0.508432 1:+86432396 MsaT005901.1:CDS
TGTGACAGAGGATCATACTT+AGG 0.513300 1:-86431406 None:intergenic
ACCAGTTGGCTCTAGAGCAT+GGG 0.517262 1:+86424386 MsaT005901.1:intron
ACAACATGCCATTGTATGAC+AGG 0.520242 1:+86421570 None:intergenic
GCAAGCCGAGATGCATAATA+CGG 0.530146 1:+86421630 MsaT005901.1:CDS
GTATTATGCATCTCGGCTTG+CGG 0.530651 1:-86421628 None:intergenic
AGAGCATGGGGAAGCACAAA+GGG 0.532315 1:+86424399 MsaT005901.1:CDS
TTCTCAAATCTGCTTCTACC+TGG 0.536097 1:+86432847 MsaT005901.1:CDS
GCCTCCAACCAAAGATGCAA+AGG 0.545403 1:+86431460 MsaT005901.1:CDS
ACTTGCCGTATTATGCATCT+CGG 0.546722 1:-86421635 None:intergenic
TTCATGCATGCATGCGCACT+AGG 0.547297 1:+86422813 MsaT005901.1:CDS
TAGTATTTGACCTGTTCACC+AGG 0.550072 1:-86425127 None:intergenic
GCAGATTTCTTGAATCATGA+CGG 0.555755 1:+86424516 MsaT005901.1:CDS
TTGTATGACAGGACTCTGAA+TGG 0.556237 1:+86421581 MsaT005901.1:CDS
AATTAATTGGATGAATAATG+AGG 0.556334 1:-86432473 None:intergenic
GCAAGTGCACGAAGTGATTG+TGG 0.565446 1:-86432172 None:intergenic
ATTATTCATCCAATTAATTG+CGG 0.565451 1:+86432477 MsaT005901.1:CDS
CCTCCAACCAAAGATGCAAA+GGG 0.571025 1:+86431461 MsaT005901.1:CDS
AACAGGAAGTCTTTCACTCG+AGG 0.574466 1:-86432784 None:intergenic
GACTTCCTGTTAGAAGGCAA+TGG 0.578579 1:+86432796 MsaT005901.1:CDS
ATTATGCATCTCGGCTTGCG+GGG 0.583027 1:-86421626 None:intergenic
AAAACAGTAGTTCTCCAGCC+AGG 0.585984 1:-86432865 None:intergenic
ACGGAGGCTGCACAAACTGA+TGG 0.603336 1:+86432388 MsaT005901.1:CDS
AAGTGCAAACTTGATTGTGA+AGG 0.605155 1:-86431503 None:intergenic
TAGAGCATGGGGAAGCACAA+AGG 0.605458 1:+86424398 MsaT005901.1:CDS
AGAGCTTAACCATTTGGTCA+CGG 0.610389 1:+86432369 MsaT005901.1:intron
AGGCTGCACAAACTGATGGT+AGG 0.613383 1:+86432392 MsaT005901.1:CDS
TTATGCATCTCGGCTTGCGG+GGG 0.622308 1:-86421625 None:intergenic
TTCTGCTGGAGGAAAAGGAA+GGG 0.623833 1:+86432145 MsaT005901.1:intron
CCAGTTGGCTCTAGAGCATG+GGG 0.627133 1:+86424387 MsaT005901.1:intron
TGTTTACACACCCTGAAGAG+TGG 0.628835 1:-86432212 None:intergenic
TTCAGAGTCCTGTCATACAA+TGG 0.645352 1:-86421578 None:intergenic
ATTTACTGACCATCAAGTCA+AGG 0.654900 1:-86432889 None:intergenic
ATTCTGCTGGAGGAAAAGGA+AGG 0.675441 1:+86432144 MsaT005901.1:intron
GCTTAACCATTTGGTCACGG+AGG 0.739786 1:+86432372 MsaT005901.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr1 gene 86421575 86432899 86421575 ID=MsaG005901
Chr1 mRNA 86421575 86432899 86421575 ID=MsaT005901.1;Parent=MsaG005901
Chr1 exon 86421575 86421655 86421575 ID=MsaT005901.1.exon1;Parent=MsaT005901.1
Chr1 CDS 86421575 86421655 86421575 ID=cds.MsaT005901.1;Parent=MsaT005901.1
Chr1 exon 86421793 86421900 86421793 ID=MsaT005901.1.exon2;Parent=MsaT005901.1
Chr1 CDS 86421793 86421900 86421793 ID=cds.MsaT005901.1;Parent=MsaT005901.1
Chr1 exon 86422765 86422834 86422765 ID=MsaT005901.1.exon3;Parent=MsaT005901.1
Chr1 CDS 86422765 86422834 86422765 ID=cds.MsaT005901.1;Parent=MsaT005901.1
Chr1 exon 86424391 86424431 86424391 ID=MsaT005901.1.exon4;Parent=MsaT005901.1
Chr1 CDS 86424391 86424431 86424391 ID=cds.MsaT005901.1;Parent=MsaT005901.1
Chr1 exon 86424507 86424587 86424507 ID=MsaT005901.1.exon5;Parent=MsaT005901.1
Chr1 CDS 86424507 86424587 86424507 ID=cds.MsaT005901.1;Parent=MsaT005901.1
Chr1 exon 86425103 86425138 86425103 ID=MsaT005901.1.exon6;Parent=MsaT005901.1
Chr1 CDS 86425103 86425138 86425103 ID=cds.MsaT005901.1;Parent=MsaT005901.1
Chr1 exon 86431155 86431238 86431155 ID=MsaT005901.1.exon7;Parent=MsaT005901.1
Chr1 CDS 86431155 86431238 86431155 ID=cds.MsaT005901.1;Parent=MsaT005901.1
Chr1 exon 86431385 86431515 86431385 ID=MsaT005901.1.exon8;Parent=MsaT005901.1
Chr1 CDS 86431385 86431515 86431385 ID=cds.MsaT005901.1;Parent=MsaT005901.1
Chr1 exon 86432156 86432223 86432156 ID=MsaT005901.1.exon9;Parent=MsaT005901.1
Chr1 CDS 86432156 86432223 86432156 ID=cds.MsaT005901.1;Parent=MsaT005901.1
Chr1 exon 86432371 86432519 86432371 ID=MsaT005901.1.exon10;Parent=MsaT005901.1
Chr1 CDS 86432371 86432519 86432371 ID=cds.MsaT005901.1;Parent=MsaT005901.1
Chr1 exon 86432759 86432899 86432759 ID=MsaT005901.1.exon11;Parent=MsaT005901.1
Chr1 CDS 86432759 86432899 86432759 ID=cds.MsaT005901.1;Parent=MsaT005901.1
Gene Sequence

>MsaT005901.1

ATGCCATTGTATGACAGGACTCTGAATGGCATCCTTATGTCAGCTGTCTTCCCCCGCAAGCCGAGATGCATAATACGGCAAATATTTTGGAATGAAAGCGAGTTGGAGATGATCCGTCAAAGTTCAGTTTATCAGGAAACTATTTACCAAAAGTCTCAAATTGAAAAGGACTTTTTGGCAATCAAGCCCGTTTTTCAATCATTTTGTCAAAGTTTTGGAGATTTTACTTGGAAGGACTTCATGCATGCATGCGCACTAGTTGGCTCTAGAGCATGGGGAAGCACAAAGGGTTTATCTCTGATTGCATTTGCAGATTTCTTGAATCATGACGGGACTTCAGAAGCAATTGTAATGAGTGATGACGACAATAAATGCTCAGAAGTGATCTCTGATCGTGATTATGTTCCTGGTGAACAGGTGCTTATAAGATATGGAAAGTTTTCAAATGCTACATTGATGCTGGACTTTGGTTTTACAATTCCATACAACATTTATGATCAGGTTCAGATCCAGTACGATATACCTAAGTATGATCCTCTGTCACACAAAATTGGAACTCTTGCAGCAATACTTTGTGCCTCCAACCAAAGATGCAAAGGGCTCGAGTATTCTGTGAATTCCTTCACAATCAAGAAAAGGAAGGGTGTGCCACAATCACTTCGTGCACTTGCTCGGGTTCTTTCTTGTACCACTCTTCAGGAGCTTAACCATTTGGTCACGGAGGCTGCACAAACTGATGGTAGGCTGGCTAGGCGCCCTTTACAGGATATGAACAAAGAGATACAAGCACACAAGATGTTGTCCTCATTATTCATCCAATTAATTGCGGAGCATAATGCAGCTATTATGTCATTAGATTCTTGCGATTCTTCAACCTCGAGTGAAAGACTTCCTGTTAGAAGGCAATGGCTCGAGATCTCTTGCAATGAGCTTCACATTCTCAAATCTGCTTCTACCTGGCTGGAGAACTACTGTTTTTCCTTGACTTGA
Protein sequence

>MsaT005901.1

MPLYDRTLNGILMSAVFPRKPRCIIRQIFWNESELEMIRQSSVYQETIYQKSQIEKDFLAIKPVFQSFCQSFGDFTWKDFMHACALVGSRAWGSTKGLSLIAFADFLNHDGTSEAIVMSDDDNKCSEVISDRDYVPGEQVLIRYGKFSNATLMLDFGFTIPYNIYDQVQIQYDIPKYDPLSHKIGTLAAILCASNQRCKGLEYSVNSFTIKKRKGVPQSLRALARVLSCTTLQELNHLVTEAAQTDGRLARRPLQDMNKEIQAHKMLSSLFIQLIAEHNAAIMSLDSCDSSTSSERLPVRRQWLEISCNELHILKSASTWLENYCFSLT*